Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 319 of 349
Found at i:106583241 original size:21 final size:21
Alignment explanation
Indices: 106583217--106583281 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
106583207 AAGTCTAGCT
*
106583217 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
106583238 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
* *
106583256 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
106583277 GAAGC
1 GAAGC
106583282 CCGAAGGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:106583261 original size:39 final size:39
Alignment explanation
Indices: 106583199--106583299 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
106583189 ATCGTGATTT
* * * *
106583199 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
*
106583238 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
106583277 GAAGCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
106583300 TCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
Found at i:106584805 original size:26 final size:24
Alignment explanation
Indices: 106584764--106584811 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
106584754 AGTTGTATCA
*
106584764 AAAAATAATAACATATACCATAGT
1 AAAAATAATAAAATATACCATAGT
*
106584788 AAAAATAAATTAAAATATGCCATA
1 AAAAAT-AA-TAAAATATACCATA
106584812 TACGTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAATAATAAAATATACCATAGT
Found at i:106586125 original size:180 final size:180
Alignment explanation
Indices: 106585828--106586802 Score: 1459
Period size: 180 Copynumber: 5.5 Consensus size: 180
106585818 AGATGAGATT
* * * ** * *
106585828 AAATCTGCTCTATTGCCGATACATGGAAATAAAATT--CCAT-T-TTCA-ATCTGTTCCGTTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* * * *
106585888 ACTTCATGGAGACAAAATCTTCAGTTCTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
106585953 ATTCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
106586003 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* *
106586068 ACTTAAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCAACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * * ** * *
106586133 ATTTTTCAACCTGTTCTCCTGCTATTTTAGAGAGATAAGGC-T--TAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
*
106586180 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
*
106586245 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
106586310 ATTCTTCATCCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
106586360 AAATCTGCTCCATTGCTGATACATAGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* *
106586425 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAACATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
106586490 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTT-GTAGTG
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* * * * ** *
106586539 AAATCTGCTCCATTGCCGATATATGAAGATAAGATT--CCATCTGCGAGGATCTATTCCACTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* * *
106586602 ACTTCAGGGAAATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAAGATAAAACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
106586667 ATTCTTCAACCTGCTCCCTTGCTACTTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
106586717 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCACTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
106586782 ACTTCAGGGAGATAAAATCTT
66 ACTTCAGGGAGATAAAATCTT
106586803 TAATCTTAAC
Statistics
Matches: 721, Mismatches: 68, Indels: 17
0.89 0.08 0.02
Matches are distributed among these distances:
175 32 0.04
177 290 0.40
178 41 0.06
179 40 0.06
180 318 0.44
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (180 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
Found at i:106586581 original size:357 final size:355
Alignment explanation
Indices: 106585828--106586802 Score: 1490
Period size: 357 Copynumber: 2.7 Consensus size: 355
106585818 AGATGAGATT
* * ** *
106585828 AAATCTGCTCTATTGCCGATACATGGAA-ATAAAATTCCAT-T-TTCA-ATCTGTTCCGTTGCAA
1 AAATCTGCTCCATTGCCGATACAT-GAAGATAAGATTCCATCTGTGAAGATCTGTTCCGCTGCAA
* * * *
106585889 CTTCATGGAGACAAAATCTTCAGTTCTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTCA
65 CTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCA
**
106585954 TTCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGC
130 TTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGC
* * *
106586019 CAATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCAACTTAAGGGAGATAAA
195 CGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAA
* * * *
106586084 ATCTTCAATTCTCAGTCTGCTTCCTTGCAACCTCAGGAAGATAAGACTCATTTTTCAACCTGTTC
260 ATCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAACATAAGACTCATTCTTCAACCTGCTC
** *
106586149 TCCTGCTATTTTAGAGAGATAAGGCTTAGTA
325 TCCTGCTACCTCAGAGAGATAAGGCTTAGTA
* * *
106586180 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGAAGATAAGATT--CCATCTGTGAAGATCTGTTCCGCTGCA
*
106586245 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTC
64 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
106586310 ATTCTTCATCCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
129 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
* *
106586375 CTGATACATAGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
194 CCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
*
106586440 AATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAACATAAGACTCATTCTTCAACCTGCT
259 AATCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAACATAAGACTCATTCTTCAACCTGCT
* * *
106586505 CTCTTGCTACCTCAGAGAGATGAGGCTTGTAGTG
324 CTCCTGCTACCTCAGAGAGATAAGGC-T-TAGTA
* * * * *
106586539 AAATCTGCTCCATTGCCGATATATGAAGATAAGATTCCATCTGCGAGGATCTATTCCACTGCAAC
1 AAATCTGCTCCATTGCCGATACATGAAGATAAGATTCCATCTGTGAAGATCTGTTCCGCTGCAAC
* * *
106586604 TTCAGGGAAATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAAGATAAAACTCAT
66 TTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT
*
106586669 TCTTCAACCTGCTCCCTTGCTACTTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
131 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
* *
106586734 GATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCACTGCAACTTCAGGGAGATAAAA
196 GATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAA
106586799 TCTT
261 TCTT
106586803 TAATCTTAAC
Statistics
Matches: 565, Mismatches: 50, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
351 2 0.00
352 29 0.05
354 4 0.01
355 1 0.00
356 2 0.00
357 489 0.87
358 1 0.00
359 37 0.07
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (355 bp):
AAATCTGCTCCATTGCCGATACATGAAGATAAGATTCCATCTGTGAAGATCTGTTCCGCTGCAAC
TTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT
TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
GATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAA
TCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAACATAAGACTCATTCTTCAACCTGCTCT
CCTGCTACCTCAGAGAGATAAGGCTTAGTA
Found at i:106598152 original size:26 final size:25
Alignment explanation
Indices: 106598110--106598166 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
106598100 CAAAGCTTGT
* *
106598110 TTTTTCTTATATTATGTACTT-TAAA
1 TTTTTATTATATCATGTA-TTCTAAA
*
106598135 TTTTTATTATCATCATGTATTCTAAG
1 TTTTTATTAT-ATCATGTATTCTAAA
106598161 TTTTTA
1 TTTTTA
106598167 CATATTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTTTATTATATCATGTATTCTAAA
Found at i:106603977 original size:21 final size:21
Alignment explanation
Indices: 106603953--106604017 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
106603943 AAGTCTAGCT
*
106603953 GAAGCACATAAGTGTTAAACG
1 GAAGCACACAAGTGTTAAACG
* *
106603974 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGTTAAACG
*
106603992 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGTTAAACG
106604013 GAAGC
1 GAAGC
106604018 CCGAAGGCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
18 7 0.22
19 6 0.19
20 7 0.22
21 12 0.38
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACACAAGTGTTAAACG
Found at i:106603997 original size:39 final size:39
Alignment explanation
Indices: 106603935--106604035 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
106603925 ATCATGATTT
* * * *
106603935 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
106603974 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
106604013 GAAGCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
106604036 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
Found at i:106605542 original size:26 final size:24
Alignment explanation
Indices: 106605501--106605548 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
106605491 AGTTATATGA
*
106605501 AAAAATAATAACATATACCATAGT
1 AAAAATAATAAAATATACCATAGT
*
106605525 AAAAATAAATTAAAATATGCCATA
1 AAAAAT-AA-TAAAATATACCATA
106605549 TACGTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAATAATAAAATATACCATAGT
Found at i:106610764 original size:13 final size:13
Alignment explanation
Indices: 106610746--106610770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106610736 TGATATTTCC
106610746 AGAAGAAGAAAGA
1 AGAAGAAGAAAGA
106610759 AGAAGAAGAAAG
1 AGAAGAAGAAAG
106610771 TAAAACTGTG
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAAGA
Found at i:106615882 original size:24 final size:25
Alignment explanation
Indices: 106615831--106615893 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
106615821 ATAGATATAA
* *
106615831 AAAAATATATATACATAATAAGTGT
1 AAAAATATACATACATAATAAATGT
106615856 AAAAA-ATACATACATAATATAAT-T
1 AAAAATATACATACATAATA-AATGT
106615880 AAAATATATACATA
1 AAAA-ATATACATA
106615894 AGATAACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 18 0.55
25 8 0.24
26 7 0.21
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.30
Consensus pattern (25 bp):
AAAAATATACATACATAATAAATGT
Found at i:106615890 original size:22 final size:22
Alignment explanation
Indices: 106615858--106615899 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
106615848 ATAAGTGTAA
*
106615858 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
106615880 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
106615900 CATGTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:106615910 original size:27 final size:28
Alignment explanation
Indices: 106615880--106615951 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
106615870 TAATATAATT
106615880 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * * *
106615907 AAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
106615935 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
106615952 ATAGTATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 3 0.09
29 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:106615965 original size:23 final size:25
Alignment explanation
Indices: 106615837--106615978 Score: 80
Period size: 25 Copynumber: 5.7 Consensus size: 25
106615827 ATAAAAAAAT
* * *
106615837 ATATATACATAATA-AGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
106615861 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
106615883 ATATATACATAAGATAACATGTAGAAAAAAA
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
106615914 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
106615939 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
*
106615962 ATATATACGTAATATAG
1 ATATATACATAATATAG
106615979 AATTTAGAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
22 9 0.10
23 22 0.24
24 16 0.18
25 24 0.26
27 2 0.02
28 2 0.02
29 2 0.02
30 5 0.05
31 9 0.10
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:106616373 original size:16 final size:16
Alignment explanation
Indices: 106616335--106616373 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
106616325 CTCCAAAAAA
*
106616335 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
106616351 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
106616367 AATAACT
1 AAAAACT
106616374 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:106616559 original size:18 final size:18
Alignment explanation
Indices: 106616536--106616589 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
106616526 GCAAGTGGTG
106616536 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
106616554 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
106616566 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
106616584 GTGGAG
1 GTGGAG
106616590 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:106616568 original size:30 final size:30
Alignment explanation
Indices: 106616532--106616599 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
106616522 AGGTGCAAGT
106616532 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
106616562 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
106616592 GGTGGTGG
1 GGTGGTGG
106616600 CAAAGGCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.06, G:0.53, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:106617112 original size:21 final size:21
Alignment explanation
Indices: 106617083--106617122 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
106617073 ATCATCGATC
106617083 AGCTCCACTGCAACTTCAATT
1 AGCTCCACTGCAACTTCAATT
* *
106617104 AGCTTCACTGTAACTTCAA
1 AGCTCCACTGCAACTTCAA
106617123 GGATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (21 bp):
AGCTCCACTGCAACTTCAATT
Found at i:106617501 original size:104 final size:104
Alignment explanation
Indices: 106617310--106617504 Score: 266
Period size: 104 Copynumber: 1.9 Consensus size: 104
106617300 GTTGATTTTT
* **
106617310 AATACATCGGTATGTGACCCGAGGCTCAACTCACCTCTCATAATATGAGTTGATTTTTGCAAAGC
1 AATACATCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGCAAAAA
106617375 ATAAATTGAAAAAAAAAATAAAAATAAAAATCAATTGAA
66 ATAAATTGAAAAAAAAAATAAAAATAAAAATCAATTGAA
* * * * * **
106617414 AATACCTCGGTGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAA
1 AATACATCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGCAA-AA
* *
106617479 AATAAATTG-AAAAGAAATTAAAAATA
65 AATAAATTGAAAAAAAAAATAAAAATA
106617505 TCTCAGCGTG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 69 0.88
105 9 0.12
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (104 bp):
AATACATCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGCAAAAA
ATAAATTGAAAAAAAAAATAAAAATAAAAATCAATTGAA
Found at i:106618047 original size:73 final size:72
Alignment explanation
Indices: 106617491--106618049 Score: 498
Period size: 75 Copynumber: 7.5 Consensus size: 72
106617481 TAAATTGAAA
* * * * * * *
106617491 AGAAATTAAAAATATCTCAGCGTGTCCTGAGGTTGAACTCAGCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
106617556 TTGAAAAAAC
65 TTG--AAAAC
* * ** * *
106617566 A-AAATTTGAAAATACCTCAGCGTGTGAGTCAAGACTCAACTCACCACTCGCAATATGAGCTAAT
1 AGAAA-TTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAG----T
**
106617630 TTTTTTTTGAAACAC
59 TGATTTTTGAAA-AC
* * * ** * **
106617645 AGAAATGGAAAACACATC-A-GCATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTAATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG-T--TGAT
106617708 TTTTGAAAGAC
63 TTTTGAAA-AC
* *
106617719 AGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
106617784 TGACAAAC
66 TGA-AAAC
* * * * *
106617792 AAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
106617855 TTTGAAAAAC
64 TTTG-AAAAC
* * * * *
106617865 AGAAATTGAAAACACCTCAACGTATCTTGAGGTTCAACTAACCTCTCGCAATATGAGCTGATTTC
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-
* *
106617930 TTTTAAAGAT
64 TTTGAAA-AC
106617940 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
106618005 TGACAAAC
66 TGA-AAAC
* * ** *
106618013 AAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAA
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
106618050 GTTAATTTTT
Statistics
Matches: 397, Mismatches: 65, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
71 35 0.09
72 2 0.01
73 88 0.22
74 46 0.12
75 142 0.36
76 32 0.08
77 25 0.06
78 3 0.01
79 13 0.03
80 9 0.02
81 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAAC
Found at i:106618170 original size:129 final size:129
Alignment explanation
Indices: 106617940--106618178 Score: 433
Period size: 129 Copynumber: 1.9 Consensus size: 129
106617930 TTTTAAAGAT
* *
106617940 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTT
*
106618005 TGACAAACAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAAGTTAATTTTTTTGAAAAAC
66 TGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAGTTAATTTTTTTGAAAAAC
* *
106618069 AGAAATTGAAAATACCTCAACGTGACTTGAGGTTCAACTCACCTCTTGCAATATGAGTTGAGTTT
1 AGAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTT
106618134 TGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
66 TGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
106618179 CTCACTTCTC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 105 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (129 bp):
AGAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTT
TGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAGTTAATTTTTTTGAAAAAC
Found at i:106618179 original size:73 final size:73
Alignment explanation
Indices: 106618058--106618207 Score: 210
Period size: 73 Copynumber: 2.1 Consensus size: 73
106618048 AAGTTAATTT
* * * *
106618058 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGACTTGAGGTTCAACTCACCTCTTGCAATAT
1 TTTTGAAAAACAAAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
106618123 GAGTTGAG
66 GAGTTGAG
* * * * *
106618131 TTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATAT
1 TTTTGAAAAACAAAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
106618196 GAGTTGAT
66 GAGTTGAG
106618204 TTTT
1 TTTT
106618208 TTAGAAACAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (73 bp):
TTTTGAAAAACAAAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGAG
Found at i:106618443 original size:13 final size:13
Alignment explanation
Indices: 106618397--106618441 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
106618387 TTGATTTTTG
106618397 AAAAACAGAAATT
1 AAAAACAGAAATT
106618410 AAAAACAGAAATT
1 AAAAACAGAAATT
*
106618423 GAAAAATAGAAATT
1 -AAAAACAGAAATT
106618437 AAAAA
1 AAAAA
106618442 TACCTCGACG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:106618462 original size:100 final size:101
Alignment explanation
Indices: 106618225--106618529 Score: 429
Period size: 100 Copynumber: 3.0 Consensus size: 101
106618215 CATAAATTTA
*
106618225 AAAAAC-GAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
* * ** *
106618289 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAACAGAAATTG
*
106618324 AAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTTGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
*
106618389 GATTTTTGAAAAACAGAAATT-AAAAACAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAACAGAAATTG
* * * * * *
106618424 AAAAATAGAAATTAAAAATACCTCGACGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
*
106618489 GATTTTTGAAAAGCATAAATTGAAAAAACAGAAATTG
66 GATTTTTGAAAAGCAGAAATTG-AAAAACAGAAATTG
106618526 AAAA
1 AAAA
106618530 TACCTCAGCG
Statistics
Matches: 184, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
99 63 0.34
100 88 0.48
101 15 0.08
102 18 0.10
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAACAGAAATTG
Found at i:106620256 original size:27 final size:27
Alignment explanation
Indices: 106620226--106620307 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
106620216 AAATGATTTC
106620226 CTTTTTCAAAAATCTGCAAACTGCAGT
1 CTTTTTCAAAAATCTGCAAACTGCAGT
* * * * *
106620253 CTTTGTCACATATCGGCAAACGAAGCAG-
1 CTTTTTCAAAAATCTGCAAAC--TGCAGT
*
106620281 CTTTTTC-AAAA-CTGCAAACTCCAGT
1 CTTTTTCAAAAATCTGCAAACTGCAGT
106620306 CT
1 CT
106620308 CTTGTCACAT
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
24 3 0.07
25 2 0.05
26 7 0.17
27 19 0.46
28 6 0.15
29 4 0.10
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
CTTTTTCAAAAATCTGCAAACTGCAGT
Found at i:106620334 original size:52 final size:55
Alignment explanation
Indices: 106620226--106620335 Score: 165
Period size: 52 Copynumber: 2.1 Consensus size: 55
106620216 AAATGATTTC
*
106620226 CTTTTTCAAAAATCTGCAAACTGCAGTCTTTGTCACATATCGGCAAACGAAGCAG
1 CTTTTTCAAAAATCTGCAAACTCCAGTCTTTGTCACATATCGGCAAACGAAGCAG
*
106620281 CTTTTTC-AAAA-CTGCAAACTCCAGTCTCTTGTCACAT-T-GGCAAACGTAGCAG
1 CTTTTTCAAAAATCTGCAAACTCCAGTCT-TTGTCACATATCGGCAAACGAAGCAG
106620333 CTT
1 CTT
106620336 CTATCCATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
52 16 0.31
53 16 0.31
54 13 0.25
55 7 0.13
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (55 bp):
CTTTTTCAAAAATCTGCAAACTCCAGTCTTTGTCACATATCGGCAAACGAAGCAG
Found at i:106630672 original size:25 final size:23
Alignment explanation
Indices: 106630620--106630674 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
106630610 TATAAATAGT
106630620 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
106630643 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
106630668 AATAGTG
1 AATAGTG
106630675 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:106630755 original size:22 final size:22
Alignment explanation
Indices: 106630730--106630804 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
106630720 TATGAAATAG
*
106630730 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
106630752 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
106630777 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
106630799 ATATAA
1 ATATAA
106630805 CATGTAGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 24 0.56
25 19 0.44
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:106630774 original size:25 final size:24
Alignment explanation
Indices: 106630736--106630943 Score: 99
Period size: 25 Copynumber: 8.4 Consensus size: 24
106630726 ATAGATATAA
* *
106630736 AAAAAATATGTACATAATATAGTGT
1 AAAAAATATATACATAATATAAT-T
*
106630761 AAAAAATACATACATAATATAATT
1 AAAAAATATATACATAATATAATT
106630785 --AAAATATATACATAATATAACATGT
1 AAAAAATATATACATAATAT-A-AT-T
* *
106630810 AGAAAAAAAAATATAAATAATATAGTATT
1 ---AAAAAATATATACATAATATA--ATT
* * *
106630839 -AAAGATATATACATAAAAT-AGT
1 AAAAAATATATACATAATATAATT
* * *
106630861 ATAATATATATACGTAATATAGAATT
1 AAAAAATATATACATAATAT--AATT
* * *
106630887 --TAGA-ATATACCTAATAT-ATT
1 AAAAAATATATACATAATATAATT
*
106630907 AAAAGAATATATATATAATATAATATT
1 AAAA-AATATATACATAATAT-A-ATT
106630934 AAAAAATATA
1 AAAAAATATA
106630944 ATAATAACAA
Statistics
Matches: 139, Mismatches: 24, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
20 3 0.02
22 20 0.14
23 29 0.21
24 16 0.12
25 36 0.26
26 8 0.06
27 7 0.05
29 2 0.01
30 18 0.13
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAAATATATACATAATATAATT
Found at i:106630834 original size:77 final size:79
Alignment explanation
Indices: 106630734--106630881 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 79
106630724 AAATAGATAT
* * * *
106630734 AAAAAAAATATGTACATAATATAGTGTAAAAAATACATACATAATATAAT-TAAAATATATACAT
1 AAAAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATATATACAT
106630798 AATATAACATGTAG
66 AATATAACATGTAG
* * * * * *
106630812 AAAAAAAA-ATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATAATATATATACGT
1 AAAAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATATATACAT
106630876 AATATA
66 AATATA
106630882 GAATTTAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
77 33 0.56
78 26 0.44
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (79 bp):
AAAAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATATATACAT
AATATAACATGTAG
Found at i:106630869 original size:23 final size:25
Alignment explanation
Indices: 106630741--106630949 Score: 107
Period size: 23 Copynumber: 8.6 Consensus size: 25
106630731 TATAAAAAAA
* * * *
106630741 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
106630766 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
** *
106630788 ATATATACATAATATAACATGTAGAAAAAA
1 ATATATACATAATAT---A-GTA-TTAAAG
* *
106630818 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
106630843 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
106630866 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
106630890 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
106630912 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
*
106630937 AAATATA-ATAATA
1 ATATATACATAATA
106630950 ACAAAAAAAA
Statistics
Matches: 141, Mismatches: 29, Indels: 30
0.70 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 16 0.11
23 42 0.30
24 22 0.16
25 35 0.25
26 7 0.05
27 1 0.01
28 1 0.01
29 3 0.02
30 13 0.09
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:106631454 original size:30 final size:30
Alignment explanation
Indices: 106631420--106631509 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
106631410 GTGGTGGTAA
*
106631420 AGCAAGTGTGGCTAATGGAGTAGGTGGTGG
1 AGCAAGTGTGGCTAGTGGAGTAGGTGGTGG
* * * *
106631450 AGCAAGTGTGGGTAGTGAAATAGGTGGTAG
1 AGCAAGTGTGGCTAGTGGAGTAGGTGGTGG
*
106631480 AGCAAGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGCAAGTGTGGCTAGTGGAGTAGGTGGTGG
106631510 CAAAAGATAG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.23, C:0.06, G:0.47, T:0.24
Consensus pattern (30 bp):
AGCAAGTGTGGCTAGTGGAGTAGGTGGTGG
Found at i:106638705 original size:29 final size:29
Alignment explanation
Indices: 106638672--106638729 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
106638662 AAGGTTTTCA
106638672 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
1 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
106638701 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
1 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
106638730 TTACCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (29 bp):
AGCTTTTAGTTTCATTTTCAAGTAAGTCG
Found at i:106645675 original size:24 final size:25
Alignment explanation
Indices: 106645648--106645694 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
106645638 AATTATAGGG
106645648 TAAAATT-AAAATAAATAAACAATA
1 TAAAATTGAAAATAAATAAACAATA
*
106645672 TAAAATTGAAATTAAATAAACAA
1 TAAAATTGAAAATAAATAAACAA
106645695 AGGATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (25 bp):
TAAAATTGAAAATAAATAAACAATA
Found at i:106645908 original size:311 final size:310
Alignment explanation
Indices: 106645345--106645977 Score: 1022
Period size: 311 Copynumber: 2.0 Consensus size: 310
106645335 ATAAATAAAT
*
106645345 AAATAAATAAACAATATAAAATTGAAATTAAATAGACAGGATTTAATTGAAATCTAAACGAAATT
1 AAATAAATAAACAATATAAAATTGAAATTAAATAAACAGGATTTAATTGAAATCTAAACGAAATT
*
106645410 AGGGGGTCATAAATTGCAAAAATAATAAAAAATAGATTGATAAGGATCAATGTGCAACGCGCTAA
66 AGGGGGTCATAAATTGC-AAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTAA
* *
106645475 AAAGGATAGGGATCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACTA
130 AAAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACTA
* * * *
106645540 AAATATAGCACACGTGAAAGTGCGAGGACCAATTGGGAAATTATTTCTTGTCCCCAAAACGAAGT
195 AAATATAGCACACGTGAAAGTGCGAGGACCAACTGGAAAATTATTCCCTGTCCCCAAAACGAAGT
* ** * *
106645605 TGTT-CCTCATTGTGTTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
260 CGTTCCCT-AGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
* *
106645656 AAATAAATAAACAATATAAAATTGAAATTAAATAAACAAAGGATTTAATTGAAATTTAAATGAAA
1 AAATAAATAAACAATATAAAATTGAAATTAAATAAAC--AGGATTTAATTGAAATCTAAACGAAA
106645721 TTAGGGGGTCATAAATTGC-AAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTA
64 TTAGGGGGTCATAAATTGCAAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTA
*
106645785 AAAAAGATAGGGACCGAATAGGAAAATATTTCTTGTCTTTATGTACACCATTTCCCAAAAGGACT
129 AAAAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACT
* *
106645850 AAAATATAGCACACGTGAAAGTGC-AGGGACTAACTGGAAAATTATTCCCTGTCCCCAAAATGAA
194 AAAATATAGCACACGTGAAAGTGCGA-GGACCAACTGGAAAATTATTCCCTGTCCCCAAAACGAA
106645914 GTCGTTCCCTAGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
258 GTCGTTCCCTAGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
*
106645967 AAAGAAA-AAAC
1 AAATAAATAAAC
106645978 GAAATATGAC
Statistics
Matches: 299, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
310 5 0.02
311 248 0.83
312 3 0.01
313 43 0.14
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (310 bp):
AAATAAATAAACAATATAAAATTGAAATTAAATAAACAGGATTTAATTGAAATCTAAACGAAATT
AGGGGGTCATAAATTGCAAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTAAA
AAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACTAA
AATATAGCACACGTGAAAGTGCGAGGACCAACTGGAAAATTATTCCCTGTCCCCAAAACGAAGTC
GTTCCCTAGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
Found at i:106652084 original size:43 final size:42
Alignment explanation
Indices: 106651944--106652087 Score: 182
Period size: 43 Copynumber: 3.4 Consensus size: 42
106651934 TTTATGTAAG
* *
106651944 AAAATGCCGCTAAAGAACGTGACCTTTAGCTGCGCTTTTTGT
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGT
* *
106651986 AAAAACACCACTAAAGAACGTGACCTTTAGCGGCGCTTTTTGT
1 -AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGT
* *
106652029 ACAAATGCCGCTAAAGAACTTGACCTTTAGCGGCGCTTTTCT-T
1 A-AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT-TGT
*
106652072 CAAAACGTCGCTAAAG
1 -AAAACGCCGCTAAAG
106652088 GTTACGTTCT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.97
44 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGT
Found at i:106652530 original size:21 final size:21
Alignment explanation
Indices: 106652506--106652545 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
106652496 CTTCCCTCGC
*
106652506 TGCTGCCTCCTCTTTAAGTGA
1 TGCTGCCTCCGCTTTAAGTGA
106652527 TGCTGCCTCCGCTTTAAGT
1 TGCTGCCTCCGCTTTAAGT
106652546 TAAGCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (21 bp):
TGCTGCCTCCGCTTTAAGTGA
Found at i:106652938 original size:13 final size:14
Alignment explanation
Indices: 106652912--106652940 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
106652902 ACTAACGACA
106652912 AATTAAACCATTAT
1 AATTAAACCATTAT
106652926 AATTAAA-CATTAT
1 AATTAAACCATTAT
106652939 AA
1 AA
106652941 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:106655929 original size:16 final size:17
Alignment explanation
Indices: 106655910--106655944 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
106655900 ATTATTTAAT
106655910 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
106655926 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
106655943 AT
1 AT
106655945 CAGTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:106656075 original size:16 final size:16
Alignment explanation
Indices: 106656054--106656107 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
106656044 AGAATTAGAT
106656054 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
106656070 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
106656080 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
106656096 AAAATTTGAAAT
1 AAAATTTGAAAT
106656108 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:106656300 original size:7 final size:7
Alignment explanation
Indices: 106656288--106656434 Score: 91
Period size: 7 Copynumber: 20.4 Consensus size: 7
106656278 TCTAATTCTA
106656288 AAACCAT
1 AAACCAT
106656295 AAACCAT
1 AAACCAT
106656302 AAACCAT
1 AAACCAT
*
106656309 AAATCAT
1 AAACCAT
*
106656316 AAATCCTT
1 AAA-CCAT
*
106656324 AAACCTT
1 AAACCAT
106656331 AAAATCC-T
1 -AAA-CCAT
**
106656339 AAACCCC
1 AAACCAT
* *
106656346 AACCCTT
1 AAACCAT
106656353 AAACCAT
1 AAACCAT
106656360 AAACCAT
1 AAACCAT
*
106656367 AATTCC-T
1 AA-ACCAT
106656374 AAACCCAT
1 AAA-CCAT
*
106656382 AATCCAT
1 AAACCAT
*
106656389 AATCCAT
1 AAACCAT
*
106656396 AAACCTT
1 AAACCAT
**
106656403 AAAATAT
1 AAACCAT
*
106656410 TAACTCAT
1 AAAC-CAT
106656418 AAACCAT
1 AAACCAT
*
106656425 AAACCCT
1 AAACCAT
106656432 AAA
1 AAA
106656435 AGATATGCCC
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 2 0.02
7 87 0.79
8 19 0.17
9 2 0.02
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCAT
Found at i:106656311 original size:22 final size:21
Alignment explanation
Indices: 106656288--106656434 Score: 91
Period size: 22 Copynumber: 6.8 Consensus size: 21
106656278 TCTAATTCTA
106656288 AAACCATAAACCATAAACCAT
1 AAACCATAAACCATAAACCAT
* * *
106656309 AAATCATAAATCCTTAAACCTT
1 AAACCATAAA-CCATAAACCAT
** * *
106656331 AAAATCC-TAAACCCCAACCCTT
1 -AAA-CCATAAACCATAAACCAT
*
106656353 AAACCATAAACCATAATTCC-T
1 AAACCATAAACCATAA-ACCAT
* *
106656374 AAACCCATAATCCATAATCCAT
1 AAA-CCATAAACCATAAACCAT
* ** *
106656396 AAACCTTAAAATATTAACTCAT
1 AAACCATAAACCATAAAC-CAT
*
106656418 AAACCATAAACCCTAAA
1 AAACCATAAACCATAAA
106656435 AGATATGCCC
Statistics
Matches: 96, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.02
21 36 0.38
22 50 0.52
23 7 0.07
24 1 0.01
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCATAAACCATAAACCAT
Found at i:106656318 original size:29 final size:29
Alignment explanation
Indices: 106656285--106656435 Score: 103
Period size: 29 Copynumber: 5.2 Consensus size: 29
106656275 ACCTCTAATT
106656285 CTAAAACCATAAACCATAAACCATAAATC
1 CTAAAACCATAAACCATAAACCATAAATC
* * * *
106656314 ATAAATCCTTAAACCTTAAAATCC-TAAA-C
1 CTAAAACCATAAACCAT-AAA-CCATAAATC
** * * *
106656343 CCCAACCCTTAAACCATAAACCATAATTC
1 CTAAAACCATAAACCATAAACCATAAATC
* * *
106656372 CTAAACCCATAATCCATAATCCATAAA-C
1 CTAAAACCATAAACCATAAACCATAAATC
* * *
106656400 CTTAAAA-TATTAACTCATAAACCATAAACC
1 C-TAAAACCATAAAC-CATAAACCATAAATC
106656430 CTAAAA
1 CTAAAA
106656436 GATATGCCCT
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
27 2 0.02
28 12 0.13
29 69 0.73
30 9 0.10
31 2 0.02
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (29 bp):
CTAAAACCATAAACCATAAACCATAAATC
Found at i:106656462 original size:14 final size:14
Alignment explanation
Indices: 106656393--106656462 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
106656383 ATCCATAATC
*
106656393 CATAAACCTTAAAA
1 CATAAACCCTAAAA
* * * *
106656407 TATTAACTCATAAAC
1 CATAAAC-CCTAAAA
106656422 CATAAACCCTAAAA
1 CATAAACCCTAAAA
* **
106656436 GATATGCCCTAAAA
1 CATAAACCCTAAAA
*
106656450 CATAAACCTTAAA
1 CATAAACCCTAAA
106656463 CTATAATGAT
Statistics
Matches: 40, Mismatches: 15, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
14 30 0.75
15 10 0.25
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (14 bp):
CATAAACCCTAAAA
Found at i:106656613 original size:29 final size:28
Alignment explanation
Indices: 106656579--106656643 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 28
106656569 AGCTTTAAAA
106656579 TTATTTTAA-ATAATAGTATTTTAAAT-TTT
1 TTATTTTAACAT-ATA-T-TTTTAAATGTTT
*
106656608 TTATTTTTAACATATATTTTTATATGTTT
1 TTA-TTTTAACATATATTTTTAAATGTTT
106656637 TTATTTT
1 TTATTTT
106656644 CAATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 11 0.34
29 10 0.31
30 9 0.28
31 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTATTTTAACATATATTTTTAAATGTTT
Found at i:106656973 original size:115 final size:116
Alignment explanation
Indices: 106656764--106657010 Score: 372
Period size: 115 Copynumber: 2.1 Consensus size: 116
106656754 TAAAAGGTTT
* * *
106656764 TTTGCGGCGTTTTTTGACAAAGCGCCACTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGCGC
1 TTTGCGGCGTTTTTTGAAAAAACGCCACTAAAGCTCGATCTATAGCAGCATTTTTCAAAAAGCGC
*
106656829 CGCTAATGCCATTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
66 CGCTAATGCCACTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
* *
106656880 TTTGCGGCGTTTTTT-AAAAAACGCCATTAATGCTCGATCTATAG-AGACATTTTTCAAAAAGCG
1 TTTGCGGCGTTTTTTGAAAAAACGCCACTAAAGCTCGATCTATAGCAG-CATTTTTCAAAAAGCG
* * * *
106656943 CCGCTAATGTCACTAATGCTCAACAAAAAACGACGGTGTGTTGATGAATTAT
65 CCGCTAATGCCACTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
*
106656995 TTTGCGGCGTTGTTTG
1 TTTGCGGCGTTTTTTG
106657011 CTTGATCAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
114 2 0.02
115 101 0.86
116 15 0.13
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (116 bp):
TTTGCGGCGTTTTTTGAAAAAACGCCACTAAAGCTCGATCTATAGCAGCATTTTTCAAAAAGCGC
CGCTAATGCCACTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
Found at i:106657980 original size:19 final size:20
Alignment explanation
Indices: 106657956--106657995 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
106657946 GTATTCATTA
106657956 TATTA-TTATCGTT-TTATTT
1 TATTATTTAT-GTTGTTATTT
106657975 TATTATTTATGTTGTTATTT
1 TATTATTTATGTTGTTATTT
106657995 T
1 T
106657996 GTTAATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (20 bp):
TATTATTTATGTTGTTATTT
Found at i:106660683 original size:20 final size:20
Alignment explanation
Indices: 106660660--106660721 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
106660650 TAATTAAAAA
106660660 ATAAATGGTTAAATTATACC
1 ATAAATGGTTAAATTATACC
**
106660680 ATAAATTTTTTAAA--A-A--
1 ATAAA-TGGTTAAATTATACC
106660696 ATAAATGGTTAAATTATACC
1 ATAAATGGTTAAATTATACC
106660716 ATAAAT
1 ATAAAT
106660722 TTTTATATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 1 0.03
18 2 0.06
19 1 0.03
20 11 0.34
21 6 0.19
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (20 bp):
ATAAATGGTTAAATTATACC
Found at i:106660693 original size:36 final size:36
Alignment explanation
Indices: 106660653--106660725 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
106660643 TTAATCCTAA
106660653 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
1 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
106660689 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
1 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
106660725 T
1 T
106660726 ATATTCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (36 bp):
TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
Found at i:106661047 original size:7 final size:7
Alignment explanation
Indices: 106661035--106661059 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
106661025 ATACTAAAAC
106661035 TAAATTT
1 TAAATTT
106661042 TAAATTT
1 TAAATTT
106661049 TAAATTT
1 TAAATTT
106661056 TAAA
1 TAAA
106661060 AAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:106670560 original size:90 final size:90
Alignment explanation
Indices: 106670428--106670688 Score: 267
Period size: 90 Copynumber: 2.9 Consensus size: 90
106670418 CGGAAATTGT
* * *
106670428 AGGTTAATATGCTAACAAATGGTTGTGAATGCGCAACT-TATTTGCAAATGAA-AGCTGCCA-AA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAA-TGTATTTGCAAAT-AAGAGCTGCCAGAA
*
106670490 ATGTGGGTGGATGAACCAACAATGTTGC
64 A-ATGGGTGGATGAACCAACAATGTTGC
* * * * *
106670518 AGGTTAATATGCGGCCAGATGGTTGTGAATGCACAATGTATTTGTAGATAAGAGCTGCTAGAAAA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATGTATTTGCAAATAAGAGCTGCCAGAAAA
* *
106670583 TGGGTGGATGAACCACCAGTGTTGC
66 TGGGTGGATGAACCAACAATGTTGC
* * * * * * * *
106670608 AGGTTAATATACTGTCAGATGGTTGTGAATGAACAACGTATTTGTAGATAAGATCTGTCAAGAAA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATGTATTTGCAAATAAGAGCTG-CCAGAAA
** *
106670673 ATCTGTGGATGTACCA
65 ATGGGTGGATGAACCA
106670689 CCAGAGTTGC
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
89 3 0.02
90 121 0.83
91 22 0.15
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (90 bp):
AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATGTATTTGCAAATAAGAGCTGCCAGAAAA
TGGGTGGATGAACCAACAATGTTGC
Found at i:106670713 original size:91 final size:90
Alignment explanation
Indices: 106670495--106670715 Score: 255
Period size: 90 Copynumber: 2.4 Consensus size: 90
106670485 CCAAAATGTG
* * ** * * * *
106670495 GGTGGATGAACCAACA-ATGTTGCAGGTTAATATGCGGCCAGATGGTTGTGAATGCACAATGTAT
1 GGTGGATGAACCACCAGA-GTTGCAGATTAATAAACTGTCAGATGGTTGTGAATGAACAACGTAT
* *
106670559 TTGTAGATAAGAGCTGCTAGAAAATG
65 TTGTAGATAAGAGCTGCAAGAAAATC
* * *
106670585 GGTGGATGAACCACCAGTGTTGCAGGTTAATATACTGTCAGATGGTTGTGAATGAACAACGTATT
1 GGTGGATGAACCACCAGAGTTGCAGATTAATAAACTGTCAGATGGTTGTGAATGAACAACGTATT
*
106670650 TGTAGATAAGATCTGTCAAGAAAATC
66 TGTAGATAAGAGCTG-CAAGAAAATC
* * * *
106670676 TGTGGATGTACCACCAGAGTTGCATATTATTAAACTGTCA
1 GGTGGATGAACCACCAGAGTTGCAGATTAATAAACTGTCA
106670716 AAATTTCCTC
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
90 71 0.63
91 41 0.37
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (90 bp):
GGTGGATGAACCACCAGAGTTGCAGATTAATAAACTGTCAGATGGTTGTGAATGAACAACGTATT
TGTAGATAAGAGCTGCAAGAAAATC
Found at i:106673026 original size:23 final size:22
Alignment explanation
Indices: 106672991--106673035 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
106672981 TAAACCTTTT
*
106672991 AAAAATATTTTAACT-TTTTAAA
1 AAAAATATGTTAA-TATTTTAAA
106673013 AAAAATTATGTTAATATTTTAAA
1 AAAAA-TATGTTAATATTTTAAA
106673036 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAAATATGTTAATATTTTAAA
Found at i:106674540 original size:22 final size:21
Alignment explanation
Indices: 106674515--106674555 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
106674505 GATCAGACTT
*
106674515 AAATTTTAAAATATAAAAAATA
1 AAATCTTAAAA-ATAAAAAATA
106674537 AAATCTTAAAAATAAAAAA
1 AAATCTTAAAAATAAAAAA
106674556 AATACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATCTTAAAAATAAAAAATA
Found at i:106678577 original size:6 final size:6
Alignment explanation
Indices: 106678560--106678604 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
106678550 ATTAAACAAA
* * * *
106678560 AAAAAT AGAAAT AAAAAT AAAACT AAAACT AAAACT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
106678605 TTTAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:106678611 original size:12 final size:12
Alignment explanation
Indices: 106678560--106678604 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
106678550 ATTAAACAAA
106678560 AAAAATAGAAA-T
1 AAAAATA-AAACT
106678572 AAAAATAAAACT
1 AAAAATAAAACT
*
106678584 AAAACTAAAACT
1 AAAAATAAAACT
106678596 AAAAATAAA
1 AAAAATAAA
106678605 TTTAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 3 0.10
12 27 0.90
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAATAAAACT
Found at i:106681934 original size:14 final size:14
Alignment explanation
Indices: 106681861--106681928 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 14
106681851 ACATAGTTTT
* *
106681861 TTATTTTATTATTT
1 TTATTATATTATTA
106681875 TTATTAT-TT-TCTA
1 TTATTATATTAT-TA
* *
106681888 TTATTGTCATTACTA
1 TTATTAT-ATTATTA
*
106681903 TCA-TATATTATTA
1 TTATTATATTATTA
106681916 TTATTATATTATT
1 TTATTATATTATT
106681929 TCTATTTACA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.02
13 17 0.41
14 17 0.41
15 6 0.15
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:106682086 original size:3 final size:3
Alignment explanation
Indices: 106681861--106682074 Score: 69
Period size: 3 Copynumber: 69.7 Consensus size: 3
106681851 ACATAGTTTT
* * * * * *
106681861 TTA TT- TTA TTA TTT TTA TTA TTT TCTA TTA TTG TCA TTA CTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
106681906 TATA TTA TTA TTA TTA -TA TTA TT- TCTA TTTA CATG TTA TCA TTTC
1 T-TA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA -TTA
* * * * * * *
106681951 TTT TTC TTT TTA TTA CGTTC TTA TTA TTA CTA TTA TTA TAA TTT TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
106681998 TT- TTA TTA TTA TTA ACA TTA GTA TTA TTA TTTA TCT- TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA
* * * * *
106682043 TTA TTG TTC TTA TAA TTA TTA TAA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
106682075 CCTACTATTA
Statistics
Matches: 148, Mismatches: 49, Indels: 28
0.66 0.22 0.12
Matches are distributed among these distances:
2 8 0.05
3 125 0.84
4 12 0.08
5 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:106682173 original size:14 final size:16
Alignment explanation
Indices: 106682141--106682185 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 16
106682131 ACTATTAGTA
106682141 TATTTTCATCTATATT
1 TATTTTCATCTATATT
106682157 TATTTT-ATCTA-ATT
1 TATTTTCATCTATATT
106682171 TATTTTC--CTATATT
1 TATTTTCATCTATATT
106682185 T
1 T
106682186 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 13 0.48
15 5 0.19
16 6 0.22
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTCATCTATATT
Found at i:106682314 original size:3 final size:3
Alignment explanation
Indices: 106682308--106682651 Score: 125
Period size: 3 Copynumber: 118.3 Consensus size: 3
106682298 TTTTTAACTA
*
106682308 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TCAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* *
106682353 TAT TATT TAGT TA- TAT TAC TAT TAT TGT TA- TAT TAT T-T TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
106682397 TAC TGT TAT TAT TAT TAC TAC AAC CAT TAT TAC TAT GAT TA- TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *** *
106682443 TCT T-T TA- TACT TAT T-T GCC TAT TAT TAT TA- CAT TAT TA- TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
106682484 CAT TAA T-T TA- TAT TGT TAT TAT TA- TAA TAGT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * * * *
106682527 T-T TAT TGT TA- TGT TGT T-T TTT TCCCT CTGT T-T TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T--AT -TAT TAT TAT TAT TAT TAT
* * * * * *
106682571 TAT TAT TAT TAT CAT TAT TAC TAT TAT TTT TAT TTT TAT TTT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
106682619 TAT TAT CT-T T-T TAT TAT TAC TAC TAC TAT TAT T
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
106682652 CTTTATTAAC
Statistics
Matches: 257, Mismatches: 57, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
2 34 0.13
3 208 0.81
4 13 0.05
5 1 0.00
6 1 0.00
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:106682350 original size:21 final size:20
Alignment explanation
Indices: 106682287--106682413 Score: 91
Period size: 21 Copynumber: 6.2 Consensus size: 20
106682277 CCTCTAACAC
*
106682287 TATTACTATTATTTTTAACTA-
1 TATTATTATTA-TTTTAA-TAT
*
106682308 TATTATTATTATTATTATTAT
1 TATTATTATTATT-TTAATAT
106682329 TATTATTATTATTTTCAATAT
1 TATTATTATTATTTT-AATAT
*
106682350 TATTATTATT-TAGTT-ATAT
1 TATTATTATTAT-TTTAATAT
* * * *
106682369 TACTATTATTGTTATATTAT
1 TATTATTATTATTTTAATAT
* *
106682389 T-TTATTATTACTGTTATTAT
1 TATTATTATTA-TTTTAATAT
106682409 TATTA
1 TATTA
106682414 CTACAACCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
19 21 0.24
20 20 0.23
21 45 0.52
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTTTAATAT
Found at i:106682383 original size:28 final size:29
Alignment explanation
Indices: 106682287--106682413 Score: 103
Period size: 28 Copynumber: 4.7 Consensus size: 29
106682277 CCTCTAACAC
* * *
106682287 TATTACTATTATT-TT-TAACTATATTAT
1 TATTACTATTATTATTATTATTATGTTAT
*
106682314 TATTATTATTATTATTATTATTA--TTAT
1 TATTACTATTATTATTATTATTATGTTAT
*
106682341 T-TT-C-AATATTATTATTATT-TAGTTA-
1 TATTACTATTATTATTATTATTAT-GTTAT
* *
106682366 TATTACTATTATTGTTA-TATTATTTTAT
1 TATTACTATTATTATTATTATTATGTTAT
*
106682394 TATTACTGTTATTATTATTA
1 TATTACTATTATTATTATTA
106682414 CTACAACCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
24 14 0.18
25 1 0.01
26 7 0.09
27 25 0.32
28 26 0.33
29 6 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (29 bp):
TATTACTATTATTATTATTATTATGTTAT
Found at i:106686849 original size:15 final size:14
Alignment explanation
Indices: 106686829--106686877 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 14
106686819 ATAAAGAATT
106686829 AATAATAATAATCAA
1 AATAATAATAAT-AA
106686844 AATAATAATGAGAATAA
1 AATAATAAT---AATAA
106686861 ATATAATAATAATAA
1 A-ATAATAATAATAA
106686876 AA
1 AA
106686878 ATACTAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.03
15 15 0.50
17 3 0.10
18 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:106687632 original size:20 final size:20
Alignment explanation
Indices: 106687604--106687652 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
106687594 TTTCTTCACT
* *
106687604 TCTCCCACGCTTGTGTGACC
1 TCTCACACGCTCGTGTGACC
*
106687624 TCTCACACGCTCGTGTGACT
1 TCTCACACGCTCGTGTGACC
106687644 TCTCACACG
1 TCTCACACG
106687653 GTCATGTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.14, C:0.39, G:0.18, T:0.29
Consensus pattern (20 bp):
TCTCACACGCTCGTGTGACC
Found at i:106687661 original size:22 final size:21
Alignment explanation
Indices: 106687604--106687661 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
106687594 TTTCTTCACT
*
106687604 TCTCCCACGCT-TGTGTGACC
1 TCTCACACGCTCTGTGTGACC
*
106687624 TCTCACACGCTC-GTGTGACT
1 TCTCACACGCTCTGTGTGACC
*
106687644 TCTCACACGGTCATGTGT
1 TCTCACACGCTC-TGTGT
106687662 CTTGCCCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 28 0.88
22 4 0.12
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.31
Consensus pattern (21 bp):
TCTCACACGCTCTGTGTGACC
Found at i:106690811 original size:28 final size:29
Alignment explanation
Indices: 106690755--106690811 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
106690745 ATTTCACACT
* *
106690755 TTTAACCCCTCAATTTACACTTTTCTCAA
1 TTTAACCCCTCAATTGACACTTTTATCAA
* *
106690784 TTTAATCCCT-AATTGACATTTTTATCAA
1 TTTAACCCCTCAATTGACACTTTTATCAA
106690812 AAGTCACTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTAACCCCTCAATTGACACTTTTATCAA
Found at i:106696926 original size:40 final size:40
Alignment explanation
Indices: 106696865--106696940 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
106696855 CGGTACTCTA
* * *
106696865 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATATT
1 TGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATATT
106696905 TGGTGTGCAGGGAT-GAGTGGGTCGATTTTATCCCCA
1 TGGTGTGCAGGGATGGA-TGGGTCGATTTTATCCCCA
106696941 CATAGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.16, C:0.13, G:0.34, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATATT
Found at i:106702545 original size:5 final size:5
Alignment explanation
Indices: 106702531--106702568 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
106702521 CAATTTGTGA
106702531 AAAAT AAAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
106702569 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:106702562 original size:9 final size:9
Alignment explanation
Indices: 106702538--106702568 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
106702528 TGAAAAATAA
106702538 AAATAAAAT
1 AAATAAAAT
106702547 AAAATAAAAT
1 -AAATAAAAT
106702557 AAATAAAAT
1 AAATAAAAT
106702566 AAA
1 AAA
106702569 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:106704806 original size:30 final size:29
Alignment explanation
Indices: 106704767--106704835 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
106704757 GCCCAAACTA
*
106704767 AAAGACCAAACCCAATTAAATACAAACCCT
1 AAAGCCCAAA-CCAATTAAATACAAACCCT
*
106704797 AAAGCCCAAATCAATTAAATACAAACCCT
1 AAAGCCCAAACCAATTAAATACAAACCCT
106704826 AAAGCCCAAA
1 AAAGCCCAAA
106704836 TCTTAGCCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 28 0.76
30 9 0.24
ACGTcount: A:0.54, C:0.29, G:0.04, T:0.13
Consensus pattern (29 bp):
AAAGCCCAAACCAATTAAATACAAACCCT
Found at i:106704811 original size:29 final size:29
Alignment explanation
Indices: 106704779--106704837 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
106704769 AGACCAAACC
106704779 CAATTAAATACAAACCCTAAAGCCCAAAT
1 CAATTAAATACAAACCCTAAAGCCCAAAT
106704808 CAATTAAATACAAACCCTAAAGCCCAAAT
1 CAATTAAATACAAACCCTAAAGCCCAAAT
106704837 C
1 C
106704838 TTAGCCCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.29, G:0.03, T:0.17
Consensus pattern (29 bp):
CAATTAAATACAAACCCTAAAGCCCAAAT
Found at i:106710946 original size:21 final size:22
Alignment explanation
Indices: 106710920--106710966 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
106710910 CTCTGCTCAA
*
106710920 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
106710941 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
106710963 ACTC
1 ACTC
106710967 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:106725395 original size:22 final size:22
Alignment explanation
Indices: 106725370--106725411 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
106725360 TTACAGAAGA
106725370 AGAAGAAAGAAAG-AAAGAAAGG
1 AGAAG-AAGAAAGAAAAGAAAGG
106725392 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
106725412 AAGGTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:106726442 original size:16 final size:17
Alignment explanation
Indices: 106726418--106726451 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
106726408 TGCATATTGA
*
106726418 TTAATTAATTT-TTTAT
1 TTAAGTAATTTATTTAT
106726434 TTAAGTAATTTATTTAT
1 TTAAGTAATTTATTTAT
106726451 T
1 T
106726452 GTTCGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTAAGTAATTTATTTAT
Found at i:106732323 original size:147 final size:146
Alignment explanation
Indices: 106731551--106732436 Score: 1197
Period size: 147 Copynumber: 6.1 Consensus size: 146
106731541 TATTTTAGTA
*
106731551 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCG-----TATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
106731611 TTTAGTACATAATGTTTCAAATGTACTGTTTTTGTA-TTTTTTTATATTAATTTAATAAAAAACT
66 TTTAGTACATAATGTTTCAAATGTA-T-TATTT-TAGTTTTTTTATATTAATTTAGTAAAAAACT
*
106731675 CTGATTTTGACCGTTTGTTTT
128 CTGATTTTGGCCG-TT-TTTT
* * * *
106731696 TTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
106731761 TTTAGTACATAATGTTCCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACTCT
*
106731826 GATTTTGGCGGTTTATTT
130 GATTTTGGCCGTTT-TTT
*
106731844 TTTATTTTATTTTCGGATTTTATTTTTTTAAAACATACTATTTTCGTATTTTATGTTTTTTATAT
1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATAT
* * * * *
106731909 TATTTTGGTACATAATTTTTAAAATGTATTATTTTAGTTTTTTTATATTAATATAGAAAAAAAAC
63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAAC
*
106731974 TCTGATTTTGGCC--CTTTT
127 TCTGATTTTGGCCGTTTTTT
* *
106731992 ATT-TTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
106732056 TTTAGTACATAA-GTTTTC--ATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAATCTG
66 TTTAGTACATAATG-TTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAAACTC
*
106732118 TGATTTTGGCCG-TTTTA
129 TGATTTTGGCCGTTTTTT
* * *
106732135 TTTATTTTGTTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
106732200 TTTAGTACACAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGTAAAAAATTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
106732265 ATTTTGGCCGTTTGTTT
131 ATTTTGGCCGTTT-TTT
* * * *
106732282 TTTATTTTATTTTTGGATTTTATTTTTCAAAATATACTATTTTTGTATTTTATTTTTTTTATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
106732347 TTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACTCT
*
106732412 GATTTTGACC-TTTTTAT
130 GATTTTGGCCGTTTTT-T
106732429 TTTATTTT
1 TTTATTTT
106732437 CGGATTTTTT
Statistics
Matches: 661, Mismatches: 57, Indels: 44
0.87 0.07 0.06
Matches are distributed among these distances:
142 32 0.05
143 23 0.03
144 99 0.15
145 79 0.12
146 46 0.07
147 144 0.22
148 73 0.11
149 47 0.07
150 39 0.06
151 79 0.12
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (146 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
ATTTTGGCCGTTTTTT
Found at i:106732457 original size:14 final size:14
Alignment explanation
Indices: 106732440--106732468 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
106732430 TTATTTTCGG
106732440 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
106732454 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
106732468 A
1 A
106732469 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:106732795 original size:12 final size:13
Alignment explanation
Indices: 106732769--106732797 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
106732759 ATACCTTGCA
106732769 AAAAATTAAATTT
1 AAAAATTAAATTT
106732782 AAAAATTAAA-TT
1 AAAAATTAAATTT
106732794 AAAA
1 AAAA
106732798 TCAATCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAAATTT
Found at i:106732984 original size:6 final size:6
Alignment explanation
Indices: 106732961--106733025 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
106732951 CCAATACCGC
* * * * *
106732961 CTCCTC CTCCTC CTCCTT CTCCTT CTTCTT CTTCTT CTTCTT CT-CTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* *
106733008 CTCTTT CT-TTT CTCCTT C
1 CTCCTT CTCCTT CTCCTT C
106733026 CCCCTTTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
5 10 0.19
6 43 0.81
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (6 bp):
CTCCTT
Found at i:106733042 original size:3 final size:3
Alignment explanation
Indices: 106732976--106733009 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
106732966 CCTCCTCCTC
*
106732976 CTT CTC CTT CTT CTT CTT CTT CTT CTT C-T CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
106733010 CTTTCTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:106733210 original size:27 final size:26
Alignment explanation
Indices: 106733166--106733217 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
106733156 AGGAGTCAGC
*
106733166 GGTGCCGCCTGTGAGGTACCCTCCACT
1 GGTGCCGCCTATGAGGTA-CCTCCACT
*
106733193 GGTGCCGCCTATGGGGTACCTCCAC
1 GGTGCCGCCTATGAGGTACCTCCAC
106733218 CCATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.12, C:0.37, G:0.31, T:0.21
Consensus pattern (26 bp):
GGTGCCGCCTATGAGGTACCTCCACT
Found at i:106745926 original size:27 final size:28
Alignment explanation
Indices: 106745817--106745939 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
106745807 GAGATTGGCG
* * * *
106745817 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
106745846 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
106745874 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
106745902 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
106745929 CTGAGTGTGCG
1 CTAAGTGTGCG
106745940 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.27
28 50 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:106745950 original size:27 final size:27
Alignment explanation
Indices: 106745842--106745953 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
106745832 TAAATTGTAC
*
106745842 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
106745870 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
106745898 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
106745925 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
106745954 TTTTGAATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 23 0.29
28 50 0.64
29 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:106745953 original size:56 final size:56
Alignment explanation
Indices: 106745817--106745953 Score: 170
Period size: 55 Copynumber: 2.4 Consensus size: 56
106745807 GAGATTGGCG
* * * *
106745817 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGCTT-AATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
* *
106745874 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
106745929 CTGAGTGTGCG-GACTTAATATATAT
1 CTAAGTGTGCGAG-CTTAAT-TATAT
106745954 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
54 1 0.01
55 28 0.39
56 27 0.38
57 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:106753992 original size:27 final size:28
Alignment explanation
Indices: 106753829--106753979 Score: 241
Period size: 28 Copynumber: 5.4 Consensus size: 28
106753819 GAGATTGGCG
* * * *
106753829 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
106753858 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
106753886 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
106753914 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
106753942 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
106753969 CTGAGTGTGCG
1 CTAAGTGTGCG
106753980 GACTTAATAT
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.21
28 78 0.67
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:106753993 original size:84 final size:85
Alignment explanation
Indices: 106753829--106753993 Score: 228
Period size: 83 Copynumber: 2.0 Consensus size: 85
106753819 GAGATTGGCG
* *
106753829 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
* *
106753894 GCGAGTTTGATTATATAGCA
66 GCGAGCTTAATTATATAGCA
* * *
106753914 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
106753977 GCG-GACTTAATATATAT
66 GCGAG-CTTAAT-TATAT
106753994 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
82 1 0.01
83 28 0.39
84 27 0.38
85 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (85 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGT
GCGAGCTTAATTATATAGCA
Found at i:106759035 original size:30 final size:30
Alignment explanation
Indices: 106758999--106759057 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
106758989 AAGATTAAAG
106758999 TTGCTAAAATAAAAAGCATAAAAATGGCTT
1 TTGCTAAAATAAAAAGCATAAAAATGGCTT
**
106759029 TTGCTAAAATAAAAAGTTTAAAAATGGCT
1 TTGCTAAAATAAAAAGCATAAAAATGGCT
106759058 CCAACCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (30 bp):
TTGCTAAAATAAAAAGCATAAAAATGGCTT
Found at i:106760960 original size:27 final size:26
Alignment explanation
Indices: 106760903--106760961 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
106760893 TATTATGAAC
106760903 TAAACCCCCTAAATACCAAAGGGAGA
1 TAAACCCCCTAAATACCAAAGGGAGA
* *
106760929 TAAACCCCCTAAATACCTAAGGGATA
1 TAAACCCCCTAAATACCAAAGGGAGA
106760955 TGAAACC
1 T-AAACC
106760962 TAAGACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (26 bp):
TAAACCCCCTAAATACCAAAGGGAGA
Found at i:106770727 original size:35 final size:35
Alignment explanation
Indices: 106770681--106770751 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
106770671 AAATTTATCT
*
106770681 ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
1 ACTTTTACAAGTACGTCATCTATTATACCCCTAGG
*
106770716 ACTTTTACAAGTACGTCATCTATTATACCTCTAGG
1 ACTTTTACAAGTACGTCATCTATTATACCCCTAGG
106770751 A
1 A
106770752 TATTTAACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (35 bp):
ACTTTTACAAGTACGTCATCTATTATACCCCTAGG
Found at i:106771565 original size:20 final size:19
Alignment explanation
Indices: 106771520--106771566 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
106771510 CCCTCTCTCC
106771520 CCTTCCTCCTCCCTTTCTGT
1 CCTTCC-CCTCCCTTTCTGT
* *
106771540 CTTTCCCCTTCCCTTTCTTT
1 CCTTCCCC-TCCCTTTCTGT
106771560 CCTTCCC
1 CCTTCCC
106771567 ACACCTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.00, C:0.51, G:0.02, T:0.47
Consensus pattern (19 bp):
CCTTCCCCTCCCTTTCTGT
Found at i:106771793 original size:28 final size:28
Alignment explanation
Indices: 106771741--106771795 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
106771731 TCATTTTTCT
*
106771741 TTAATTCTTTATTATATTCTTTTATTAC
1 TTAATTCTTTATTATATTCTATTATTAC
106771769 TTAATTTCTTT-TTATTATT-TATTATTA
1 TTAA-TTCTTTATTA-TATTCTATTATTA
106771796 TAATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TTAATTCTTTATTATATTCTATTATTAC
Found at i:106787961 original size:5 final size:6
Alignment explanation
Indices: 106787949--106787978 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
106787939 TACTTTACTA
106787949 TTATTT TTATTT TTATTT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
106787979 GTCTCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:106787964 original size:12 final size:11
Alignment explanation
Indices: 106787949--106787978 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
106787939 TACTTTACTA
106787949 TTATTTTTATTT
1 TTATTTTTA-TT
106787961 TTATTTTTATT
1 TTATTTTTATT
106787972 TTATTTT
1 TTATTTT
106787979 GTCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:106788985 original size:4 final size:4
Alignment explanation
Indices: 106788978--106789014 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
106788968 CTTAAAAAAA
106788978 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
106789015 TTGGTAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:106789846 original size:30 final size:30
Alignment explanation
Indices: 106789810--106789866 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
106789800 TAGGCACTTC
106789810 CACACGGGTAAACCACACACCCGTGTGAGG
1 CACACGGGTAAACCACACACCCGTGTGAGG
* *
106789840 CACACGGGTAGACCACACGCCCGTGTG
1 CACACGGGTAAACCACACACCCGTGTG
106789867 TCATGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.11
Consensus pattern (30 bp):
CACACGGGTAAACCACACACCCGTGTGAGG
Found at i:106792535 original size:18 final size:19
Alignment explanation
Indices: 106792514--106792554 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
106792504 TTGAATGTTT
*
106792514 TTCATTTCTCT-ATTTCTA
1 TTCATTTCGCTCATTTCTA
106792532 TTCATTTCGCTCATTTCTA
1 TTCATTTCGCTCATTTCTA
106792551 TTCA
1 TTCA
106792555 AACGTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.17, C:0.24, G:0.02, T:0.56
Consensus pattern (19 bp):
TTCATTTCGCTCATTTCTA
Found at i:106802127 original size:48 final size:48
Alignment explanation
Indices: 106802075--106803116 Score: 648
Period size: 48 Copynumber: 21.5 Consensus size: 48
106802065 AGGAGTCCCT
* * ** *
106802075 CCTTGGCTTGAACTCCCAATGAAAAAC-AATGATGGACTTCTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTG-TGGATTTCTATCCATC
* * *
106802123 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
106802171 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTCTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
106802219 CCTTGGATTGAAGTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
106802267 CCTTGGATTGACCTCCCAGTGAAAAACCGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
106802315 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTCTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * * *
106802363 CCTTGGATTGAGCTCCCGGTGAAAAATTGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
106802411 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * *
106802459 CTTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCGTC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
106802507 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGGTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAAC---------TGTTGTGGATTTCTATCCATC
* * * *
106802564 CCTTGGCTTGAACTCCTAGTGAAAAAATGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
106802612 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTCGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGA-----T---TTC-TATCCATC
* * * *
106802669 CCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* *
106802714 CCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGATGTTGTAGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAAC--T-GT---TG-TG--GATTTCTATCCATC
*
106802771 CCTTGGATTGAACTCCCAGTG---AA-----G-GGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * * * *
106802810 CCTTGGCTTGAACTTCTAGTGAAGAACTGTGGTGGA--TGT-T--GT-
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
*** * *** * **** *
106802852 -GGGGGAGTGAA-GAACTGTGGTGGA-TGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
106802897 CCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * *
106802945 CCTTGGCTTGAACTTCCAGTACTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAG---TGAAAAACTGTTGTGGATTTCTATCCATC
* * *
106802996 CCTT-GACTTGAACTCCCAG-GAAAAAACTGTTGTCGATTTGTATCCATT
1 CCTTGGA-TTGAACTCCCAGTG-AAAAACTGTTGTGGATTTCTATCCATC
* * * * * * * * *
106803044 TCTT-GACTTGAACTCCCAATGAAAAACTGTTTTGAATTTGTGTTCGTT
1 CCTTGGA-TTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* *
106803092 CCTTGGCTTGAACTCCCAGGGAAAA
1 CCTTGGATTGAACTCCCAGTGAAAA
106803117 GCTGCTGGCA
Statistics
Matches: 786, Mismatches: 144, Indels: 128
0.74 0.14 0.12
Matches are distributed among these distances:
39 40 0.05
40 5 0.01
41 10 0.01
42 3 0.00
43 2 0.00
44 1 0.00
45 23 0.03
46 16 0.02
47 11 0.01
48 499 0.63
49 9 0.01
50 1 0.00
51 46 0.06
53 1 0.00
54 11 0.01
55 2 0.00
56 7 0.01
57 99 0.13
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (48 bp):
CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
Found at i:106802575 original size:57 final size:57
Alignment explanation
Indices: 106802486--106802794 Score: 338
Period size: 57 Copynumber: 5.8 Consensus size: 57
106802476 AGTGAAAAAC
* *
106802486 TGTTGTGGATTTGTATCCGTCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGG
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * *
106802543 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAA-AA--------AA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
106802591 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * * *
106802648 TGTTGTGGATTCGTATCCATTCCTTGGCTTG-ACTTCTCATTG-A-AA---------A
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAAC-TCCCAGTGAAGAACTGTGGTGGA
*
106802694 -GTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
*
106802750 TGTTGTAGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
106802795 GGATTTGTAT
Statistics
Matches: 207, Mismatches: 22, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
45 33 0.16
46 4 0.02
47 2 0.01
48 41 0.20
49 2 0.01
55 2 0.01
56 6 0.03
57 117 0.57
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (57 bp):
TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
Found at i:106802620 original size:105 final size:102
Alignment explanation
Indices: 106802438--106802853 Score: 578
Period size: 105 Copynumber: 4.1 Consensus size: 102
106802428 AGGGAAAAGC
106802438 TGTTGTGGATTTGTATCCA-TCCTTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTAT
1 TGTTGTGGATTTGTATCCATTCC-TTGGATTGAACTCCTAGTG-AAAA--GTTGTGGATTTGTAT
* *
106802502 CCGTCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGG
62 CCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
*
106802543 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAAATGTTGTGGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTG--AAAA-GTTGTGGATTTGTATC
106802608 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
63 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * *
106802648 TGTTGTGGATTCGTATCCATTCCTTGGCTTG-ACTTCTCATTGAAAAGTTGTGGATTTGTATCCA
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCT-AGTGAAAAGTTGTGGATTTGTATCCA
*
106802712 TCCCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGA
65 TCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * *
106802750 TGTTGTAGATTTGTATCCATCCCTTGGATTGAACTCCCAGTG--AA---G-GGATTTGTATCCAT
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTGAAAAGTTGTGGATTTGTATCCAT
* * *
106802809 CCCTTGGCTTGAACTTCTAGTGAAGAACTGTGGTGGA
66 CCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
106802846 TGTTGTGG
1 TGTTGTGG
106802854 GGGAGTGAAG
Statistics
Matches: 288, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
96 54 0.19
97 1 0.00
100 2 0.01
102 85 0.30
103 8 0.03
104 5 0.02
105 125 0.43
106 8 0.03
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (102 bp):
TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTGAAAAGTTGTGGATTTGTATCCAT
CCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
Found at i:106802811 original size:39 final size:39
Alignment explanation
Indices: 106802757--106802833 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
106802747 GGATGTTGTA
106802757 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
1 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
* * *
106802796 GATTTGTATCCATCCCTTGGCTTGAACTTCTAGTGAAG
1 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
106802834 AACTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
Found at i:106802863 original size:30 final size:30
Alignment explanation
Indices: 106802827--106802883 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
106802817 TTGAACTTCT
106802827 AGTGAAGAACTGTGGTGGATGTTGTGGGGG
1 AGTGAAGAACTGTGGTGGATGTTGTGGGGG
106802857 AGTGAAGAACTGTGGTGGATGTTGTGG
1 AGTGAAGAACTGTGGTGGATGTTGTGG
106802884 ATTTGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.28
Consensus pattern (30 bp):
AGTGAAGAACTGTGGTGGATGTTGTGGGGG
Found at i:106803054 original size:99 final size:95
Alignment explanation
Indices: 106802876--106803134 Score: 329
Period size: 99 Copynumber: 2.7 Consensus size: 95
106802866 CTGTGGTGGA
* *
106802876 TGTTGTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAG-GAAAAACTGTTGTCGATTTGTATC
* *
106802941 CATTCCTTGGCTTGAACTTCCAGTACTGAAAAAC
65 CATTCCTTGACTTGAACTCCCA--A-TGAAAAAC
*
106802975 TGTTGTGGATTTGTATCCATTCCTTGACTTGAACTCCCAGGAAAAAACTGTTGTCGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGG-AAAAACTGTTGTCGATTTGTATC
*
106803040 CATTTCTTGACTTGAACTCCCAATGAAAAAC
65 CATTCCTTGACTTGAACTCCCAATGAAAAAC
* * * * * * * * *
106803071 TGTTTTGAATTTGTGTTCGTTCCTTGGCTTGAACTCCCAGGGAAAAGCTGCTGGCAATTTGTAT
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCA-GGAAAAACTGTTGTCGATTTGTAT
106803135 TCTGAATGAT
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
96 59 0.42
97 3 0.02
98 1 0.01
99 79 0.56
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (95 bp):
TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGGAAAAACTGTTGTCGATTTGTATCC
ATTCCTTGACTTGAACTCCCAATGAAAAAC
Found at i:106805735 original size:24 final size:24
Alignment explanation
Indices: 106805707--106805758 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
106805697 TTAGTAGGTC
* *
106805707 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
106805731 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
106805755 AAAT
1 AAAT
106805759 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:106808334 original size:38 final size:39
Alignment explanation
Indices: 106808262--106808345 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 39
106808252 GATTTTACAT
*
106808262 GTTATATAACGAAATCTAGCATTTGTTATAGATTCTCGG
1 GTTATATAACGAAATCTAGCATTTGTTATAGATTCTCAG
* *
106808301 GTTATTTAAC-AAGATCTAGC-TTTGTTGCT-GATTCTCAG
1 GTTATATAACGAA-ATCTAGCATTTGTT-ATAGATTCTCAG
106808339 GTTATAT
1 GTTATAT
106808346 GTAACATAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 22 0.56
39 17 0.44
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (39 bp):
GTTATATAACGAAATCTAGCATTTGTTATAGATTCTCAG
Found at i:106809870 original size:51 final size:51
Alignment explanation
Indices: 106809815--106809917 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
106809805 TTCTCTAGTG
106809815 TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
1 TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
*
106809866 TAAGTCCTGTTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
1 TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
106809917 T
1 T
106809918 CTTCACGTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.48
Consensus pattern (51 bp):
TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
Found at i:106810901 original size:18 final size:18
Alignment explanation
Indices: 106810878--106810912 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
106810868 TGCTTCTATA
*
106810878 ATCTAAATTTGAATCTGG
1 ATCTAAATCTGAATCTGG
106810896 ATCTAAATCTGAATCTG
1 ATCTAAATCTGAATCTG
106810913 AAACTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
ATCTAAATCTGAATCTGG
Found at i:106814477 original size:50 final size:50
Alignment explanation
Indices: 106814419--106814517 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
106814409 TGCTCAAAGT
106814419 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATAA
1 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATAA
106814469 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATA
1 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATA
106814518 TCCTTGATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.44
Consensus pattern (50 bp):
GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATAA
Found at i:106825532 original size:30 final size:30
Alignment explanation
Indices: 106825489--106825561 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
106825479 TTCAGTGCTT
* * * * *
106825489 CACACTCCTGTGTAAGACACACGGGTAGTC
1 CACACGCCCGTGTAAGACAAACAGGTAGGC
106825519 CACACGCCCGTGTAAGACAAACAGGTAGGC
1 CACACGCCCGTGTAAGACAAACAGGTAGGC
106825549 CACACGCCCGTGT
1 CACACGCCCGTGT
106825562 GTCATGGCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.15
Consensus pattern (30 bp):
CACACGCCCGTGTAAGACAAACAGGTAGGC
Found at i:106825899 original size:14 final size:14
Alignment explanation
Indices: 106825880--106825908 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
106825870 TTTGTTGTTT
106825880 TCCCAATTTTGAGA
1 TCCCAATTTTGAGA
106825894 TCCCAATTTTGAGA
1 TCCCAATTTTGAGA
106825908 T
1 T
106825909 GTTTTCCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TCCCAATTTTGAGA
Found at i:106834334 original size:17 final size:17
Alignment explanation
Indices: 106834286--106834348 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
106834276 TTTTGAGTCC
*
106834286 TTTTATTTTCACTTTGT
1 TTTTATTTTCATTTTGT
** *
106834303 TTTTCCTTTCCTTTTGT
1 TTTTATTTTCATTTTGT
* *
106834320 TTTTATTTTTATTTTTAT
1 TTTTATTTTCA-TTTTGT
106834338 TTTTCATTTTC
1 TTTT-ATTTTC
106834349 TAAAAGACTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 20 0.59
18 9 0.26
19 5 0.15
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATTTTCATTTTGT
Found at i:106834348 original size:6 final size:6
Alignment explanation
Indices: 106834314--106834347 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
106834304 TTTCCTTTCC
*
106834314 TTTTGT TTTTAT TTTTAT TTTTAT TTTTCAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTT
106834348 CTAAAAGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:106843942 original size:26 final size:25
Alignment explanation
Indices: 106843872--106843947 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
106843862 TCTCATCCCT
*
106843872 ATTTTACCCCTAATAAAATTTTGACA
1 ATTTTA-CCCTAATAAAATTTTGAAA
** *
106843898 ATTTTACACCCGATCAAATTTTGAAA
1 ATTTTAC-CCTAATAAAATTTTGAAA
*
106843924 ATTTTACCTCTTATAAAATTTTGA
1 ATTTTACC-CTAATAAAATTTTGA
106843948 GAAAATATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (25 bp):
ATTTTACCCTAATAAAATTTTGAAA
Found at i:106848112 original size:27 final size:26
Alignment explanation
Indices: 106848011--106848122 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
106848001 AGGAAGCATC
* * *
106848011 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
106848038 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
106848065 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
106848093 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
106848119 CTGG
1 CTGG
106848123 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:106848115 original size:54 final size:54
Alignment explanation
Indices: 106848011--106848122 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
106848001 AGGAAGCATC
*
106848011 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACACTGCCACATATATCTGTT
* * * * *
106848065 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACACTGCCACATATATCTGTT
106848119 CTGG
1 CTGG
106848123 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACACTGCCACATATATCTGTT
Found at i:106850912 original size:16 final size:16
Alignment explanation
Indices: 106850848--106850914 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 16
106850838 GATTGAGGTG
*
106850848 AATGGAATAAAACTGT
1 AATGGAATAAAGCTGT
** *
106850864 AATGGAATTGAGATGT
1 AATGGAATAAAGCTGT
* *
106850880 AATAGAATAGAGCTGT
1 AATGGAATAAAGCTGT
*
106850896 AATGGAATAAAGTTGT
1 AATGGAATAAAGCTGT
106850912 AAT
1 AAT
106850915 CAATAATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (16 bp):
AATGGAATAAAGCTGT
Found at i:106851348 original size:18 final size:17
Alignment explanation
Indices: 106851327--106851366 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
106851317 ATTTAAGTAA
*
106851327 ATATTATTTTTTATTATT
1 ATATTATTTATTA-TATT
106851345 ATATTATTTATTATATT
1 ATATTATTTATTATATT
106851362 A-ATTA
1 ATATTA
106851367 AATAAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 5 0.24
18 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATTTATTATATT
Found at i:106853813 original size:26 final size:26
Alignment explanation
Indices: 106853783--106853874 Score: 103
Period size: 26 Copynumber: 3.4 Consensus size: 26
106853773 GTTATTAAAT
106853783 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
* * * *
106853809 TTTAATAAAAATAAATAATTTAATCATAT
1 TTTAAT-AAAAT-TATTATTAAAT-ATAA
* *
106853838 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
106853864 TTTAATAAAAT
1 TTTAATAAAAT
106853875 AATATATAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 18 0.35
27 13 0.25
28 12 0.24
29 8 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:106853865 original size:55 final size:57
Alignment explanation
Indices: 106853781--106853896 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 57
106853771 TTGTTATTAA
*
106853781 ATTTTAATAAAATTATTATTAAATATAATTTAAT-AAA-AATAAATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
* *
106853836 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
106853893 ATTT
1 ATTT
106853897 CAATATATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 32 0.57
56 3 0.05
57 21 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (57 bp):
ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
Found at i:106853914 original size:55 final size:53
Alignment explanation
Indices: 106853795--106853916 Score: 165
Period size: 57 Copynumber: 2.2 Consensus size: 53
106853785 TAATAAAATT
*
106853795 ATTAT-TAAATATAATTTAATAAAAATAAATAATTTAATCATATTTTAACATA
1 ATTATATAAATATAATTTAATAAAAATAAATAATTTAATCATATTTCAACATA
* *
106853847 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCATATTTCAATATA
1 ATTA-TA-TAAATATAATTTAAT-AAA-AATAAATAATTTAATCATATTTCAACATA
*
106853904 TTTATATAAATAT
1 ATTATATAAATAT
106853917 TTATTTTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
52 4 0.07
53 1 0.02
55 22 0.36
56 5 0.08
57 29 0.48
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (53 bp):
ATTATATAAATATAATTTAATAAAAATAAATAATTTAATCATATTTCAACATA
Found at i:106857289 original size:42 final size:42
Alignment explanation
Indices: 106857232--106857383 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
106857222 AATGTTGAAT
* * * *
106857232 AGAAGCTTATGAGAGCTAAACAGAAACCCATAAGGGTTGAAC
1 AGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
* * *
106857274 -GAAAACTCATAAGAGCTGAACAGAAACCCTTAAGAGTTAAAC
1 AG-AAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
* * * * * *
106857316 AGAAGCTCAAAAGTGCTGAACAGAAACTCATATGAGTTTAAC
1 AGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
*
106857358 AGAAGCTCATAAGAGCTAAACGGAAA
1 AGAAGCTCATAAGAGCTAAACAGAAA
106857384 GTAAACACGA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
Found at i:106857345 original size:21 final size:21
Alignment explanation
Indices: 106857243--106857383 Score: 113
Period size: 21 Copynumber: 6.7 Consensus size: 21
106857233 GAAGCTTATG
* *
106857243 AGAGCTAAACAGAAACCCATA
1 AGAGCTGAACAGAAACTCATA
* *
106857264 AGGGTTGAAC-GAAAACTCATA
1 AGAGCTGAACAG-AAACTCATA
* *
106857285 AGAGCTGAACAGAAACCCTTA
1 AGAGCTGAACAGAAACTCATA
* * * *
106857306 AGAGTTAAACAGAAGCTCAAA
1 AGAGCTGAACAGAAACTCATA
*
106857327 AGTGCTGAACAGAAACTCATA
1 AGAGCTGAACAGAAACTCATA
* * * *
106857348 TGAGTTTAACAGAAGCTCATA
1 AGAGCTGAACAGAAACTCATA
* *
106857369 AGAGCTAAACGGAAA
1 AGAGCTGAACAGAAA
106857384 GTAAACACGA
Statistics
Matches: 89, Mismatches: 29, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 87 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (21 bp):
AGAGCTGAACAGAAACTCATA
Done.