Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 64 of 433
Found at i:18426129 original size:50 final size:51
Alignment explanation
Indices: 18426023--18426150 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
18426013 GACCATGGCA
18426023 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTG
*
18426074 A-AAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAATGACAAA-TG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
* * *
18426123 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
18426151 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
49 25 0.36
50 39 0.56
51 6 0.09
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTG
Found at i:18426164 original size:31 final size:31
Alignment explanation
Indices: 18426126--18426305 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
18426116 ACAAATGACA
*
18426126 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
18426157 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
18426188 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
18426219 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
18426250 AATGAAAAATGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
18426281 AATGAATAA-TGGTAGCTTCGTCTAC
1 AGTGAA-AAGTGGTAGCTTCGGCTAC
18426306 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
31 134 0.99
32 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:18426400 original size:47 final size:46
Alignment explanation
Indices: 18426330--18426494 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
18426320 AAGTGATTTT
* *
18426330 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
18426376 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
18426423 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
18426465 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
18426495 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:18426482 original size:42 final size:43
Alignment explanation
Indices: 18426424--18426538 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
18426414 TATGTGATTC
*
18426424 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
18426466 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
18426508 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
18426539 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:18430663 original size:19 final size:19
Alignment explanation
Indices: 18430629--18430673 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
18430619 AATGATAATT
*
18430629 AAATTAAAGTTAATTAAACC
1 AAATT-AAGGTAATTAAACC
*
18430649 AAATTAAGGTAATTAAACT
1 AAATTAAGGTAATTAAACC
18430668 AAATTA
1 AAATTA
18430674 CTTAGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATTAAGGTAATTAAACC
Found at i:18433347 original size:30 final size:30
Alignment explanation
Indices: 18433313--18433374 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
18433303 TCCAGTCATA
18433313 TAATCAGCACATATATTCACATCACACACT
1 TAATCAGCACATATATTCACATCACACACT
18433343 TAATCAGCACATATATTCACATCACACACT
1 TAATCAGCACATATATTCACATCACACACT
18433373 TA
1 TA
18433375 CACATACCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.27
Consensus pattern (30 bp):
TAATCAGCACATATATTCACATCACACACT
Found at i:18434578 original size:15 final size:16
Alignment explanation
Indices: 18434560--18434590 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18434550 ATAACCCAAA
18434560 ATTTTAAT-TTTAATT
1 ATTTTAATATTTAATT
18434575 ATTTTAATATTTAATT
1 ATTTTAATATTTAATT
18434591 TTAATTATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATATTTAATT
Found at i:18441383 original size:53 final size:53
Alignment explanation
Indices: 18441314--18441519 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
18441304 TTCCTTTTTA
* * *
18441314 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
18441367 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTACCTTATTG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * *
18441421 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * * *
18441476 AACTTATCA-AGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
18441520 AAACCTTAAT
Statistics
Matches: 120, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
53 72 0.60
54 10 0.08
55 38 0.32
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:18449922 original size:20 final size:20
Alignment explanation
Indices: 18449878--18449931 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
18449868 AACAGGGGTC
18449878 ACACGCCCGTGTGGCTTAAG
1 ACACGCCCGTGTGGCTTAAG
* * **
18449898 CCACGTCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTAAG
*
18449918 ACACGCCCATGTGG
1 ACACGCCCGTGTGG
18449932 TCACACACGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTAAG
Found at i:18451099 original size:42 final size:43
Alignment explanation
Indices: 18451052--18451168 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
18451042 TACCTTACCA
* *
18451052 ATGCCATATCCTAGATATGGTCTTATATGTAA-TATTGTATCG
1 ATGCCATATCCTAGATATGGTCTTACATGTAAGTATTATATCG
* * * * *
18451094 ATGCCAATAGCCCAGTTATGGTCTTACACG-AAGTCTTATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACATGTAAGTATTATATCG
18451137 ATGCCATATCCTAGATATGGTCTTACATGTAA
1 ATGCCATATCCTAGATATGGTCTTACATGTAA
18451169 ATCTCAGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (43 bp):
ATGCCATATCCTAGATATGGTCTTACATGTAAGTATTATATCG
Found at i:18455076 original size:43 final size:43
Alignment explanation
Indices: 18454919--18455077 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
18454909 TATGTGTTAT
*
18454919 CGTGTAAGACCACGTTTGGGACATTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTA
* * *
18454963 CGTGTAAGACCAAGTCTGGGACATTGGCATC-ATATATGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
* ** * * *
18455005 TGTAAAATACC-CTGTCTGGGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* *
18455048 CGTGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
18455078 TATATGAGCT
Statistics
Matches: 90, Mismatches: 21, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 25 0.28
43 34 0.38
44 31 0.34
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:18461363 original size:42 final size:42
Alignment explanation
Indices: 18461286--18461423 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
18461276 GTCCAGACAT
* * *
18461286 GGTCTTACATGTAATTCAATATCGATGCATCTGTCCCAAACAA
1 GGTCTTACATGTAAATCAATA-CGATGCCTATGTCCCAAACAA
* *
18461329 GGTCTTACATG-AAATCAGATACGATGCCTATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATACGATGCCTATGTCCCAAACAA
* * *
18461371 GGTCTTACACGTAAATCTCAA-ATCGAGGCC-AGTGTCCCAAACAC
1 GGTCTTACATGTAAA--TCAATA-CGATGCCTA-TGTCCCAAACAA
18461415 GGTCTTACA
1 GGTCTTACA
18461424 CAATATCTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
42 32 0.40
43 19 0.24
44 26 0.32
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAAATCAATACGATGCCTATGTCCCAAACAA
Found at i:18461419 original size:44 final size:42
Alignment explanation
Indices: 18461317--18461424 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 42
18461307 TCGATGCATC
* * *
18461317 TGTCCCAAACAAGGTCTTACATGAAATCAGATACGATGCCTA
1 TGTCCCAAACAAGGTCTTACACGAAATCAAATACGAGGCCTA
* *
18461359 TGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCC-A
1 TGTCCCAAACAAGGTCTTACACG-AAA--TCAAATACGAGGCCTA
*
18461402 GTGTCCCAAACACGGTCTTACAC
1 -TGTCCCAAACAAGGTCTTACAC
18461425 AATATCTCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 20 0.36
43 4 0.07
44 26 0.47
45 5 0.09
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
TGTCCCAAACAAGGTCTTACACGAAATCAAATACGAGGCCTA
Found at i:18466774 original size:25 final size:25
Alignment explanation
Indices: 18466726--18466783 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
18466716 ATAAAACCTA
*
18466726 AAAATGAAATAGTATTAAAGGAAGAT
1 AAAAT-AAAAAGTATTAAAGGAAGAT
18466752 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAAGGAAGAT
18466777 -AAATAAA
1 AAAATAAA
18466784 GATAAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 10 0.33
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAAGGAAGAT
Found at i:18474356 original size:55 final size:55
Alignment explanation
Indices: 18474297--18474407 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
18474287 CGAGCCTGCC
* *
18474297 AAAACAACACGGGCGTCCGACACGCCCGTGTGGAAG-AACCATGGTCAAACCTGTT
1 AAAACAACACGGGCATCCGACACGCCCGTG-GCAAGCAACCATGGTCAAACCTGTT
* * * * * *
18474352 AAAACAGCACGGGCATGCGACACTCCCGTGGCTAGCATCCATGGTCGAACCTGTT
1 AAAACAACACGGGCATCCGACACGCCCGTGGCAAGCAACCATGGTCAAACCTGTT
18474407 A
1 A
18474408 GATTGACACG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 3 0.06
55 44 0.94
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCATCCGACACGCCCGTGGCAAGCAACCATGGTCAAACCTGTT
Found at i:18488553 original size:40 final size:40
Alignment explanation
Indices: 18488496--18488720 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
18488486 CTAATGGGGT
* * * *
18488496 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
18488536 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
18488576 TAAGTCTCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
18488616 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * *
18488656 TAAGTCCCGAAGACATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
18488696 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
18488721 GGTTATATCC
Statistics
Matches: 167, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 11 0.07
40 156 0.93
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:18488629 original size:80 final size:80
Alignment explanation
Indices: 18488496--18488746 Score: 321
Period size: 80 Copynumber: 3.2 Consensus size: 80
18488486 CTAATGGGGT
*
18488496 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
18488561 TTACTA-ATTCCGAGC
66 TTACTATA-TCCGAGC
* * * *
18488576 TAAGTCTCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
18488641 TTACTATATCCGGGC
66 TTACTATATCCGAGC
* * * *
18488656 TAAGTCCCGAAGACATTTGTGCTAGTGAC-CATATCCGGGCTAAGACCCGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
***
18488719 GTGGTTATATCCG-GC
65 GTTACTATATCCGAGC
* *
18488734 TAAATCCCAAAGA
1 TAAGTCCCGAAGA
18488747 TAATTGGGTT
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
78 13 0.09
79 20 0.13
80 116 0.77
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGAGC
Found at i:18492707 original size:17 final size:17
Alignment explanation
Indices: 18492675--18492707 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18492665 TCTGGCGTAG
18492675 TTTTGGTTTATCGTGTA
1 TTTTGGTTTATCGTGTA
18492692 TTTTCGGTTTAT-GTGT
1 TTTT-GGTTTATCGTGT
18492708 CCGCCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.09, C:0.06, G:0.24, T:0.61
Consensus pattern (17 bp):
TTTTGGTTTATCGTGTA
Found at i:18499165 original size:44 final size:42
Alignment explanation
Indices: 18499099--18499229 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 42
18499089 CGATATGTGT
* *
18499099 TTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGGCTTATGA
1 TTTTGTGTAAGACCATGTCTGGGACGTTGGCATCGGATT-TGA
*
18499142 TTTATGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGA
1 TTT-TGTGTAAGACCATGTCTGGGACGTTGGCATCGGATTTGA
* * * * *
18499185 TTTCGTGCAAGACCCTGTCTAGGACAG-TGGCATCGATATTTGA
1 TTTTGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-GATTTGA
18499228 TT
1 TT
18499230 ACATGTAAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
42 26 0.33
43 19 0.24
44 33 0.42
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (42 bp):
TTTTGTGTAAGACCATGTCTGGGACGTTGGCATCGGATTTGA
Found at i:18500969 original size:21 final size:22
Alignment explanation
Indices: 18500943--18500984 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18500933 CTCTTGAAAC
18500943 AGGGGC-ACACGCCCATGTGGA
1 AGGGGCGACACGCCCATGTGGA
*
18500964 AGGGGCGACACGCCCGTGTGG
1 AGGGGCGACACGCCCATGTGG
18500985 CCTTCTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.19, C:0.29, G:0.43, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCCATGTGGA
Found at i:18501161 original size:28 final size:29
Alignment explanation
Indices: 18501110--18501165 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
18501100 ACAGGGGCTT
18501110 TCACACGGCCTGGCACACGTCCGTGTCCC
1 TCACACGGCCTGGCACACGTCCGTGTCCC
18501139 TCACACGGCCAT-G-ACACGTCCGTGTCC
1 TCACACGGCC-TGGCACACGTCCGTGTCC
18501166 AAAAACCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 14 0.54
29 11 0.42
30 1 0.04
ACGTcount: A:0.16, C:0.43, G:0.23, T:0.18
Consensus pattern (29 bp):
TCACACGGCCTGGCACACGTCCGTGTCCC
Found at i:18502321 original size:49 final size:48
Alignment explanation
Indices: 18502191--18502435 Score: 191
Period size: 49 Copynumber: 5.1 Consensus size: 48
18502181 AAACATGGTT
* *
18502191 TTACACTGGCTCTCAC-ATCTAAGTCGATGCCATCTCCCAGACAGGTC
1 TTACACTGGCTCTCACTATCTGAGTCGATGCCATGTCCCAGACAGGTC
* * *
18502238 TTACACTGACT-TC-C-ATACATCGAAGCCGATGCCATGTCCCAGGCAGGTC
1 TTACACTGGCTCTCACTAT-C-T-G-AGTCGATGCCATGTCCCAGACAGGTC
* * * *
18502287 TTACACTGGCTCTCACTTATCTGTGTCGACGCCATGTTCTAGACAGGTC
1 TTACACTGGCTCTCAC-TATCTGAGTCGATGCCATGTCCCAGACAGGTC
* * * * * * *
18502336 TTACACT-G-ACACAC-CTC-AAGCCAATGCCATGTTCCAGACAGGTC
1 TTACACTGGCTCTCACTATCTGAGTCGATGCCATGTCCCAGACAGGTC
* * * * *
18502380 TTACGCTGGCTCTCATCTATCAGTGCCGATGCCATATCCCAGACAGGTC
1 TTACACTGGCTCTCA-CTATCTGAGTCGATGCCATGTCCCAGACAGGTC
18502429 TTACACT
1 TTACACT
18502436 AGCACACACA
Statistics
Matches: 154, Mismatches: 31, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
44 27 0.18
45 6 0.04
46 6 0.04
47 16 0.10
48 3 0.02
49 88 0.57
50 3 0.02
51 2 0.01
52 1 0.01
53 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
TTACACTGGCTCTCACTATCTGAGTCGATGCCATGTCCCAGACAGGTC
Found at i:18502389 original size:93 final size:93
Alignment explanation
Indices: 18502171--18502449 Score: 294
Period size: 93 Copynumber: 2.9 Consensus size: 93
18502161 CGATGCTGAC
* * * ** *
18502171 GCCATGTTCTAAACATGGTTTTACACTGGCTCTCAC--ATCTAAGTCGATGCCATCTCCCAGACA
1 GCCATGTTCCAGACA-GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATATCCCAGACA
* *
18502234 GGTCTTACACTGACTTCCATACATCGAAGCCGAT
65 GGTCTTACACTGA----CACACATC-AAGCCAAT
* * * * * *
18502268 GCCATGTCCCAGGCAGGTCTTACACTGGCTCTCACTTATCTGTGTCGACGCCATGTTCTAGACAG
1 GCCATGTTCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATATCCCAGACAG
*
18502333 GTCTTACACTGACACACCTCAAGCCAAT
66 GTCTTACACTGACACACATCAAGCCAAT
* * *
18502361 GCCATGTTCCAGACAGGTCTTACGCTGGCTCTCA-TCTATCAGTGCCGATGCCATATCCCAGACA
1 GCCATGTTCCAGACAGGTCTTACACTGGCTCTCACT-TATCTGTGTCGATGCCATATCCCAGACA
18502425 GGTCTTACACTAGCACACACATCAA
65 GGTCTTACACT-G-ACACACATCAA
18502450 TCAAATATCA
Statistics
Matches: 153, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
92 1 0.01
93 71 0.46
94 7 0.05
95 10 0.07
96 19 0.12
97 11 0.07
98 34 0.22
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (93 bp):
GCCATGTTCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATATCCCAGACAG
GTCTTACACTGACACACATCAAGCCAAT
Found at i:18505084 original size:18 final size:18
Alignment explanation
Indices: 18505061--18505096 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18505051 ATAGACCTAC
*
18505061 GAGGTCCAAAATACGCTT
1 GAGGTCCAAAACACGCTT
18505079 GAGGTCCAAAACACGCTT
1 GAGGTCCAAAACACGCTT
18505097 TGGAAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.19
Consensus pattern (18 bp):
GAGGTCCAAAACACGCTT
Found at i:18506602 original size:96 final size:96
Alignment explanation
Indices: 18506502--18506725 Score: 263
Period size: 96 Copynumber: 2.3 Consensus size: 96
18506492 TTCTCAATGC
* * * * * *
18506502 CGATGTCATGTCCCAGATAGGGTCTTACTCTAG-CTCTCATAACATTGTCGATGCCATGTTCCAA
1 CGATGCCATGTCCCAAACAGGGTCTTACACTAGCCT-TCATAACATGGCCGATGCCATGTTCCAA
*
18506566 ACATGGTCTTACACTGGCTCTCATAATGTGGT
65 ACATGGTCTTACACTGACTCTCATAATGTGGT
* * **
18506598 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCTTCATAATGTGGCCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAAACAGGGTCTTACACTAGCCTTCATAACATGGCCGATGCCATGTTCCAAA
* * *
18506663 TATGGTCTTACACTGACTCTCATAATATTG-
66 CATGGTCTTACACTGACTCTCATAATGTGGT
* * *
18506693 CTGAGGTCATGTCCCAAACATGGTCTTACACTA
1 C-GATGCCATGTCCCAAACAGGGTCTTACACTA
18506726 TCACACATAT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 1 0.01
96 106 0.97
97 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACAGGGTCTTACACTAGCCTTCATAACATGGCCGATGCCATGTTCCAAA
CATGGTCTTACACTGACTCTCATAATGTGGT
Found at i:18506621 original size:23 final size:23
Alignment explanation
Indices: 18506542--18506621 Score: 56
Period size: 23 Copynumber: 3.4 Consensus size: 23
18506532 TAGCTCTCAT
*
18506542 AACATTGTCGATGCCATGTTCCA
1 AACATGGTCGATGCCATGTTCCA
** *
18506565 AACATGGTC--TTACACTGGCTCTCA
1 AACATGGTCGATGCCA-T-GTTC-CA
**
18506589 TAATGTGGTCGATGCCATGTTCCA
1 -AACATGGTCGATGCCATGTTCCA
18506613 AACATGGTC
1 AACATGGTC
18506622 TTACACTAGC
Statistics
Matches: 40, Mismatches: 11, Indels: 12
0.63 0.17 0.19
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 18 0.45
24 4 0.10
25 10 0.25
26 1 0.03
27 3 0.08
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (23 bp):
AACATGGTCGATGCCATGTTCCA
Found at i:18506670 original size:144 final size:141
Alignment explanation
Indices: 18506401--18506736 Score: 376
Period size: 144 Copynumber: 2.3 Consensus size: 141
18506391 AAAAGGGTAA
* *
18506401 ATTGCCGATGCCATATCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGTCGATGCCATGTC
1 ATTG-CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATGTC
* * * *
18506466 TCAGACATGGTCTTACACTAGCTCCCTTCTCAATGCCGATGTCATGTCCCAGATAGGGTCTTACT
65 TCAAACATGGTCTTACACTAG--CCCTTCTCAATGCCGATGCCATGTCCCAAATAGGGTCTTACA
18506531 CT-AGCTCTCATAAC
128 CTGA-CTCTCATAAC
* * * *
18506545 ATTGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCCATGT
1 ATTG-CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCGAGGTCGATGCCATGT
* *
18506609 -TCCAAACATGGTCTTACACTAG-CCTTCAT-AATGTGGCCGATGCCATGTTCCAAATATGGTCT
64 CT-CAAACATGGTCTTACACTAGCCCTTC-TCAA--T-GCCGATGCCATGTCCCAAATAGGGTCT
*
18506671 TACACTGACTCTCATAAT
124 TACACTGACTCTCATAAC
* * * *
18506689 ATTGCTGAGGTCATGTCCCAAACATGGTCTTACACTATCACACATATC
1 ATTGC-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC
18506737 ACCCAATGTA
Statistics
Matches: 162, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
141 7 0.04
142 1 0.01
143 5 0.03
144 147 0.91
145 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (141 bp):
ATTGCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATGTCT
CAAACATGGTCTTACACTAGCCCTTCTCAATGCCGATGCCATGTCCCAAATAGGGTCTTACACTG
ACTCTCATAAC
Found at i:18506687 original size:48 final size:48
Alignment explanation
Indices: 18506404--18506724 Score: 239
Period size: 48 Copynumber: 6.7 Consensus size: 48
18506394 AGGGTAAATT
* * * *
18506404 GCCGATGCCATATCCCAAACATGGTCTTACACT-AGCTCACAT-GTCGA-G
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGA-CTCTCATAAT--ATG
* * *
18506452 GTCGATGCCATG-TCTCAGACATGGTCTTACACT-AGCTCCCTTC-TCA-AT-
1 GCCGATGCCATGTTC-CAAACATGGTCTTACACTGA-CT--C-TCATAATATG
* * * * * * * *
18506500 GCCGATGTCATGTCCCAGATAGGGTCTTACTCT-AGCTCTCATAACATT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGA-CTCTCATAATATG
* * *
18506548 GTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAATATG
* * *
18506596 GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCCT-TCATAATGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACT-GACTCTCATAATATG
* *
18506644 GCCGATGCCATGTTCCAAATATGGTCTTACACTGACTCTCATAATATT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAATATG
* * * *
18506692 GCTGAGGTCATGTCCCAAACATGGTCTTACACT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACT
18506725 ATCACACATA
Statistics
Matches: 225, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 3 0.01
47 6 0.03
48 207 0.92
49 4 0.02
50 2 0.01
51 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAATATG
Found at i:18510547 original size:16 final size:16
Alignment explanation
Indices: 18510524--18510563 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18510514 CGTTTGGTTC
18510524 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
* *
18510540 GTTGTAATATAATAGA
1 GCTGTAATAGAATAGA
18510556 GCTGTAAT
1 GCTGTAAT
18510564 TAGTAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:18510757 original size:29 final size:28
Alignment explanation
Indices: 18510722--18510783 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
18510712 TATTATTGTT
18510722 ATTAAAT-TTTAATAAGATTATTAAATATA
1 ATTAAATATTTAATAAGATT-TT-AATATA
* *
18510751 ATTAAATAATTTAATCATATTTTAATATA
1 ATTAAAT-ATTTAATAAGATTTTAATATA
18510780 ATTA
1 ATTA
18510784 TTATTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 17 0.59
30 2 0.07
31 10 0.34
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTAAATATTTAATAAGATTTTAATATA
Found at i:18511662 original size:30 final size:30
Alignment explanation
Indices: 18511626--18511686 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
18511616 ATGTTTGTAA
18511626 TGATTTCATTTGTTGATAAATAATTCCACT
1 TGATTTCATTTGTTGATAAATAATTCCACT
18511656 TGATTTCATTTGTTGATAAATAATTCCACT
1 TGATTTCATTTGTTGATAAATAATTCCACT
18511686 T
1 T
18511687 ACTTCTGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (30 bp):
TGATTTCATTTGTTGATAAATAATTCCACT
Found at i:18511695 original size:26 final size:28
Alignment explanation
Indices: 18511635--18511692 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
18511625 ATGATTTCAT
*
18511635 TTGTTGATAAATAATTCCACTTGATTTC
1 TTGTTGATAAATAATTCCACTTGACTTC
18511663 ATTTGTTGATAAATAATTCCACTT-ACTTC
1 --TTGTTGATAAATAATTCCACTTGACTTC
18511692 T
1 T
18511693 GTTCTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
29 4 0.15
30 22 0.81
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (28 bp):
TTGTTGATAAATAATTCCACTTGACTTC
Found at i:18512127 original size:33 final size:33
Alignment explanation
Indices: 18512063--18512128 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
18512053 TCTGTGTGTT
** *
18512063 CTTTTTTTTCTCTCTTTTCTTTGTGATACATTG
1 CTTTTTTTTCTCTCTTTTCTTTACGACACATTG
18512096 CTTTTTTTTCTCTCTTTTCTTTACGACACATTG
1 CTTTTTTTTCTCTCTTTTCTTTACGACACATTG
18512129 TCATTATCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.11, C:0.21, G:0.08, T:0.61
Consensus pattern (33 bp):
CTTTTTTTTCTCTCTTTTCTTTACGACACATTG
Found at i:18518646 original size:20 final size:20
Alignment explanation
Indices: 18518621--18518660 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18518611 ATTAGGTTAG
18518621 ATTAGATTAGATTTTTCTTT
1 ATTAGATTAGATTTTTCTTT
18518641 ATTAGATTAGATTTTTCTTT
1 ATTAGATTAGATTTTTCTTT
18518661 GTTTTCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (20 bp):
ATTAGATTAGATTTTTCTTT
Found at i:18524828 original size:16 final size:16
Alignment explanation
Indices: 18524796--18524829 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18524786 TTTTCTTTTC
*
18524796 TAAAAATTTTTAAATT
1 TAAAAATTTGTAAATT
*
18524812 TAAAAATTTGTAGATT
1 TAAAAATTTGTAAATT
18524828 TA
1 TA
18524830 TTAATAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAAAAATTTGTAAATT
Found at i:18526512 original size:15 final size:15
Alignment explanation
Indices: 18526492--18526523 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18526482 CTTTTCACTA
*
18526492 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
18526507 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
18526522 TT
1 TT
18526524 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:18526617 original size:17 final size:17
Alignment explanation
Indices: 18526597--18526641 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
18526587 AGATAAGTAG
*
18526597 CATTGTAAGAACGTTTA
1 CATTGCAAGAACGTTTA
*
18526614 CATTGCGAGAACGTTTA
1 CATTGCAAGAACGTTTA
*
18526631 CATTGCGAGAA
1 CATTGCAAGAA
18526642 AGACAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (17 bp):
CATTGCAAGAACGTTTA
Found at i:18527823 original size:21 final size:21
Alignment explanation
Indices: 18527797--18527836 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18527787 CATAAGGAAT
18527797 GGGTTTTGAAAACCATGTTTA
1 GGGTTTTGAAAACCATGTTTA
18527818 GGGTTTTGAAAACCATGTT
1 GGGTTTTGAAAACCATGTT
18527837 GTCTTGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (21 bp):
GGGTTTTGAAAACCATGTTTA
Found at i:18530406 original size:20 final size:21
Alignment explanation
Indices: 18530367--18530407 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
18530357 AATAAGATTT
18530367 AATATTAAATTTAATCTAATA
1 AATATTAAATTTAATCTAATA
* *
18530388 AATATTATA-TTAATTTAATA
1 AATATTAAATTTAATCTAATA
18530408 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTTAATCTAATA
Found at i:18530965 original size:36 final size:36
Alignment explanation
Indices: 18530914--18531022 Score: 112
Period size: 36 Copynumber: 3.0 Consensus size: 36
18530904 TCCACTGGGA
**
18530914 CTTCGGCCTTGTCTTCATGTGCACGTCAGGGTT-ACT
1 CTTCGGCCTCCTCTTCATGTGCACGTCAGGGTTGA-T
* * **
18530950 CTTTGGCCTCCTCTTCATGTACAAATCAGGGTTGAT
1 CTTCGGCCTCCTCTTCATGTGCACGTCAGGGTTGAT
** * *
18530986 CTTCGGCCTCGACTTCATATGCACGTCGGGGTTGAT
1 CTTCGGCCTCCTCTTCATGTGCACGTCAGGGTTGAT
18531022 C
1 C
18531023 GTTGACCTCA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
36 57 0.98
37 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.34
Consensus pattern (36 bp):
CTTCGGCCTCCTCTTCATGTGCACGTCAGGGTTGAT
Found at i:18532171 original size:28 final size:25
Alignment explanation
Indices: 18532127--18532290 Score: 81
Period size: 25 Copynumber: 6.6 Consensus size: 25
18532117 CAATTCGAAG
** *
18532127 TAAATAATATATAAAAAGTTTGAAA
1 TAAATAATATATAAAAAAATTAAAA
18532152 TAAATAATATATAGGAAAAAAATTAAAA
1 TAAATAATATAT---AAAAAAATTAAAA
* **
18532180 TAAATAACA-A-AAAAATGGTTCAAAA
1 TAAATAATATATAAAAA-AATT-AAAA
* *
18532205 T--A-AACAT-TAAAAAAATTAACA
1 TAAATAATATATAAAAAAATTAAAA
* ** *
18532226 TAAATAAAATATAAAACAGTTTGAAA
1 TAAATAATATATAAAA-AAATTAAAA
* ** *
18532252 TAAATAATCTA-AAGCAATTTAAAA
1 TAAATAATATATAAAAAAATTAAAA
18532276 TAAATAATATATAAA
1 TAAATAATATATAAA
18532291 GCATTTTTAA
Statistics
Matches: 104, Mismatches: 22, Indels: 26
0.68 0.14 0.17
Matches are distributed among these distances:
21 4 0.04
22 6 0.06
23 12 0.12
24 23 0.22
25 26 0.25
26 14 0.13
27 1 0.01
28 18 0.17
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.27
Consensus pattern (25 bp):
TAAATAATATATAAAAAAATTAAAA
Found at i:18532356 original size:28 final size:26
Alignment explanation
Indices: 18532127--18532403 Score: 144
Period size: 24 Copynumber: 11.3 Consensus size: 26
18532117 CAATTCGAAG
*
18532127 TAAATAATATATAAAA-AGTTTGAAA
1 TAAATAATATATAAAACAGTTTAAAA
* **
18532152 TAAATAATATATAGGAAAAAAATTAAAA
1 TAAATAATATATA--AAACAGTTTAAAA
* * ** *
18532180 TAAATAACA-AAAAAATGGTTCAAAA
1 TAAATAATATATAAAACAGTTTAAAA
* * *
18532205 TAAA-CAT-TA-AAAA-A-ATTAACA
1 TAAATAATATATAAAACAGTTTAAAA
* *
18532226 TAAATAAAATATAAAACAGTTTGAAA
1 TAAATAATATATAAAACAGTTTAAAA
* * *
18532252 TAAAT-A-ATCTAAAGCAATTTAAAA
1 TAAATAATATATAAAACAGTTTAAAA
* *
18532276 TAAATAATATATAAAGCATTTTTAAAA
1 TAAATAATATATAAAACA-GTTTAAAA
* * * *
18532303 GAAATAAAAAATCTAAA-A---T-AAA
1 TAAATAATATAT-AAAACAGTTTAAAA
*
18532325 T-AAT-ATATATGAAACAGTTTAAAA
1 TAAATAATATATAAAACAGTTTAAAA
* *
18532349 TAAAT-A-ATAGAAAACAGTTTAATA
1 TAAATAATATATAAAACAGTTTAAAA
18532373 TAAATAATATATAAAA-A-TTTAAAA
1 TAAATAATATATAAAACAGTTTAAAA
18532397 TAAATAA
1 TAAATAA
18532404 AATAGCTTAA
Statistics
Matches: 190, Mismatches: 41, Indels: 43
0.69 0.15 0.16
Matches are distributed among these distances:
19 3 0.02
20 5 0.03
21 11 0.06
22 4 0.02
23 8 0.04
24 62 0.33
25 34 0.18
26 25 0.13
27 22 0.12
28 16 0.08
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (26 bp):
TAAATAATATATAAAACAGTTTAAAA
Found at i:18532370 original size:97 final size:94
Alignment explanation
Indices: 18532214--18532428 Score: 265
Period size: 97 Copynumber: 2.3 Consensus size: 94
18532204 ATAAACATTA
* * ** *
18532214 AAAAAAT-TAACATAAATAA-A-ATATAAAACAGTTTGAAATAAATAATCTAAAGCAATTTAAAA
1 AAAAAATCTAAAATAAATAATATATATAAAACAGTTTAAAATAAATAATAGAAAACAATTTAAAA
*
18532276 TAAATAATATATAAAGCATTTTTAAAAGAAAT
66 TAAATAATATATAAA--A-ATTTAAAAGAAAT
* * *
18532308 AAAAAATCTAAAATAAATAATATATATGAAACAGTTTAAAATAAATAATAGAAAACAGTTTAATA
1 AAAAAATCTAAAATAAATAATATATATAAAACAGTTTAAAATAAATAATAGAAAACAATTTAAAA
*
18532373 TAAATAATATATAAAAATTTAAAATAAAT
66 TAAATAATATATAAAAATTTAAAAGAAAT
* *
18532402 AAAATAGCTTAAAATAAATAATATATA
1 AAAAAATC-TAAAATAAATAATATATA
18532429 AAACTATTAA
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
94 24 0.23
95 30 0.29
96 1 0.01
97 50 0.48
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (94 bp):
AAAAAATCTAAAATAAATAATATATATAAAACAGTTTAAAATAAATAATAGAAAACAATTTAAAA
TAAATAATATATAAAAATTTAAAAGAAAT
Found at i:18532420 original size:43 final size:44
Alignment explanation
Indices: 18532212--18532451 Score: 191
Period size: 50 Copynumber: 5.2 Consensus size: 44
18532202 AAATAAACAT
* * * *
18532212 TAAAAAA-ATTAACATAAATAAAATATAAAACAGTTTGAAATAAA
1 TAAAAAAGCTTAAAATAAATAATATATAAAACA-TTTAAAATAAA
* * *
18532256 TAATCTAAAGCAATTTAAAATAAATAATATATAAAGCATTTTTAAAAGAAA
1 TAA--AAAAGC---TTAAAATAAATAATATATAAAACA--TTTAAAATAAA
*
18532307 TAAAAAATC-TAAAATAAATAATATATATGAAACAGTTTAAAATAAATAA
1 TAAAAAAGCTTAAAATAAATAATATATA--AAACA-TTTAAAAT--A-AA
* *
18532356 TAGAAAACAGTTTAATATAAATAATATATAAAA-ATTTAAAATAAA
1 TA-AAAA-AGCTTAAAATAAATAATATATAAAACATTTAAAATAAA
* *
18532401 TAAAATAGCTTAAAATAAATAATATATAAAAC-TATTAAAATGAA
1 TAAAAAAGCTTAAAATAAATAATATATAAAACAT-TTAAAATAAA
18532445 TAAAAAA
1 TAAAAAA
18532452 TAAATAAAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 34
0.74 0.10 0.16
Matches are distributed among these distances:
43 24 0.15
44 21 0.13
45 22 0.14
46 11 0.07
47 4 0.03
48 9 0.06
49 9 0.06
50 28 0.18
51 13 0.08
52 17 0.11
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (44 bp):
TAAAAAAGCTTAAAATAAATAATATATAAAACATTTAAAATAAA
Found at i:18532517 original size:17 final size:18
Alignment explanation
Indices: 18532495--18532530 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18532485 CAGGTTAGGG
*
18532495 ATTAAATTAGAA-TAAAA
1 ATTAAATTAAAAGTAAAA
18532512 ATTAAATTAAAAGTAAAA
1 ATTAAATTAAAAGTAAAA
18532530 A
1 A
18532531 CCATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
ATTAAATTAAAAGTAAAA
Found at i:18533605 original size:14 final size:15
Alignment explanation
Indices: 18533576--18533610 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
18533566 ATTAGGCTTA
*
18533576 GGGTTTTTATATTTT
1 GGGTTTGTATATTTT
18533591 GGGTTTGTA-ATTTT
1 GGGTTTGTATATTTT
18533605 GGGTTT
1 GGGTTT
18533611 AGTTGATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.11, C:0.00, G:0.29, T:0.60
Consensus pattern (15 bp):
GGGTTTGTATATTTT
Found at i:18534210 original size:44 final size:44
Alignment explanation
Indices: 18534147--18534369 Score: 149
Period size: 44 Copynumber: 4.8 Consensus size: 44
18534137 GATGTGCTAT
* *
18534147 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
* ** * *
18534191 CTTCAATCTGCTCCACTGCAATTTCAGAAAGATAAGATCTGCCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G-C-----TGGTGG
* * * * * ** * *
18534245 TTTCAATCTGTTCTAATGCAACTTCAGGGAAATAAGATTCGTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-GGTGG
* * * *
18534290 CTTTAGTCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
* *
18534334 CTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
18534370 ATCCGCCATA
Statistics
Matches: 128, Mismatches: 40, Indels: 22
0.67 0.21 0.12
Matches are distributed among these distances:
44 65 0.51
45 29 0.23
48 1 0.01
49 1 0.01
54 32 0.25
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
Found at i:18534223 original size:143 final size:142
Alignment explanation
Indices: 18533969--18534796 Score: 817
Period size: 143 Copynumber: 5.9 Consensus size: 142
18533959 TTTAGTTTGT
* * * * *** * *
18533969 TTCACTGCAACGCCAGGGAACTAA-AATCTGCTATTTTCAGTCTGCTTTTACAGCAACTTCAAGG
1 TTCACTGCAACGTCAGGGAAATAAGATTC-GCTATCTTCAGTCTGC-TCCGCTGCAACTTCAGGG
* * * * * *
18534033 AGATAAGACTTGTGGCTTCAACCTACTCTACTGCAACTTCAGGAAGATAAGATCCGCCATAATTT
64 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTT
*
18534098 GTAGCTTTAATCTG
129 GTAGCTTCAATCTG
*
18534112 TTCGATTGCAACGTCAGGGAAATAAGATGT-GCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGG
1 TTC-ACTGCAACGTCAGGGAAATAAGAT-TCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGG
* *
18534176 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATTTCAGAAAGATAAGATCTGCCATAATTT
64 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTT
*
18534241 GTAGTTTCAATCTG
129 GTAGCTTCAATCTG
* * * * * *
18534255 TTCTAATGCAACTTCAGGGAAATAAGATTCGTTGTCTTTAGTCTGCTCCGCTACAACTTCAGGGA
1 TTC-ACTGCAACGTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
* *
18534320 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATCCGCCATAATTTG
65 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTG
*
18534385 TAGCTTCAATTTG
130 TAGCTTCAATCTG
* * * * * *
18534398 TTCCACTGCAAC-TCCAAGGAAATAAAATTAGCTTTCTTCAGTCTGTTCCGCTGCAACTTTAGGG
1 TT-CACTGCAACGT-CAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGG
* * * * *
18534462 AGAT-AGAGCTGATGGCTTCAATCTGCTCCATTGCAACTTCAGAAAGAAAAGATCCACCATACTT
64 AGATAAG-GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATT
**
18534526 CATAGCTTCAATCTG
128 TGTAGCTTCAATCTG
* * * *
18534541 TTTCACTGCAACTTCAGGGAAATAAGATTCGCTTTCTTTAGTCTGCTCTGCTGCAACTTCAGGGA
1 -TTCACTGCAACGTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
* * * * * * *
18534606 GATAAGGCTGGT-GCTTCGATCCGCTCCAATGTAATTTC--AAGGAGAAGA---G-----ATTTG
65 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTG
*
18534660 TAGCTTCGATCTAG
130 TAGCTTCAATCT-G
* * * * * * *
18534674 TCTGC-C-GGAACTTCAAGGAGATAAGAATCACTATCTTCAGTCTGCTCCGCTGCAAGTTCAGGG
1 T-T-CACTGCAACGTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGG
* * * * * * *
18534737 AGATAGGGCTGGTGGCTTCAATTTACTCCACTGTAACTTAAGGAAGATAAGATCTGCCAT
64 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCAT
18534797 CTTCGATCTA
Statistics
Matches: 569, Mismatches: 93, Indels: 47
0.80 0.13 0.07
Matches are distributed among these distances:
132 74 0.13
133 22 0.04
134 1 0.00
135 7 0.01
138 1 0.00
140 8 0.01
142 25 0.04
143 390 0.69
144 39 0.07
145 1 0.00
146 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (142 bp):
TTCACTGCAACGTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAG
ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTGT
AGCTTCAATCTG
Found at i:18534389 original size:286 final size:284
Alignment explanation
Indices: 18534022--18534796 Score: 909
Period size: 286 Copynumber: 2.7 Consensus size: 284
18534012 GCTTTTACAG
* * * * * * *
18534022 CAACTTCAAGGAGATAAGACTTGTGGCTTCAACCTACTCTACTGCAACTTCAGGAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATC
* * *
18534087 CGCCATAATTTGTAGCTTTAATCTGTTCGATTGCAACGTCAGGGAAATAAGATGTGCTATCTTCA
66 CGCCATAATTTGTAGCTTCAATCTGTTCGACTGCAAC-TCAAGGAAATAAGAT-TGCTATCTTCA
*
18534152 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATTTCA
129 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
** *
18534217 GAAAGATAAGATCTGCCATAATTTGTAGTTTCAATCTG-TTCTAATGCAACTTCAGGGAAATAAG
194 GAAAGATAAGATCTGCCATAATTCATAGCTTCAATCTGTTTC-AATGCAACTTCAGGGAAATAAG
18534281 ATTCG-TTGTCTTTAGTCTGCTCCGCTA
258 ATTCGCTT-TCTTTAGTCTGCTCCGCTA
18534308 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATC
* * * *
18534373 CGCCATAATTTGTAGCTTCAATTTGTTCCACTGCAACTCCAAGGAAATAAAATTAGCTTTCTTCA
66 CGCCATAATTTGTAGCTTCAATCTGTTCGACTGCAACT-CAAGGAAATAAGATT-GCTATCTTCA
* * * *
18534438 GTCTGTTCCGCTGCAACTTTAGGGAGAT-AGAGCTGATGGCTTCAATCTGCTCCATTGCAACTTC
129 GTCTGCTCCGCTGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* ** * *
18534502 AGAAAGAAAAGATCCACCATACTTCATAGCTTCAATCTGTTTCACTGCAACTTCAGGGAAATAAG
193 AGAAAGATAAGATCTGCCATAATTCATAGCTTCAATCTGTTTCAATGCAACTTCAGGGAAATAAG
* *
18534567 ATTCGCTTTCTTTAGTCTGCTCTGCTG
258 ATTCGCTTTCTTTAGTCTGCTCCGCTA
* * * *
18534594 CAACTTCAGGGAGATAAGGCTGGT-GCTTCGATCCGCTCCAATGTAATTTCAAGG-AG--AAGA-
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTC-AGGAAGATAAGAT
* * * * **
18534654 --G-----ATTTGTAGCTTCGATCTAG-TCTG-CCGGAACTTCAAGGAGATAAGAATCACTATCT
65 CCGCCATAATTTGTAGCTTCAATCT-GTTC-GACTGCAAC-TCAAGGAAATAAG-ATTGCTATCT
* * * * *
18534710 TCAGTCTGCTCCGCTGCAAGTTCAGGGAGATAGGGCTGGTGGCTTCAATTTACTCCACTGTAACT
126 TCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACT
* *
18534775 TAAGGAAGATAAGATCTGCCAT
191 TCAGAAAGATAAGATCTGCCAT
18534797 CTTCGATCTA
Statistics
Matches: 421, Mismatches: 57, Indels: 33
0.82 0.11 0.06
Matches are distributed among these distances:
275 108 0.26
276 5 0.01
280 1 0.00
283 4 0.01
285 28 0.07
286 270 0.64
287 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (284 bp):
CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATC
CGCCATAATTTGTAGCTTCAATCTGTTCGACTGCAACTCAAGGAAATAAGATTGCTATCTTCAGT
CTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGA
AAGATAAGATCTGCCATAATTCATAGCTTCAATCTGTTTCAATGCAACTTCAGGGAAATAAGATT
CGCTTTCTTTAGTCTGCTCCGCTA
Found at i:18535784 original size:53 final size:53
Alignment explanation
Indices: 18535704--18535807 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
18535694 AGGAGCATAG
18535704 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
* *
18535757 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATT
18535808 GAGTAGGAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
Found at i:18537442 original size:46 final size:46
Alignment explanation
Indices: 18537337--18537443 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
18537327 TCAATTGATT
* * *
18537337 GAAGAAGCCACAAATCCTATACCCGTGAGCTGCAATGGGATGGATT
1 GAAGAAACCAAAAATCCTATACCCGTGAGCTGCAATGGGATGGATG
* * * * * *
18537383 AAAGATGA-TAAAAATCCTATACCCTTGAGTTGCAGTGGGATGGATG
1 GAAGA-AACCAAAAATCCTATACCCGTGAGCTGCAATGGGATGGATG
18537429 GAAGAAACCAAAAAT
1 GAAGAAACCAAAAAT
18537444 TTTATCTCCC
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
45 1 0.02
46 46 0.98
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (46 bp):
GAAGAAACCAAAAATCCTATACCCGTGAGCTGCAATGGGATGGATG
Found at i:18538099 original size:144 final size:144
Alignment explanation
Indices: 18537828--18538105 Score: 346
Period size: 144 Copynumber: 1.9 Consensus size: 144
18537818 AAAGTTGTAA
* *
18537828 ATCTTATCTCCTTAAAGTTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTA
1 ATCTTATCTCCTTAAAGTTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCACTGAAGTTA
* * * * *
18537893 CAGCAGAGCAGACTGAAGACAGCATATCTTATTTTCCTGACGTTGCAATAGAACAGATTAAAGCT
66 CAGCAGAGCAGACTGAAAACAGCAGATCTTATTTCCCTGACGTTGCAATAGAACAAACTAAAGCT
18537958 ACAAATTATGGCGG
131 ACAAATTATGGCGG
* * * * *
18537972 ATCTTATCTTCC-TGAAG-TTGTAGTGGAGTAGGTTGAAGCCACAAGTCTTATCTCACTGAAGTT
1 ATCTTATC-TCCTTAAAGTTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCACTGAAGTT
** * * * *
18538035 GTAGTAGGAGCAGACTGAAAATAGCAGATCTTATTTCCCTGACGTTGCAGT-GAAATAAACTAAA
65 ACAGCA-GAGCAGACTGAAAACAGCAGATCTTATTTCCCTGACGTTGCAATAG-AACAAACTAAA
18538099 GCTACAA
128 GCTACAA
18538106 GCCACAAACC
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
143 44 0.39
144 66 0.58
145 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (144 bp):
ATCTTATCTCCTTAAAGTTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCACTGAAGTTA
CAGCAGAGCAGACTGAAAACAGCAGATCTTATTTCCCTGACGTTGCAATAGAACAAACTAAAGCT
ACAAATTATGGCGG
Found at i:18539661 original size:24 final size:24
Alignment explanation
Indices: 18539634--18539937 Score: 176
Period size: 24 Copynumber: 12.2 Consensus size: 24
18539624 TTAAGCTATT
18539634 TTATTTATTTTAAATTTTTATATA
1 TTATTTATTTTAAATTTTTATATA
* * *
18539658 TTATTTATATTAAACTGTTT-TCTA
1 TTATTTATTTTAAA-TTTTTATATA
18539682 TTATTTATTTTAAACTGTTTCATATATA
1 TTATTTATTTTAAA-T-TTT--TATATA
*
18539710 TTATTTATTTTAAATTTTTTTAT-
1 TTATTTATTTTAAATTTTTATATA
* *** *
18539733 TTCTTT-TAAAAAATGCTTTATATA
1 TTATTTATTTTAAAT-TTTTATATA
*
18539757 TTATTTATTTTAAATTGCTT-TATA
1 TTATTTATTTTAAATT-TTTATATA
* * *
18539781 TTATTTATTTCAAACTGTTTTGTATT
1 TTATTTATTTTAAA-T-TTTTATATA
* *
18539807 TTATTTA-TGTCAATTTTT-T-TA
1 TTATTTATTTTAAATTTTTATATA
* *
18539828 TTGTTTATTTTGAACCATTTTT-T-TG
1 TTATTTATTTT-AA--ATTTTTATATA
*
18539853 TTATTTATTTTAATTTTTTTCCTATATA
1 TTATTTATTTTAA--ATTTT--TATATA
*
18539881 TTATTTATTTCAAACTTTTTATATA
1 TTATTTATTTTAAA-TTTTTATATA
** *
18539906 TTATTTACTTCGAATTGTTTTATATA
1 TTATTTA-TTTTAAAT-TTTTATATA
18539932 TTATTT
1 TTATTT
18539938 TGTTTCGTTT
Statistics
Matches: 217, Mismatches: 40, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
21 7 0.03
22 8 0.04
23 16 0.07
24 64 0.29
25 51 0.24
26 34 0.16
27 7 0.03
28 30 0.14
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (24 bp):
TTATTTATTTTAAATTTTTATATA
Found at i:18539789 original size:99 final size:93
Alignment explanation
Indices: 18539605--18539829 Score: 263
Period size: 99 Copynumber: 2.4 Consensus size: 93
18539595 TTTGTTAATA
** * *
18539605 GTTTTATATATTATTTATTTTAAGCTATTTTATTTATTTTAAATTTTTATATATTATTTATATTA
1 GTTTTATATATTATTTATTTTAAATTTTTTTATTTATTTTAAATCTTTATATATTATTTATATTA
* * *
18539670 AACTGTTTTCTATTATTTATTTTAAACT
66 AACTGCTTTATATTATTTATTTCAAACT
*
18539698 GTTTCATATATATTATTTATTTTAAATTTTTTTATTTCTTTTAAAAAATGCTTTATATATTATTT
1 GTTT--TATATATTATTTATTTTAAATTTTTTTATTTATTTT---AAAT-CTTTATATATTATTT
* *
18539763 ATTTTAAATTGCTTTATATTATTTATTTCAAACT
60 ATATTAAACTGCTTTATATTATTTATTTCAAACT
* * * *
18539797 GTTTTGTATTTTATTTA-TGTCAATTTTTTTATT
1 GTTTTATATATTATTTATTTTAAATTTTTTTATT
18539830 GTTTATTTTG
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
93 4 0.04
95 32 0.29
96 14 0.12
97 11 0.10
98 4 0.04
99 47 0.42
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (93 bp):
GTTTTATATATTATTTATTTTAAATTTTTTTATTTATTTTAAATCTTTATATATTATTTATATTA
AACTGCTTTATATTATTTATTTCAAACT
Found at i:18539868 original size:21 final size:21
Alignment explanation
Indices: 18539755--18539872 Score: 65
Period size: 25 Copynumber: 5.0 Consensus size: 21
18539745 ATGCTTTATA
*
18539755 TATTATTTATTTTAAATTGCTTTA
1 TATTATTTATTTT-AATT--TTTT
*
18539779 TATTATTTATTTCAAACTGTTTTGT
1 TATTATTTATTT-TAA-T-TTTT-T
* * *
18539804 ATTTTATTTATGTCAATTTTTT
1 -TATTATTTATTTTAATTTTTT
*
18539826 TATTGTTTATTTTGAACCATTTTTT
1 TATTATTTATTTT--A--ATTTTTT
*
18539851 TGTTATTTATTTTAATTTTTT
1 TATTATTTATTTTAATTTTTT
18539872 T
1 T
18539873 CCTATATATT
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
21 17 0.23
22 1 0.01
23 6 0.08
24 18 0.24
25 21 0.28
26 11 0.15
ACGTcount: A:0.23, C:0.05, G:0.06, T:0.66
Consensus pattern (21 bp):
TATTATTTATTTTAATTTTTT
Found at i:18539931 original size:26 final size:25
Alignment explanation
Indices: 18539875--18539937 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
18539865 ATTTTTTTCC
*
18539875 TATATATTATTTATTTCAAACTTTT
1 TATATATTATTTACTTCAAACTTTT
* *
18539900 TATATATTATTTACTTCGAATTGTTT
1 TATATATTATTTACTTCAAACT-TTT
18539926 TATATATTATTT
1 TATATATTATTT
18539938 TGTTTCGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (25 bp):
TATATATTATTTACTTCAAACTTTT
Found at i:18543059 original size:4 final size:4
Alignment explanation
Indices: 18543050--18543078 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
18543040 AGCAAACGTG
18543050 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
18543079 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:18551504 original size:6 final size:6
Alignment explanation
Indices: 18551493--18551522 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18551483 TTTATTATAA
18551493 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
18551523 CGGTTCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:18552429 original size:25 final size:26
Alignment explanation
Indices: 18552381--18552429 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
18552371 TATTAAAATC
18552381 AAATTCAAATGACAAACTAAAACAAA
1 AAATTCAAATGACAAACTAAAACAAA
* * *
18552407 AAATTTAAAT-ACCAACTTAAACA
1 AAATTCAAATGACAAACTAAAACA
18552430 TTAAAACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.20
Consensus pattern (26 bp):
AAATTCAAATGACAAACTAAAACAAA
Found at i:18553947 original size:2 final size:2
Alignment explanation
Indices: 18553940--18553964 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18553930 AAGCTAAAAT
18553940 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18553965 TCTTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18554343 original size:2 final size:2
Alignment explanation
Indices: 18554295--18554325 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
18554285 AGTATTCTTA
18554295 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
18554326 TTGTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18557034 original size:28 final size:28
Alignment explanation
Indices: 18557002--18557058 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18556992 GAATATATGC
18557002 ATGTGTTAAAGTTTCATGAAGAAATTCT
1 ATGTGTTAAAGTTTCATGAAGAAATTCT
18557030 ATGTGTTAAAGTTTCATGAAGAAATTCT
1 ATGTGTTAAAGTTTCATGAAGAAATTCT
18557058 A
1 A
18557059 AGTATAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (28 bp):
ATGTGTTAAAGTTTCATGAAGAAATTCT
Found at i:18557864 original size:167 final size:167
Alignment explanation
Indices: 18557588--18557926 Score: 642
Period size: 167 Copynumber: 2.0 Consensus size: 167
18557578 AAAACCCTTA
* *
18557588 TAGGGACTATTATGCAAAAGATGTAAATGTGTGGTAGAAATGAGAAAATAATGGAAAATGTGGGC
1 TAGGGACTATTATGAAAAAGATGTAAATGTGTGGTAGAAATGAGAAAATAATGGAAAATGCGGGC
18557653 TACCATAAGAAGGAAAAGTGTTCAGCTAGGCTTGGGTAAGATAAAAAGTGCATGTGTTTCATTAT
66 TACCATAAGAAGGAAAAGTGTTCAGCTAGGCTTGGGTAAGATAAAAAGTGCATGTGTTTCATTAT
*
18557718 ACGAGCCTAGGGACTAAATCGTAAAAATGTGAAAGGT
131 ACGAGCCTAAGGACTAAATCGTAAAAATGTGAAAGGT
*
18557755 TAGGGACTATTTTGAAAAAGATGTAAATGTGTGGTAGAAATGAGAAAATAATGGAAAATGCGGGC
1 TAGGGACTATTATGAAAAAGATGTAAATGTGTGGTAGAAATGAGAAAATAATGGAAAATGCGGGC
18557820 TACCATAAGAAGGAAAAGTGTTCAGCTAGGCTTGGGTAAGATAAAAAGTGCATGTGTTTCATTAT
66 TACCATAAGAAGGAAAAGTGTTCAGCTAGGCTTGGGTAAGATAAAAAGTGCATGTGTTTCATTAT
18557885 ACGAGCCTAAGGACTAAATCGTAAAAATGTGAAAGGT
131 ACGAGCCTAAGGACTAAATCGTAAAAATGTGAAAGGT
18557922 TAGGG
1 TAGGG
18557927 GCAAAACGGT
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 168 1.00
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.25
Consensus pattern (167 bp):
TAGGGACTATTATGAAAAAGATGTAAATGTGTGGTAGAAATGAGAAAATAATGGAAAATGCGGGC
TACCATAAGAAGGAAAAGTGTTCAGCTAGGCTTGGGTAAGATAAAAAGTGCATGTGTTTCATTAT
ACGAGCCTAAGGACTAAATCGTAAAAATGTGAAAGGT
Found at i:18558171 original size:23 final size:23
Alignment explanation
Indices: 18558130--18558173 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
18558120 AACCCCTAAT
18558130 ATGCATAATTGAATGATTTATGA
1 ATGCATAATTGAATGATTTATGA
*
18558153 ATGCATGA-TGAATGCATTTAT
1 ATGCATAATTGAATG-ATTTAT
18558174 TATTAGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGCATAATTGAATGATTTATGA
Found at i:18560859 original size:51 final size:51
Alignment explanation
Indices: 18560804--18560973 Score: 178
Period size: 51 Copynumber: 3.3 Consensus size: 51
18560794 TGCATATAGT
* * *
18560804 ACTTTACATAATCAGCAAGCACATACTTTGCATAGACATTTCACACATATA
1 ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
* * * * * * * * * *
18560855 ACTTTACGTAATTAGTACGCACACACATGGTATAAACAGTTCACACATAGA
1 ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
* * * * *
18560906 ACTTTATATAATTAGTATGCACATACTTTGCATAGAAAATTCATACATAAA
1 ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
18560957 ACTTTACATAATCAGTA
1 ACTTTACATAATCAGTA
18560974 TGTAACACCC
Statistics
Matches: 94, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 94 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (51 bp):
ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
Found at i:18566493 original size:43 final size:43
Alignment explanation
Indices: 18566444--18566536 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 43
18566434 TCAAATATAG
* * *
18566444 TCTTACATAGGA-TCTCATATCGATGCCATTAGCCTAGCTATGA
1 TCTTACATAGAAGTCTCATATCGATGACA-TAGCCTAGATATGA
* * * *
18566487 TCTTACA-CGAAGTCTCATATCGATTACATATCCTAGATATGG
1 TCTTACATAGAAGTCTCATATCGATGACATAGCCTAGATATGA
18566529 TCTTACAT
1 TCTTACAT
18566537 GTAATCTTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 20 0.49
43 21 0.51
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (43 bp):
TCTTACATAGAAGTCTCATATCGATGACATAGCCTAGATATGA
Found at i:18572074 original size:12 final size:12
Alignment explanation
Indices: 18572057--18572082 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18572047 ATTACAAAAG
18572057 ACTAGTTCCTAT
1 ACTAGTTCCTAT
18572069 ACTAGTTCCTAT
1 ACTAGTTCCTAT
18572081 AC
1 AC
18572083 GTGCCATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (12 bp):
ACTAGTTCCTAT
Found at i:18572723 original size:49 final size:49
Alignment explanation
Indices: 18572660--18572789 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 49
18572650 CATCAAAGTC
*
18572660 GATGCCATGTCCCAGACAGGTTTTACACTGACTTTCATATATCAAG-GCA
1 GATGCCATGTCCCAGACAGGTTTTACACTGACTCTCATATATC-AGTGCA
* * * * **
18572709 GATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGTGTT
1 GATGCCATGTCCCAGACAGGTTTTACACTGACTCTCATATATCAGTGCA
18572758 GATGCCATGTCCCAGACAGGTTTTACACTGAC
1 GATGCCATGTCCCAGACAGGTTTTACACTGAC
18572790 ACACAACAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 2 0.03
49 68 0.97
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTTTTACACTGACTCTCATATATCAGTGCA
Found at i:18572779 original size:98 final size:97
Alignment explanation
Indices: 18572612--18572789 Score: 259
Period size: 98 Copynumber: 1.8 Consensus size: 97
18572602 ATAAGATGCC
*
18572612 GATGCCATGTCCCAGACATGGTCTTACATTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGAC
18572677 AGGTTTTACACTGACTTTCATATATCAAGGCA
66 AGGTTTTACACTGACTTTCATATATCAAGGCA
* ** * ** *
18572709 GATGCCGTGTCCCAGACA-GGTCTTACACTGGCTCTCATTTATCAGTGTTGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA--CATCAAAGTCGATGCCATGTCCCAG
18572773 ACAGGTTTTACACTGAC
64 ACAGGTTTTACACTGAC
18572790 ACACAACAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
96 16 0.23
97 17 0.24
98 38 0.54
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (97 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGAC
AGGTTTTACACTGACTTTCATATATCAAGGCA
Found at i:18574548 original size:21 final size:21
Alignment explanation
Indices: 18574522--18574580 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18574512 TCAGCATACT
18574522 CAGATGCATCCACAACA-AAGC
1 CAGATGCATCCACAACAGAA-C
* * *
18574543 CAGATGCATCTACATCAGAAT
1 CAGATGCATCCACAACAGAAC
*
18574564 CAGATGCAACCACAACA
1 CAGATGCATCCACAACA
18574581 CTTTTCAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.14
Consensus pattern (21 bp):
CAGATGCATCCACAACAGAAC
Found at i:18585087 original size:11 final size:11
Alignment explanation
Indices: 18585071--18585098 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18585061 ATGAGATATT
18585071 TTATTATTTTA
1 TTATTATTTTA
18585082 TTATTATTTTA
1 TTATTATTTTA
18585093 TTATTA
1 TTATTA
18585099 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:18587293 original size:23 final size:24
Alignment explanation
Indices: 18587255--18587421 Score: 110
Period size: 24 Copynumber: 7.0 Consensus size: 24
18587245 GCGTCCCGAT
*
18587255 ATATGGCTCTTCGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
18587279 ATA-GGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
** * *
18587302 ATA-GTGCTCGCT-TGAACTTCCTG
1 ATATG-GCTCTTTGTGAGCTTCCCG
* ** **
18587325 ATATATGGCTATCCG-GAGCTTCCTA
1 --ATATGGCTCTTTGTGAGCTTCCCG
*
18587350 ATATGGTTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
* * * *
18587374 ATATGGTTCTTTGTGAACTACCTG
1 ATATGGCTCTTTGTGAGCTTCCCG
* *
18587398 ATTTCGGCTCTAT-TGAGCTTCCCG
1 ATAT-GGCTCTTTGTGAGCTTCCCG
18587422 TTATAGCCCA
Statistics
Matches: 111, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
23 41 0.37
24 48 0.43
25 21 0.19
26 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.37
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAGCTTCCCG
Found at i:18591128 original size:15 final size:15
Alignment explanation
Indices: 18591086--18591129 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
18591076 CGAATTTAGA
*
18591086 TAATTTTAAATTTTT
1 TAATTTTAAATATTT
*
18591101 TAAATTATAAATATTT
1 T-AATTTTAAATATTT
*
18591117 TAATTTTGAATAT
1 TAATTTTAAATAT
18591130 AATAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TAATTTTAAATATTT
Found at i:18592795 original size:33 final size:31
Alignment explanation
Indices: 18592736--18592804 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18592726 TAGTAAGATT
*
18592736 TATATATTATATTATATTATATTATTAATAG
1 TATATATTATATTATATTATATTATTAATAA
* * *
18592767 TATATATTGTATTACTATTTTATGTATTAGTAA
1 TATATATTATATTA-TATTATAT-TATTAATAA
18592800 TATAT
1 TATAT
18592805 TAATTTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 13 0.41
32 7 0.22
33 12 0.38
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (31 bp):
TATATATTATATTATATTATATTATTAATAA
Found at i:18592933 original size:17 final size:16
Alignment explanation
Indices: 18592888--18592933 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
18592878 ATCATTAAAG
*
18592888 TTTAAT-TTTATAAAT
1 TTTAATATTTATTAAT
*
18592903 TTTAATAATTATTAAT
1 TTTAATATTTATTAAT
18592919 TTTATATATTTATTA
1 TTTA-ATATTTATTA
18592934 TACATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATATTTATTAAT
Found at i:18592970 original size:28 final size:30
Alignment explanation
Indices: 18592937--18592996 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
18592927 TTTATTATAC
18592937 ATATATAATT-ATAATATTAAAAATTATTTT
1 ATAT-TAATTAATAATATTAAAAATTATTTT
**
18592967 ATATTTAATTAATGTTATTAAAAATTATTT
1 ATA-TTAATTAATAATATTAAAAATTATTT
18592997 CACTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
ATATTAATTAATAATATTAAAAATTATTTT
Found at i:18600944 original size:50 final size:50
Alignment explanation
Indices: 18600813--18601152 Score: 327
Period size: 50 Copynumber: 6.8 Consensus size: 50
18600803 AATGATCTAT
* * ** *
18600813 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAAC
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA---TTAGAC
* * *
18600866 TGTGA--TCACGTGTGTAGTATTAAATGCAGGCTACTATGTGTATTAGA-
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGAC
* *
18600913 TGGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
1 T-GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGAC
* * * * * * *
18600964 TAT-TGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGAAAAC
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA--T-TAGAC
* *
18601016 TGTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGAC
* * *
18601063 TGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAC
1 T-GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGAC
* * *
18601114 TGT-TGGTCGCATGTGTAGTACTAAGTGCAGGATACTATG
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
18601153 CGTACCAGAT
Statistics
Matches: 238, Mismatches: 37, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
47 2 0.01
48 12 0.05
49 67 0.28
50 81 0.34
51 66 0.28
52 5 0.02
53 5 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGAC
Found at i:18601052 original size:100 final size:101
Alignment explanation
Indices: 18600823--18601150 Score: 287
Period size: 101 Copynumber: 3.3 Consensus size: 101
18600813 TGTGAGGTCG
* * ** ** * * * *
18600823 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTATTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGA-TGAGGTCACATGTGTAGTACTA
* * * *
18600888 AATGCAGGCTACTATGTGTA--T-TAGA-TGGTGAGGTCA
65 AGTGCAGGCTACTATGCGTACCTGAAAACT-GTGA--TCA
* *
18600924 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACT-AT-TGGTCGCATGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TGATGAGGTCACATGTGTAGTACTA
*
18600987 AGTGTAGGCTACTATGCGTACCTGAAAACTGTGATCA
65 AGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCA
* * * *
18601024 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGATGAGGTCACATGTGTAGTACTAA
* * * * * *
18601089 GTGCAGGCTACTACGTGTA--T-CAGACTGTTGGTCG
66 GTGCAGGCTACTATGCGTACCTGAAAACTG-TGATCA
*
18601123 CATGTGTAGTACTAAGTGCAGGATACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
18601151 TGCGTACCAG
Statistics
Matches: 190, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
98 5 0.03
99 65 0.34
100 42 0.22
101 71 0.37
102 6 0.03
103 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (101 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGATGAGGTCACATGTGTAGTACTAA
GTGCAGGCTACTATGCGTACCTGAAAACTGTGATCA
Found at i:18601089 original size:150 final size:150
Alignment explanation
Indices: 18600818--18601158 Score: 594
Period size: 150 Copynumber: 2.3 Consensus size: 150
18600808 TCTATTGTGA
18600818 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
* *
18600883 TATTAAATGCAGGCTACTATGTGTATTAGATGGTGAGGTCACATGTGTAGTACTAAGTGCAGGCT
66 TACTAAATGCAGGCTACTACGTGTATTAGATGGTGAGGTCACATGTGTAGTACTAAGTGCAGGCT
18600948 ACTACGTGTA-CTAGACTATT
131 ACTACGTGTATC-AGACTATT
* *
18600968 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
* *
18601033 TACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCT
66 TACTAAATGCAGGCTACTACGTGTATTAGATGGTGAGGTCACATGTGTAGTACTAAGTGCAGGCT
*
18601098 ACTACGTGTATCAGACTGTT
131 ACTACGTGTATCAGACTATT
*
18601118 GGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
18601159 AGATAGCTTC
Statistics
Matches: 181, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
150 180 0.99
151 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (150 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAATGCAGGCTACTACGTGTATTAGATGGTGAGGTCACATGTGTAGTACTAAGTGCAGGCT
ACTACGTGTATCAGACTATT
Found at i:18606794 original size:46 final size:45
Alignment explanation
Indices: 18606733--18606904 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
18606723 ATTGTGAGGT
*
18606733 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATGC
* * * * *
18606779 CGATGCATGTTCCAGACATGTCTTACATTGGCT-TAAATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT---CATCTC-ATGC
* * * *
18606827 CAATGCATGTCCCAGACATGTCTTACAGTTGCTCTCATGCT-GTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAT-GC
*
18606873 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
18606905 ACACATATCA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 62 0.61
47 2 0.02
48 36 0.35
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATGC
Found at i:18606913 original size:94 final size:93
Alignment explanation
Indices: 18606735--18606913 Score: 225
Period size: 94 Copynumber: 1.9 Consensus size: 93
18606725 TGTGAGGTCG
* *
18606735 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTTCCAGACATGT
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGCCGATGCATGTCCCAGACATGT
* * **
18606800 CTTACATTGGCTTAAATATCTCGAGGCCA
65 CTTACACTAGCACAAATATCTCGAGGCCA
* * * *
18606829 ATGCATGTCCCAGACATGTCTTACAGTTGCTCTCATGCT-GTGGCTGATGCATGTCCCAGACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTAAT-GCCGATGCATGTCCCAGACATG
*
18606893 TCTTACACTAGCACACATATC
64 TCTTACACTAGCACAAATATC
18606914 ACCCATTATA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 69 0.96
95 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (93 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGCCGATGCATGTCCCAGACATGTC
TTACACTAGCACAAATATCTCGAGGCCA
Found at i:18611860 original size:20 final size:20
Alignment explanation
Indices: 18611837--18611874 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18611827 CACATCCAAA
*
18611837 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
18611857 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
18611875 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:18614294 original size:43 final size:42
Alignment explanation
Indices: 18614184--18614294 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
18614174 ATGTTTTGTG
* * * * * *
18614184 TAAGACCACGTCTGGGACGTTGGCATCATATTTGATTTCGTG
1 TAAGACCACTTCTAGGACATTGGCATCATATTTGATTACATA
* ** *
18614226 TAAGACC-TTATCTAGGACAAAGGCATCGATATTTTATTACATA
1 TAAGACCACT-TCTAGGACATTGGCATC-ATATTTGATTACATA
18614269 TAAGACCACTTCTAGGACATTGGCAT
1 TAAGACCACTTCTAGGACATTGGCAT
18614295 TGTACGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
42 20 0.38
43 32 0.60
44 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
TAAGACCACTTCTAGGACATTGGCATCATATTTGATTACATA
Found at i:18616692 original size:3 final size:3
Alignment explanation
Indices: 18616686--18616732 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
18616676 ACAACAAAAG
18616686 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18616733 GAAGAACTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18622953 original size:25 final size:27
Alignment explanation
Indices: 18622907--18622956 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
18622897 TGGTTGGATG
*
18622907 TATTATTTTAAATATATTTTAATTATA
1 TATTATTTTAAATATATATTAATTATA
*
18622934 TATTTTTTTAAA-AT-TATTAATTA
1 TATTATTTTAAATATATATTAATTA
18622957 AATGTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 2 0.10
27 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTATTTTAAATATATATTAATTATA
Found at i:18623224 original size:43 final size:43
Alignment explanation
Indices: 18623159--18623251 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
18623149 ATTTATATAA
* *
18623159 CGTTTTTCCTACAACCGCCGCTAAAAATTGTGACTTTTAGCGG
1 CGTTTTTCCTACAACCGCCGCTAAAAATCGTGACCTTTAGCGG
* *
18623202 CGTTTTTCCTATAACCGTCGCTAAAAATCGTGACCTTTAGCGG
1 CGTTTTTCCTACAACCGCCGCTAAAAATCGTGACCTTTAGCGG
18623245 CGTTTTT
1 CGTTTTT
18623252 TTTCACAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (43 bp):
CGTTTTTCCTACAACCGCCGCTAAAAATCGTGACCTTTAGCGG
Found at i:18626000 original size:2 final size:2
Alignment explanation
Indices: 18625993--18626020 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18625983 ACTTAAATTC
18625993 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18626021 TTTATATCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18626603 original size:27 final size:26
Alignment explanation
Indices: 18626573--18626629 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
18626563 TTAAAAATTT
*
18626573 TAAA-TAAAATAAAAATTATGATTATTA
1 TAAATTAAAA-AAAAATTATAATT-TTA
* *
18626600 TAAATTTAAAAATAATTATAATTTTA
1 TAAATTAAAAAAAAATTATAATTTTA
18626626 TAAA
1 TAAA
18626630 AGTGGGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 15 0.58
28 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAATTAAAAAAAAATTATAATTTTA
Found at i:18627891 original size:25 final size:24
Alignment explanation
Indices: 18627863--18627920 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
18627853 ATTTTATGTT
*
18627863 TATATATTACACATAT-AAATAATTA
1 TATATATT-CA-ATATAAAATAAATA
*
18627888 TATAAATTCAATATGAAAATAAATA
1 TATATATTCAATAT-AAAATAAATA
18627913 TATATATT
1 TATATATT
18627921 TATTTCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.14
24 2 0.07
25 22 0.79
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATATTCAATATAAAATAAATA
Found at i:18630553 original size:40 final size:40
Alignment explanation
Indices: 18630487--18630637 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
18630477 AAATTGAATG
* * *
18630487 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
18630526 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
18630566 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
18630606 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
18630638 ACGTGATTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:18636140 original size:80 final size:80
Alignment explanation
Indices: 18636056--18636204 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
18636046 TATGGTAACC
* * * *
18636056 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
18636120 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
18636136 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
18636201 CCGG
66 CCGG
18636205 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:18636146 original size:40 final size:38
Alignment explanation
Indices: 18636097--18636204 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
18636087 ATCACGATTT
*
18636097 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
18636137 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
18636177 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
18636205 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:18644251 original size:80 final size:80
Alignment explanation
Indices: 18644167--18644315 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
18644157 TATGGTAACC
* * * *
18644167 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
18644231 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
18644247 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
18644312 CCGG
66 CCGG
18644316 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:18644257 original size:40 final size:38
Alignment explanation
Indices: 18644208--18644315 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
18644198 ATCACGATTT
*
18644208 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
18644248 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
18644288 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
18644316 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:18652963 original size:34 final size:34
Alignment explanation
Indices: 18652905--18652985 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
18652895 TTAGCCCCTC
*
18652905 TTTCAGTAGCAGTAGCAGTCTGGGCCTGAGCCCA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
* * * * *
18652939 TTTCAGTAACAGTGGTAGTTTGGGCCTTAGCCTA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
*
18652973 TTTTAGT-ACAGTA
1 TTTCAGTAACAGTA
18652986 TGCACACAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 5 0.13
34 34 0.87
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
Found at i:18661958 original size:40 final size:40
Alignment explanation
Indices: 18661892--18662058 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
18661882 AAATTGAATG
* * *
18661892 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
18661931 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
18661971 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
18662011 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
18662051 ATATCCGG
1 ATATCCGG
18662059 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:18669970 original size:40 final size:40
Alignment explanation
Indices: 18669911--18670052 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
18669901 AAATTGAATG
* * *
18669911 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
18669951 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
18669991 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
18670031 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
18670053 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:18670053 original size:40 final size:39
Alignment explanation
Indices: 18669950--18670078 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
18669940 TGCTGGAAAT
* * *
18669950 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
18669990 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
18670030 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
18670070 TATATCCGG
1 TATATCCGG
18670079 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:18673846 original size:40 final size:40
Alignment explanation
Indices: 18673801--18673966 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
18673791 CGGAATATAA
18673801 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
18673841 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
18673881 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
18673920 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18673959 CCGGATAT
1 CCGGATAT
18673967 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18673923 original size:39 final size:38
Alignment explanation
Indices: 18673817--18673928 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
18673807 ATAATCACGT
* * *
18673817 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
18673857 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
18673896 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
18673929 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:18673950 original size:79 final size:78
Alignment explanation
Indices: 18673817--18673966 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
18673807 ATAATCACGT
*
18673817 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
18673882 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
18673896 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
18673959 CCGGATAT
64 CCGGATAT
18673967 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:18674815 original size:17 final size:19
Alignment explanation
Indices: 18674792--18674837 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
18674782 AAGAAGCATG
18674792 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
18674810 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
18674828 AATCATGCTC
1 AATCATGCTC
18674838 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:18675954 original size:21 final size:21
Alignment explanation
Indices: 18675930--18676009 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
18675920 CACATGCTCG
*
18675930 TGTGACTGAGGGACACGGCTA
1 TGTGACTGAGAGACACGGCTA
*
18675951 TGTGGCTGAGAGACACGGCTA
1 TGTGACTGAGAGACACGGCTA
* * * * *
18675972 TATGACTGAGATACATGACCA
1 TGTGACTGAGAGACACGGCTA
* *
18675993 TGTAACTGAGATACACG
1 TGTGACTGAGAGACACG
18676010 ACTGTGTGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (21 bp):
TGTGACTGAGAGACACGGCTA
Found at i:18676211 original size:15 final size:17
Alignment explanation
Indices: 18676193--18676227 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18676183 GCACATGGCC
18676193 GTGTGG-AC-CGCCCGT
1 GTGTGGCACACGCCCGT
18676208 GTGTGGCACACGCCCGT
1 GTGTGGCACACGCCCGT
18676225 GTG
1 GTG
18676228 GCTGCCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.20
Consensus pattern (17 bp):
GTGTGGCACACGCCCGT
Found at i:18676228 original size:15 final size:15
Alignment explanation
Indices: 18676180--18676229 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18676170 TAATTTCTAG
* *
18676180 GTGGCACATGGCCGT
1 GTGGCACACGCCCGT
18676195 GTGG-AC-CGCCCGTGT
1 GTGGCACACGCCC--GT
18676210 GTGGCACACGCCCGT
1 GTGGCACACGCCCGT
18676225 GTGGC
1 GTGGC
18676230 TGCCAAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.10
14 2 0.07
15 17 0.59
16 2 0.07
17 5 0.17
ACGTcount: A:0.10, C:0.32, G:0.40, T:0.18
Consensus pattern (15 bp):
GTGGCACACGCCCGT
Found at i:18690160 original size:24 final size:23
Alignment explanation
Indices: 18690128--18690236 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
18690118 ACCAAACATT
* **
18690128 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
18690152 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
18690176 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
18690200 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
18690224 GCACACATAGTGC
1 GCACACATAGTGC
18690237 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:18690202 original size:48 final size:48
Alignment explanation
Indices: 18690128--18690236 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
18690118 ACCAAACATT
* **
18690128 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
18690176 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
18690224 GCACACATAGTGC
1 GCACACATAGTGC
18690237 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:18692226 original size:46 final size:46
Alignment explanation
Indices: 18692062--18692235 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
18692052 GGTTGAGCAT
* *
18692062 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
18692107 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
18692152 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
18692200 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18692236 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:18695221 original size:15 final size:15
Alignment explanation
Indices: 18695182--18695260 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
18695172 GTATCTTGGG
*
18695182 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18695197 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18695212 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
18695226 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
18695241 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
18695255 TTTCTT
1 TTTCTT
18695261 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18695245 original size:29 final size:29
Alignment explanation
Indices: 18695173--18695259 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
18695163 CATAGTATCG
* * * *
18695173 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
18695203 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
18695232 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
18695260 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:18707989 original size:13 final size:13
Alignment explanation
Indices: 18707964--18708030 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
18707954 ATGGCACAAA
*
18707964 ATATAACCATTTC
1 ATATAATCATTTC
*
18707977 ATGTAATCATTTC
1 ATATAATCATTTC
*
18707990 ATATAACCATTTC
1 ATATAATCATTTC
*
18708003 ATCTGAA-CATTTC
1 ATAT-AATCATTTC
* *
18708016 ATTTGATCATTTC
1 ATATAATCATTTC
18708029 AT
1 AT
18708031 TCACACATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
12 1 0.02
13 42 0.93
14 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.43
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:18708030 original size:26 final size:26
Alignment explanation
Indices: 18707964--18708017 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
18707954 ATGGCACAAA
*
18707964 ATATAACCATTTCATGTAATCATTTC
1 ATATAACCATTTCATCTAATCATTTC
18707990 ATATAACCATTTCATCTGAA-CATTTC
1 ATATAACCATTTCATCT-AATCATTTC
18708016 AT
1 AT
18708018 TTGATCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (26 bp):
ATATAACCATTTCATCTAATCATTTC
Found at i:18708726 original size:12 final size:12
Alignment explanation
Indices: 18708709--18708733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18708699 ATGTAAGTGA
18708709 TCTTGATGATTT
1 TCTTGATGATTT
18708721 TCTTGATGATTT
1 TCTTGATGATTT
18708733 T
1 T
18708734 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:18709522 original size:47 final size:46
Alignment explanation
Indices: 18709454--18709615 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 46
18709444 TGTGCGCTAG
18709454 TGTAAGACATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAA
* * * * * * *
18709500 TGTAAGACCATGTCTGGGACATGGCATCGGCATCCA-GACGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCTTCGGC-TACATTATGAGAGCCAA
* ** * * *
18709548 CGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGAGTGCCAGA
1 TGTAAGACATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCA-A
*
18709595 -GTAAGACATGTTTGGGACATG
1 TGTAAGACATGTCTGGGACATG
18709616 TATCGGCCTC
Statistics
Matches: 91, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 39 0.43
47 28 0.31
48 20 0.22
49 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAA
Found at i:18720672 original size:47 final size:45
Alignment explanation
Indices: 18720604--18720915 Score: 218
Period size: 47 Copynumber: 6.7 Consensus size: 45
18720594 TTTGTGCGCT
*
18720604 AGTGTAAGACATGTCTGGGACATGCTTCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATA-TATGAGAGCC
* * * * *
18720650 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TATCCAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAT--ATATGAGAGCC
* * * * * * *
18720698 AGTTTAAGACATGTCTAGAACATGCTTCAGCTATATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATA-TATGAGAGCC
* * * * *
18720744 AGAGTAAGACATGTTTGGGACATGCATCGGCC-TCGACAAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT--A-TATGAGAGCC
** * * * * *
18720791 AGTGTAAGATGTGTCTGGGACACGCATCGGCCA-AGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATATG-AGAGCC
*
18720835 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G-GC-CATATATGAGAGCC
*
18720883 AGTATAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
18720916 ATTTTATTCC
Statistics
Matches: 201, Mismatches: 48, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 4 0.02
46 45 0.22
47 67 0.33
48 34 0.17
49 17 0.08
50 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATATATGAGAGCC
Found at i:18720767 original size:46 final size:45
Alignment explanation
Indices: 18720604--18720768 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 45
18720594 TTTGTGCGCT
*
18720604 AGTGTAAGACATGTCTGGGACATGCTTCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCTTC-GCTATATTATGAGAGCC
* * * * * *
18720650 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATCCA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCTTCGCTAT--ATTATGAGAGCC
* * * *
18720698 AGTTTAAGACATGTCTAGAACATGCTTCAGCTATATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCTTC-GCTATATTATGAGAGCC
* *
18720744 AGAGTAAGACATGTTTGGGACATGC
1 AGTGTAAGACATGTCTGGGACATGC
18720769 ATCGGCCTCG
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
45 1 0.01
46 39 0.42
47 33 0.36
48 18 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGCTATATTATGAGAGCC
Found at i:18722312 original size:69 final size:69
Alignment explanation
Indices: 18722201--18722335 Score: 207
Period size: 69 Copynumber: 2.0 Consensus size: 69
18722191 AAATGCTCAC
* * * *
18722201 ACAAGCTGTGAAATGGGCCTGCTCATACGAGCTGTGGGTCAGGCTGTTAGGATACACGATGCTAC
1 ACAAGATGTGAAATGGGCCTGCTCACACAAGCTGTGGGTCAGGATGTTAGGATACACGATGCTAC
18722266 TTAT
66 TTAT
* * *
18722270 ACAAGATGTGAGATGGGCCTGCTCACATAAGCTGTGGGTCAGGATGTTAGGCTACACGATGCTAC
1 ACAAGATGTGAAATGGGCCTGCTCACACAAGCTGTGGGTCAGGATGTTAGGATACACGATGCTAC
18722335 T
66 T
18722336 CACATGAGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (69 bp):
ACAAGATGTGAAATGGGCCTGCTCACACAAGCTGTGGGTCAGGATGTTAGGATACACGATGCTAC
TTAT
Found at i:18726748 original size:3 final size:3
Alignment explanation
Indices: 18726740--18726792 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
18726730 AATTAGTTAG
18726740 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18726788 TAA TA
1 TAA TA
18726793 GAGACTAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18728103 original size:26 final size:25
Alignment explanation
Indices: 18728068--18728121 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
18728058 AATTATATTG
* *
18728068 TATGCGTGGGTCTTACTATGTACATA
1 TATGCATGGGTCTTACTATATA-ATA
*
18728094 TATGCATGGGTCTTATTATATAATA
1 TATGCATGGGTCTTACTATATAATA
18728119 TAT
1 TAT
18728122 ATAATTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (25 bp):
TATGCATGGGTCTTACTATATAATA
Found at i:18729459 original size:26 final size:27
Alignment explanation
Indices: 18729417--18729586 Score: 122
Period size: 26 Copynumber: 6.5 Consensus size: 27
18729407 AATGGCTAAT
* *
18729417 GTGATTAATTAACAGGCCT-TGAGTCG
1 GTGATTACTTAGCAGGCCTATGAGTCG
*
18729443 GTGATTACTTAGTAGG-CTATGAGTCG
1 GTGATTACTTAGCAGGCCTATGAGTCG
* *
18729469 GTGATTACTTAGCAGG-CTATAAG-CTA
1 GTGATTACTTAGCAGGCCTATGAGTC-G
* * *
18729495 GTGACTACTTAGCAGG-TTATGAGTTG
1 GTGATTACTTAGCAGGCCTATGAGTCG
* * *
18729521 GTGATCATTTAGCAGG--TATTGAGACG
1 GTGATTACTTAGCAGGCCTA-TGAGTCG
* * *
18729547 GTGATTATTTAACAGGCCT-TGAGCCG
1 GTGATTACTTAGCAGGCCTATGAGTCG
* *
18729573 ATGATTACTAAGCA
1 GTGATTACTTAGCA
18729587 AACTATGAGC
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
25 5 0.04
26 109 0.95
28 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (27 bp):
GTGATTACTTAGCAGGCCTATGAGTCG
Done.