Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 78 of 199
Found at i:22230322 original size:27 final size:26
Alignment explanation
Indices: 22230237--22230327 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 26
22230227 CCACTGGGTA
* *
22230237 AAATA-CCTTATAGGGTAAAATAATT
1 AAATACCCTTATAGGGTAAAATGACT
** *
22230262 GAAATACCCTCGTAGGGTAAAATGACCG
1 -AAATACCCTTATAGGGTAAAATGA-CT
22230290 AAATACCCTTATAGGGTAAAATGACT
1 AAATACCCTTATAGGGTAAAATGACT
*
22230316 ATTATACCCTTA
1 A-AATACCCTTA
22230328 AGAGATGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
26 7 0.13
27 46 0.87
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (26 bp):
AAATACCCTTATAGGGTAAAATGACT
Found at i:22236412 original size:13 final size:12
Alignment explanation
Indices: 22236396--22236434 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
22236386 TTACAGTTAA
22236396 AGATAACAGAATC
1 AGATAACAGAA-C
22236409 AGATAAGCAGAAC
1 AGATAA-CAGAAC
22236422 AGATATACAGAAC
1 AGATA-ACAGAAC
22236435 CCTACCCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (12 bp):
AGATAACAGAAC
Found at i:22238506 original size:37 final size:37
Alignment explanation
Indices: 22238464--22238537 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
22238454 TGCACATTTT
* *
22238464 CACTTATACCCACCTATGCCGGATGCATACATATATA
1 CACTTATACCCACCTATGCCGAATGCATACAAATATA
* *
22238501 CACTTATATCTACCTATGCCGAATGCATACAAATATA
1 CACTTATACCCACCTATGCCGAATGCATACAAATATA
22238538 TATCCACCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.28
Consensus pattern (37 bp):
CACTTATACCCACCTATGCCGAATGCATACAAATATA
Found at i:22238800 original size:41 final size:41
Alignment explanation
Indices: 22238750--22238959 Score: 330
Period size: 41 Copynumber: 5.1 Consensus size: 41
22238740 AATTCATCAT
*
22238750 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
22238791 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
**
22238832 ATTCAGATCACCGGCACTTAGCCTGCTACTCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
22238873 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
22238914 ATTCATATCACCGACACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
22238955 ATTCA
1 ATTCA
22238960 ATTCACCAAT
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:22239221 original size:15 final size:17
Alignment explanation
Indices: 22239180--22239223 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
22239170 TTGTTCGATC
22239180 CACATATATATATTACA
1 CACATATATATATTACA
*
22239197 CACATATATATATT-CG
1 CACATATATATATTACA
22239213 CACAT-TATATA
1 CACATATATATA
22239224 AACACCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:22259433 original size:16 final size:17
Alignment explanation
Indices: 22259401--22259433 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22259391 ATCACAATAA
22259401 AATAAAATTCTAATATT
1 AATAAAATTCTAATATT
22259418 AATAAAATT-TAATATT
1 AATAAAATTCTAATATT
22259434 TTCATATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAAATTCTAATATT
Found at i:22262099 original size:22 final size:21
Alignment explanation
Indices: 22262064--22262140 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
22262054 AAAAGGTATC
* * *
22262064 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
22262085 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
22262108 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
22262127 TACATATCATATCT
1 TACAAATCATATCT
22262141 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 18 0.39
21 4 0.09
22 15 0.33
23 9 0.20
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:22262124 original size:19 final size:19
Alignment explanation
Indices: 22262100--22262153 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
22262090 AATCATATCT
22262100 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22262119 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
22262138 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22262154 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22262538 original size:18 final size:18
Alignment explanation
Indices: 22262507--22262556 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
22262497 TATATTATAA
22262507 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
22262525 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
22262543 TATTAA-TAATAAAA
1 TATTAATTAATAAAA
22262557 ACATCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:22263936 original size:27 final size:27
Alignment explanation
Indices: 22263898--22263953 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
22263888 TGGTATATAA
22263898 TAAAGGAGAGTTCAGCCATAATACTTC
1 TAAAGGAGAGTTCAGCCATAATACTTC
* *
22263925 TAAAGGAGAGTTTAGTCATAATACTTC
1 TAAAGGAGAGTTCAGCCATAATACTTC
22263952 TA
1 TA
22263954 GTGGGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (27 bp):
TAAAGGAGAGTTCAGCCATAATACTTC
Found at i:22264242 original size:21 final size:21
Alignment explanation
Indices: 22264203--22264242 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22264193 TTAAGAATTA
*
22264203 ATTTAATTTCATTGGATTATT
1 ATTTAATTTCATTGAATTATT
22264224 ATTTAATTT-ATTGTAATTA
1 ATTTAATTTCATTG-AATTA
22264243 AATAATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTTAATTTCATTGAATTATT
Found at i:22267385 original size:23 final size:23
Alignment explanation
Indices: 22267358--22267412 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
22267348 AAACTAATCC
22267358 TCTCTCAAATTTCCTCTC-AATT
1 TCTCTCAAATTTCCTCTCAAATT
*
22267380 TGCTCTCAAA-TTCCTTTCAAATT
1 T-CTCTCAAATTTCCTCTCAAATT
22267403 TCTCTCAAAT
1 TCTCTCAAAT
22267413 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (23 bp):
TCTCTCAAATTTCCTCTCAAATT
Found at i:22267411 original size:11 final size:11
Alignment explanation
Indices: 22267358--22267412 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
22267348 AAACTAATCC
22267358 TCTCTCAAATT
1 TCTCTCAAATT
22267369 TCCTCTC-AATT
1 T-CTCTCAAATT
22267380 TGCTCTCAAATT
1 T-CTCTCAAATT
* *
22267392 CCTTTCAAATT
1 TCTCTCAAATT
22267403 TCTCTCAAAT
1 TCTCTCAAAT
22267413 CCATATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:22267462 original size:11 final size:12
Alignment explanation
Indices: 22267427--22267463 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
22267417 ATTTAATCTC
22267427 AATTTACTCTT-
1 AATTTACTCTTA
*
22267438 AATTTCCTCTTA
1 AATTTACTCTTA
22267450 AATTT-CTCTTA
1 AATTTACTCTTA
22267461 AAT
1 AAT
22267464 CCCCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (12 bp):
AATTTACTCTTA
Found at i:22268627 original size:7 final size:7
Alignment explanation
Indices: 22268615--22268646 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
22268605 AGTCGATTGT
22268615 TATTTAG
1 TATTTAG
22268622 TATTTAG
1 TATTTAG
22268629 TATTTAG
1 TATTTAG
22268636 TATTTAG
1 TATTTAG
22268643 TATT
1 TATT
22268647 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:22269321 original size:18 final size:18
Alignment explanation
Indices: 22269298--22269337 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22269288 CAGGTGCGTT
*
22269298 TCCTAACCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
22269316 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
22269334 TCCT
1 TCCT
22269338 TTTCCGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:22269901 original size:7 final size:7
Alignment explanation
Indices: 22269878--22269931 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
22269868 TTTAATTGAC
22269878 AAACCCT
1 AAACCCT
**
22269885 AAACTTT
1 AAACCCT
22269892 AAACCCT
1 AAACCCT
22269899 AAACCCT
1 AAACCCT
*
22269906 -AACCAT
1 AAACCCT
*
22269912 AAACCGT
1 AAACCCT
22269919 AAACCCT
1 AAACCCT
22269926 -AACCCT
1 AAACCCT
22269932 TAATTTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
6 11 0.28
7 28 0.72
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:22269916 original size:20 final size:20
Alignment explanation
Indices: 22269891--22269929 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22269881 CCCTAAACTT
22269891 TAAACCCTAAACCCTAACCA
1 TAAACCCTAAACCCTAACCA
*
22269911 TAAACCGTAAACCCTAACC
1 TAAACCCTAAACCCTAACC
22269930 CTTAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.15
Consensus pattern (20 bp):
TAAACCCTAAACCCTAACCA
Found at i:22269945 original size:21 final size:22
Alignment explanation
Indices: 22269919--22269961 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22269909 CATAAACCGT
22269919 AAACCCT-AACCCTTAATTTAA
1 AAACCCTAAACCCTTAATTTAA
22269940 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAATTTAA
22269962 CTTAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (22 bp):
AAACCCTAAACCCTTAATTTAA
Found at i:22269950 original size:28 final size:28
Alignment explanation
Indices: 22269891--22270064 Score: 83
Period size: 27 Copynumber: 6.5 Consensus size: 28
22269881 CCCTAAACTT
* * *
22269891 TAAACCCTAAACCC-TAAC-CATAAACCG
1 TAAACCCT-AACCCTTAACTTAAAAACCC
*
22269918 TAAACCCTAACCCTTAATTTAAAAACCC
1 TAAACCCTAACCCTTAACTTAAAAACCC
*
22269946 TAAACCCTTAA--TTTAACTTAAAAACCCC
1 TAAACCC-TAACCCTTAACTTAAAAA-CCC
* *
22269974 TTAACCCTAAACCC-TAACCCTT---AA-CT
1 TAAACCCT-AACCCTTAA--CTTAAAAACCC
* * *
22270000 TAAAACCCTAATCCTTAACTTTAAAACCG
1 T-AAACCCTAACCCTTAACTTAAAAACCC
22270029 TAAA--C----CCTTAACTTAAAAACCC
1 TAAACCCTAACCCTTAACTTAAAAACCC
22270051 T-AACCCTAACCCTT
1 TAAACCCTAACCCTT
22270065 GACTGGTACT
Statistics
Matches: 112, Mismatches: 14, Indels: 42
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.02
22 16 0.14
23 1 0.01
25 3 0.03
26 12 0.11
27 36 0.32
28 31 0.28
29 8 0.07
31 3 0.03
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAACCCTAACCCTTAACTTAAAAACCC
Found at i:22269996 original size:20 final size:21
Alignment explanation
Indices: 22269971--22270061 Score: 100
Period size: 20 Copynumber: 4.4 Consensus size: 21
22269961 ACTTAAAAAC
*
22269971 CCCTTAACCCT-AAACCCTAA
1 CCCTTAACCTTAAAACCCTAA
22269991 CCCTTAA-CTTAAAACCCTAA
1 CCCTTAACCTTAAAACCCTAA
* * *
22270011 TCCTTAACTTTAAAACCGTAAA
1 CCCTTAACCTTAAAACCCT-AA
22270033 CCCTTAA-CTTAAAAACCCTAA
1 CCCTTAACCTT-AAAACCCTAA
22270054 CCC-TAACC
1 CCCTTAACC
22270062 CTTGACTGGT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.03
20 25 0.42
21 17 0.29
22 15 0.25
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.24
Consensus pattern (21 bp):
CCCTTAACCTTAAAACCCTAA
Found at i:22270034 original size:63 final size:61
Alignment explanation
Indices: 22269913--22270057 Score: 145
Period size: 63 Copynumber: 2.3 Consensus size: 61
22269903 CCTAACCATA
* * *
22269913 AACCGTAAACCCTAACCCTTAATTTAAAAACCCTAAACCCTTAATTTAACTTAAAAACCCCTT
1 AACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAATTTAACGT-AAAA-CCCTT
*
22269976 AACCCTAAACCCTAACCCTTAACTT-AAAACCCT-AATCCTTAACTTTAAAACCGT-AAACCCTT
1 AACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAA-TTT--AA-CGTAAAACCCTT
*
22270038 AA-CTTAAAAACCCTAACCCT
1 AACCCT--AAACCCTAACCCT
22270058 AACCCTTGAC
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
61 10 0.14
62 18 0.25
63 39 0.55
64 2 0.03
65 2 0.03
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.26
Consensus pattern (61 bp):
AACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAATTTAACGTAAAACCCTT
Found at i:22270040 original size:22 final size:21
Alignment explanation
Indices: 22269919--22270057 Score: 115
Period size: 21 Copynumber: 6.6 Consensus size: 21
22269909 CATAAACCGT
22269919 AAACCCTAACCCTTAA-TTTAA
1 AAACCCTAACCCTTAACTTT-A
22269940 AAACCCTAAACCCTTAA-TTTA
1 AAACCCT-AACCCTTAACTTTA
****** **
22269961 ACTTAAAAACCCCTTAACCCT-
1 AAACCCTAA-CCCTTAACTTTA
22269982 AAACCCTAACCCTTAAC-TTA
1 AAACCCTAACCCTTAACTTTA
*
22270002 AAACCCTAATCCTTAACTTTA
1 AAACCCTAACCCTTAACTTTA
* *
22270023 AAACCGTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTTA
22270045 AAACCCTAACCCT
1 AAACCCTAACCCT
22270058 AACCCTTGAC
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
19 1 0.01
20 26 0.28
21 34 0.37
22 31 0.34
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.26
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTTA
Found at i:22273550 original size:126 final size:126
Alignment explanation
Indices: 22273141--22273586 Score: 646
Period size: 126 Copynumber: 3.5 Consensus size: 126
22273131 CCAAAATATG
* * * **
22273141 CTACTGTAGCAAAAGCATGTCCATGTGGGCGCGATTTCACAAATTCTTCTCAATATCGCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTC-ATAAAGCATCCTG
* *
22273206 CTTGAAGCA-TTTTTATACTATTTGCTTAGAAACTTCAAGTCGAAATTAATTT-TTCCAGGAC
65 CTTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATT-ATTTCTTCCAGGAC
* * *
22273267 CTATTGTAGCAAAAGCACGTCCATGAGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
22273332 TTGAAGCATTTTTTTAAACTATTTGCTCAGAAACATGAAGTCAAAATTATTTCTTCCAGGAC
66 TTGAAGCA-TTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
* *
22273394 CTACTATAGCAACAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
22273459 TTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGA-
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
* * * * * *
22273519 CTAACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CT-ACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
22273584 CTT
65 CTT
22273587 TGATTTTTAT
Statistics
Matches: 289, Mismatches: 27, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
125 22 0.08
126 157 0.54
127 110 0.38
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:22273748 original size:9 final size:9
Alignment explanation
Indices: 22273703--22273732 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22273693 TTTTTTCTTT
22273703 AAAACCCTA
1 AAAACCCTA
*
22273712 AAAATCCTA
1 AAAACCCTA
22273721 AAAACCCTA
1 AAAACCCTA
22273730 AAA
1 AAA
22273733 CCTAACCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAACCCTA
Found at i:22273753 original size:21 final size:22
Alignment explanation
Indices: 22273717--22273758 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22273707 CCCTAAAAAT
*
22273717 CCTAAAAACCCTAAAACCTAAC
1 CCTAAAAACCCAAAAACCTAAC
22273739 CCTAAAAA-CCAAAAACCTAA
1 CCTAAAAACCCAAAAACCTAA
22273759 TGGGGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (22 bp):
CCTAAAAACCCAAAAACCTAAC
Found at i:22274885 original size:16 final size:16
Alignment explanation
Indices: 22274860--22274890 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22274850 GTCTAGTCCC
*
22274860 ATGTGTTGTCAATCCG
1 ATGTGCTGTCAATCCG
22274876 ATGTGCTGTCAATCC
1 ATGTGCTGTCAATCC
22274891 ATTCAATCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTGCTGTCAATCCG
Found at i:22275719 original size:21 final size:21
Alignment explanation
Indices: 22275678--22275721 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22275668 AGATGCTAAC
*
22275678 AAGGTAGCTCATGTACTTGCA
1 AAGGTAGCTCATGTACATGCA
*
22275699 AAGGTAGCCTTAT-TACATGCA
1 AAGGTAG-CTCATGTACATGCA
22275720 AA
1 AA
22275722 CCACACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGTAGCTCATGTACATGCA
Found at i:22280216 original size:21 final size:21
Alignment explanation
Indices: 22280190--22280230 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22280180 TTTATTACAC
22280190 GGTTGTGTAACCCTTCCACAT
1 GGTTGTGTAACCCTTCCACAT
*
22280211 GGTTGTGTAGCCCTTCCACA
1 GGTTGTGTAACCCTTCCACA
22280231 CGACTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (21 bp):
GGTTGTGTAACCCTTCCACAT
Found at i:22280524 original size:143 final size:143
Alignment explanation
Indices: 22280266--22280551 Score: 572
Period size: 143 Copynumber: 2.0 Consensus size: 143
22280256 GGCCACACGG
22280266 TCGTGTGACCCCTTTTTTACAATTTTACGTTGAATTTTTTAAATTGTTCAATTTAGTCCTTAAAT
1 TCGTGTGACCCCTTTTTTACAATTTTACGTTGAATTTTTTAAATTGTTCAATTTAGTCCTTAAAT
22280331 AATCCCTGAACTATTTTTAGAGATTTTATTCACTCAATTGAGCCCCTGATAATATGAACATTTTA
66 AATCCCTGAACTATTTTTAGAGATTTTATTCACTCAATTGAGCCCCTGATAATATGAACATTTTA
22280396 GAATCCATGATCT
131 GAATCCATGATCT
22280409 TCGTGTGACCCCTTTTTTACAATTTTACGTTGAATTTTTTAAATTGTTCAATTTAGTCCTTAAAT
1 TCGTGTGACCCCTTTTTTACAATTTTACGTTGAATTTTTTAAATTGTTCAATTTAGTCCTTAAAT
22280474 AATCCCTGAACTATTTTTAGAGATTTTATTCACTCAATTGAGCCCCTGATAATATGAACATTTTA
66 AATCCCTGAACTATTTTTAGAGATTTTATTCACTCAATTGAGCCCCTGATAATATGAACATTTTA
22280539 GAATCCATGATCT
131 GAATCCATGATCT
22280552 GATTGATTGA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (143 bp):
TCGTGTGACCCCTTTTTTACAATTTTACGTTGAATTTTTTAAATTGTTCAATTTAGTCCTTAAAT
AATCCCTGAACTATTTTTAGAGATTTTATTCACTCAATTGAGCCCCTGATAATATGAACATTTTA
GAATCCATGATCT
Found at i:22281286 original size:17 final size:19
Alignment explanation
Indices: 22281264--22281306 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
22281254 ATGGAAACAT
22281264 AATCTT-CA-AGGATATGC
1 AATCTTACATAGGATATGC
*
22281281 AATCTTACATATGATATGC
1 AATCTTACATAGGATATGC
22281300 AATCTTA
1 AATCTTA
22281307 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 15 0.65
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
AATCTTACATAGGATATGC
Found at i:22281317 original size:22 final size:22
Alignment explanation
Indices: 22281274--22281339 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
22281264 AATCTTCAAG
*
22281274 GATATGCAATCTT---ACATAT
1 GATATGCAATCTTAGAAAATAT
*
22281293 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAAATAT
22281315 GATATGCAATCTTAGAAAATAT
1 GATATGCAATCTTAGAAAATAT
22281337 GAT
1 GAT
22281340 TTTGTAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
19 13 0.31
22 29 0.69
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (22 bp):
GATATGCAATCTTAGAAAATAT
Found at i:22281956 original size:36 final size:36
Alignment explanation
Indices: 22281881--22281956 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
22281871 CATACATACG
*
22281881 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
22281918 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
22281954 TTT
1 TTT
22281957 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:22282057 original size:27 final size:26
Alignment explanation
Indices: 22282027--22282101 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 26
22282017 GTATATTTAT
22282027 ATATTTTATTTTTTATAATTCACATAC
1 ATATTTTATTTTTTATAATT-ACATAC
* *
22282054 ATA-TATATTTTTCT-TATATGTACATAT
1 ATATTTTATTTTT-TATA-AT-TACATAC
*
22282081 ATATATTTATATTTTATAATT
1 ATAT-TTTATTTTTTATAATT
22282102 TTTATCTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
26 10 0.26
27 15 0.39
28 4 0.11
29 9 0.24
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (26 bp):
ATATTTTATTTTTTATAATTACATAC
Found at i:22284610 original size:18 final size:17
Alignment explanation
Indices: 22284587--22284620 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
22284577 TATCTCTTCT
22284587 TTTGCATTCATGGCATTC
1 TTTGCATTCAT-GCATTC
22284605 TTTGCATTCATGCATT
1 TTTGCATTCATGCATT
22284621 AGCTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (17 bp):
TTTGCATTCATGCATTC
Found at i:22287438 original size:45 final size:45
Alignment explanation
Indices: 22287382--22289118 Score: 1459
Period size: 45 Copynumber: 39.0 Consensus size: 45
22287372 CAGTTAAAAC
* * * *
22287382 AGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGAAGAT-AAAAACT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-T
* * *
22287427 AGTAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22287472 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
22287517 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATTGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
22287562 AACAGATCTTGTCTTCCTCTATCGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22287607 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22287652 AGCAAATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22287697 AGCAGATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATCAAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22287742 AGCAGATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * *
22287787 AGAATATCTTGTCTTCCTGTACTCGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * *
22287832 AACAGATATTGTCTTCATGTATCGGCTA-CGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGC-AGCGAAGTAGATCGAAGAT
* *
22287877 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22287922 AGCAGATCTTGTCTTCTTGTATTGGCAGCGAATTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22287967 AACAGATCTTGTCTTCCTATATTGGCATCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22288012 AGCAGATCTTGTCTTCTTGTATTGGTAGCAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22288057 AGCAGATCTTGTCTACCTGTATTGGCAGAGAAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22288102 AGCATATCTTGTCTTTCTGTATTGGCTGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22288147 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAATTAGATCGAATAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22288192 AGCAGATCTTGTCTTCCTGTATTGGCAACAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22288237 AGCATATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
22288282 AGCAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *** * * * * ** *
22288327 A-CA-AGCCTTGTCTCCCTG-AGCAGTAGTGGAGTAGGTTAAAAAT
1 AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
**
22288370 AGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *** * * * * *
22288415 A-CA-AGCCTTGTCTCCCTG-AGCAGTAGTGAAGTAGGTTGAAAAT
1 AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
*
22288458 AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * * ** *
22288503 A-CA-AGCCTTGTC-T-CTCTA-AGCAGCAGTGGAGTAGGTTAAAAAT
1 AGCAGA-TCTTGTCTTCCTGTATTG--GCAGCGAAGTAGATCGAAGAT
* * * *
22288546 AGCCGATCTTATCCTCCTGTATTGGCAGCGAAGTAGATCGAAGAC
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
** * *** * * * * *
22288591 CTCAG-CCTTGTC-TCCT-TGAGCAGCAGTGGAGTAGGTTGAAAAT
1 AGCAGATCTTGTCTTCCTGT-ATTGGCAGCGAAGTAGATCGAAGAT
* * *
22288634 AACAGATATTGTCTTTCTGTATTGG-AGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *** * * * * *
22288678 ACCA-ACCTTATCTTCCTG-AGCAGCAGTGGAGTAGGTTGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
22288721 AGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * *** * * * * *
22288766 ATCAGCT-TTATCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * * *
22288809 AACATATCTTATCTTCCTGTATTCGTAGCGAAATAGATCGAAGAC
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
** * * * * * * ** *
22288854 CCCAG-CCTTATC-TCC-CTA--GGCAGTAGTGGAGTAGGTTAAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGC---AGCGAAGTAGATCGAAGAT
* *
22288897 AACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * * * * * * *
22288942 AGCA-AGTCCTATCTCCCTG-AGTAGCAGTGGAGTAGGTTGAAAAG
1 AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * *
22288986 AGCAAATCTTGTCTTTCTGTACTGACAGCGAAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
22289031 AGCA-AGTCTTATCTCCCTG-AGTT-GCAGCGGAGCAGA-CTGAAGAT
1 AGCAGA-TCTTGTCTTCCTGTA-TTGGCAGCGAAGTAGATC-GAAGAT
* * * *
22289075 AGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGA
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
22289119 CACCAGCCTT
Statistics
Matches: 1332, Mismatches: 314, Indels: 92
0.77 0.18 0.05
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 9 0.01
43 142 0.11
44 201 0.15
45 962 0.72
46 12 0.01
47 1 0.00
48 3 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
Found at i:22288381 original size:44 final size:43
Alignment explanation
Indices: 22288333--22288827 Score: 135
Period size: 44 Copynumber: 11.3 Consensus size: 43
22288323 AGATACAAGC
* *
22288333 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAATA-CAGAT
* *** * * * * * *
22288377 CTTGTCTTCCTGTATTGGCAGTAAAGTAGATCGAAGATACA-AGC
1 CTTGTCTCCCTG-AGCAGTAGTGAAGTAGGTTGAAAATACAGA-T
22288421 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAATAACAGAT
1 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAAT-ACAGAT
* *** * * * * * *
22288465 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACA-AGC
1 CTTGTCTCCCTG-AGCAGTAGTGAAGTAGGTTGAAAATACAGA-T
* * * * * *
22288509 CTTGTCTCTCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCCGAT
1 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAATA-CAGAT
* *** * * * * * *
22288553 CTTATC-CTCCTGTATTGGCAGCGAAGTAGATCGAAGACCT-CAG-C
1 CTTGTCTC-CCTG-AGCAGTAGTGAAGTAGGTTGAA-A-ATACAGAT
* * *
22288597 CTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGAT
1 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAAT-ACAGAT
* ** ** * * * * * *
22288641 ATTGTCTTTCTGTA-TTGGAGCGAAGTAGATCGAAGATACCA-AC
1 CTTGTCTCCCTG-AGCAGTAGTGAAGTAGGTTGAAAATA-CAGAT
* * * *
22288684 CTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAATA-CAGAT
* * * * * * *
22288728 CTTGTCTTCCTGTATG-GGCAGCGAAGTAGATTGAAGATATCAGCT
1 CTTGTCTCCCTG-A-GCAGTAGTGAAGTAGGTTGAAAATA-CAGAT
* * * *
22288773 -TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACATAT
1 CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAAT-ACAGAT
* *
22288816 CTTATCTTCCTG
1 CTTGTCTCCCTG
22288828 TATTCGTAGC
Statistics
Matches: 311, Mismatches: 115, Indels: 50
0.65 0.24 0.11
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 105 0.34
44 123 0.40
45 76 0.24
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
CTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAATACAGAT
Found at i:22288757 original size:351 final size:352
Alignment explanation
Indices: 22288284--22289139 Score: 1108
Period size: 351 Copynumber: 2.4 Consensus size: 352
22288274 TCGAAGATAG
* * * *
22288284 CAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGATACAAGCCTTGTCTCCCTGAGCA
1 CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATACAAGCCTTATCTCCCTGAGCA
* * *
22288349 GTAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATCGAAGA
66 GCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGA
* *
22288414 TACAAGCCTTGTCTCCCTGAGCAGTAGTGAAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTA
131 TAC-AGCCTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAACAGATCTTATCTTCCTGTA
* * * * *
22288479 TTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCTCTCTAAGCAGCAGTGGAGTAGGTTAAAA
195 TTCGCAGCGAAATAGATCGAAGACACAAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAA
* * * ** * *
22288544 ATAGCCGATCTTATCCTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTC-AG-CCTTGTCTCCT
260 ATAACAGATCTTATCCTCCTATATTGGCAGCGAAGTAGATCGAAGACAGCAAGTCC-TATCTCCC
*
22288607 TGAGCAGCAGTGGAGTAGGTTGAAAATAA
324 TGAGCAGCAGTGGAGTAGGTTGAAAAGAA
* * *
22288636 CAGATATTGTCTTTCTGTATTG-GAGCGAAGTAGATCGAAGATACCAA-CCTTATCTTCCTGAGC
1 CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATA-CAAGCCTTATCTCCCTGAGC
* * *
22288699 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGATTGAAG
65 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAG
* * * *
22288764 ATATCAGCTTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACATATCTTATCTTCCTGT
130 ATA-CAGCCTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAACAGATCTTATCTTCCTGT
* * * * *
22288829 ATTCGTAGCGAAATAGATCGAAGACCCCAGCCTTATCTCCCTAGGCAGTAGTGGAGTAGGTTAAA
194 ATTCGCAGCGAAATAGATCGAAGACACAAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAA
* * *
22288894 AATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCCTATCTCCC
259 AATAACAGATCTTATCCTCCTATATTGGCAGCGAAGTAGATCGAAGACAGCAAGTCCTATCTCCC
* *
22288959 TGAGTAGCAGTGGAGTAGGTTGAAAAGAG
324 TGAGCAGCAGTGGAGTAGGTTGAAAAGAA
* * * * *
22288988 CAAATCTTGTCTTTCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGT
1 CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATA-CAAGCCTTATCTCCCTGAGC
* * * ** * * * *
22289053 TGCAGCGGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAG
65 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAG
* *
22289118 ACACCAGCCTTGCCTCCCTGAG
130 ATA-CAGCCTTGTCTCCCTGAG
22289140 TTTGTAGCAG
Statistics
Matches: 430, Mismatches: 68, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
351 247 0.57
352 76 0.18
353 24 0.06
354 83 0.19
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (352 bp):
CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATACAAGCCTTATCTCCCTGAGCA
GCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGA
TACAGCCTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAACAGATCTTATCTTCCTGTAT
TCGCAGCGAAATAGATCGAAGACACAAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAA
TAACAGATCTTATCCTCCTATATTGGCAGCGAAGTAGATCGAAGACAGCAAGTCCTATCTCCCTG
AGCAGCAGTGGAGTAGGTTGAAAAGAA
Found at i:22288805 original size:43 final size:44
Alignment explanation
Indices: 22288341--22288827 Score: 177
Period size: 43 Copynumber: 11.1 Consensus size: 44
22288331 GCCTTGTCTC
* * *
22288341 CCTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTT
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
*** ** * * * * * *
22288385 CCTGTATTGGCAGTAAAGTAGATCGAAGATA-CA-AGCCTTGTCTC
1 CCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-TCTTATCTT
* * * *
22288429 CCTGAGCAGTAGTGAAGTAGGTTGAAAATAACAGATCTTGTCTT
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
*** * * * * * * *
22288473 CCTGTATTGGCAGCGAAGTAGATCGAAGATA-CA-AGCCTTGTC-T
1 CCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-TCTTATCTT
* * * *
22288516 CTCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCCGATCTTATCCT
1 C-CTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
*** * * * * * *** * *
22288561 CCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAG-CCTTGTC-T
1 CCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
* * *
22288604 CCTTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATATTGTCTT
1 CC-TGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
* ** * * * * * * * *
22288649 TCTGTA-TTGGAGCGAAGTAGATCGAAGATACCA-ACCTTATCTT
1 CCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
*
22288692 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
* * * * * * * *
22288736 CCTGTATG-GGCAGCGAAGTAGATTGAAGATATCAGCT-TTATCTC
1 CCTG-A-GCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
* *
22288780 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAACATATCTTATCTT
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
22288824 CCTG
1 CCTG
22288828 TATTCGTAGC
Statistics
Matches: 306, Mismatches: 116, Indels: 42
0.66 0.25 0.09
Matches are distributed among these distances:
42 2 0.01
43 111 0.36
44 111 0.36
45 81 0.26
46 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTT
Found at i:22289065 original size:44 final size:44
Alignment explanation
Indices: 22288921--22289076 Score: 127
Period size: 44 Copynumber: 3.5 Consensus size: 44
22288911 TCCTATATTG
* * *
22288921 GCAGCGAAGTAGATCGAAGATAGCAAGTCCTATCTCCCTGAGTA
1 GCAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
* * * * * * * * * ** *
22288965 GCAGTGGAGTAGGTTGAAAAGAGCAAATCTTGTCTTTCTGTA-CT
1 GCAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTG-AGTT
22289009 GACAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
1 G-CAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
*
22289054 GCAGCGGAGCAGA-CTGAAGATAG
1 GCAGCGAAGCAGATC-GAAGATAG
22289077 TAGATCTTGT
Statistics
Matches: 82, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
43 1 0.01
44 50 0.61
45 31 0.38
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (44 bp):
GCAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
Found at i:22289153 original size:89 final size:89
Alignment explanation
Indices: 22288890--22289204 Score: 276
Period size: 89 Copynumber: 3.5 Consensus size: 89
22288880 TGGAGTAGGT
* * * * * * * *
22288890 TAAAAATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCC-TAT
1 TAAAAACATCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAG-CCTTAC
* ** * **
22288954 CTCCCTGAGTAGCAGTGGAGTAGGT
65 CTCCCTGAGTTGCAGCAGAGCAGAC
* * * * * * * * * *
22288979 TGAAAAGAGCAAATCTTGTCTTTCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGTCTTATC
1 TAAAAACATCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAGCCTTACC
*
22289044 TCCCTGAGTTGCAGCGGAGCAGAC
66 TCCCTGAGTTGCAGCAGAGCAGAC
* * * * * * *
22289068 TGAAGATAGT-AGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGACA-CCAGCCTTGC
1 TAAAAACA-TCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAGCCTTAC
*
22289131 CTCCCTGAGTTTGTAGCAGAGCAGAC
65 CTCCCTGAG-TTGCAGCAGAGCAGAC
*
22289157 TAAAAACATCAGATCTTATCTTCCTGTACTGGCAGTGAAGCAGATCGA
1 TAAAAACATCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGA
22289205 GAACACTAGT
Statistics
Matches: 185, Mismatches: 37, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
88 17 0.09
89 168 0.91
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
TAAAAACATCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAGCCTTACC
TCCCTGAGTTGCAGCAGAGCAGAC
Found at i:22289454 original size:131 final size:132
Alignment explanation
Indices: 22289212--22289473 Score: 377
Period size: 131 Copynumber: 2.0 Consensus size: 132
22289202 CGAGAACACT
* *
22289212 AGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAAATTGTAGATCCTGTCTCCCTAAGCAGT
1 AGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCCTGTCTCCCTAAGCAGT
* * * *
22289277 AGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTA-GGAAGAAGATTTAAGCCA
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCGAGAGAGTAGGGAAGAAGATTTAAACCA
22289341 CC
131 CC
* * *
22289343 AGTCATATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCC-AAGCAG
1 AGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCCTGTCTC-CCTAAGCAG
* * *
22289407 TAGTGGAGCAGATCAAAGACGGCGAGTCTTATCTTCCTGA-AGGAGTAGGGAAGCAGATTTAAAC
65 TAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCGAGA-GAGTAGGGAAGAAGATTTAAAC
22289471 CAC
129 CAC
22289474 TAGCCTTATT
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
130 1 0.01
131 96 0.83
132 19 0.16
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (132 bp):
AGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCCTGTCTCCCTAAGCAGT
AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCGAGAGAGTAGGGAAGAAGATTTAAACCA
CC
Found at i:22289964 original size:19 final size:19
Alignment explanation
Indices: 22289940--22289993 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
22289930 AATCTTCAAG
22289940 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22289959 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22289978 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
22289994 AAATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22290309 original size:15 final size:16
Alignment explanation
Indices: 22290283--22290315 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
22290273 TTTTCCCTTA
22290283 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
22290299 TTATT-ATTTTCAAAT
1 TTATTCATTTTCAAAT
22290314 TT
1 TT
22290316 GTTTACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:22293113 original size:10 final size:10
Alignment explanation
Indices: 22293100--22293172 Score: 69
Period size: 10 Copynumber: 7.5 Consensus size: 10
22293090 TTTTGATGTA
22293100 TTTTATAATT
1 TTTTATAATT
*
22293110 TTTTATGA-T
1 TTTTATAATT
**
22293119 TTTTATAAAA
1 TTTTATAATT
*
22293129 TTTTACAATT
1 TTTTATAATT
*
22293139 TTTTCTAATT
1 TTTTATAATT
* *
22293149 TTTAATAAAT
1 TTTTATAATT
22293159 TTTT-TAATT
1 TTTTATAATT
22293168 TTTTA
1 TTTTA
22293173 ATTAAAATTT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
9 16 0.33
10 32 0.67
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:22293122 original size:19 final size:19
Alignment explanation
Indices: 22293100--22293172 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
22293090 TTTTGATGTA
*
22293100 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATAAT
** *
22293119 TTTTATAAAATTTTACAATT
1 TTTTATAATTTTTTATAA-T
* *
22293139 TTTTCTAATTTTTAATAAAT
1 TTTTATAATTTTTTAT-AAT
22293159 TTTT-TAATTTTTTA
1 TTTTATAATTTTTTA
22293173 ATTAAAATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 23 0.55
20 17 0.40
21 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:22293131 original size:29 final size:29
Alignment explanation
Indices: 22293099--22293172 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
22293089 TTTTTGATGT
*
22293099 ATTTTATAATTTTTTATGATTTTT-ATAAA
1 ATTTTATAATTTTTTATAATTTTTAAT-AA
* *
22293128 ATTTTACAATTTTTTCTAATTTTTAATAA
1 ATTTTATAATTTTTTATAATTTTTAATAA
*
22293157 ATTTTTTAATTTTTTA
1 ATTTTATAATTTTTTA
22293173 ATTAAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (29 bp):
ATTTTATAATTTTTTATAATTTTTAATAA
Found at i:22293455 original size:88 final size:87
Alignment explanation
Indices: 22293333--22293570 Score: 300
Period size: 88 Copynumber: 2.7 Consensus size: 87
22293323 TCAAGAACTC
* *
22293333 AATTGAGTG-AAAAAAAGTAGGGGCTTAATAGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGAT
1 AATTGAGTGCAAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG-CTTTTTGAT
* *
22293397 GCATTTTGAAAATTTAAGTACCCA
65 ACATTTTGAAAATTCAAGTA-CCA
* * *
22293421 AATTGAGTGCAAAAAAAG-GGGGGCTTAATTGCTTTTTCTGAAAAAGTTTGAGAGCCTTTTTGAT
1 AATTGAGTGCAAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAG-GGCTTTTTGAT
* ***
22293485 ACATTTTGAAAGTTCAAGTATGT
65 ACATTTTGAAAATTCAAGTACCA
**
22293508 AATTGAGTGCATAAAAAGAGCAGGGGCTTAATTTTTTTTTTTGAAAAAGTTTGAGGGCTTTTT
1 AATTGAGTGCA-AAAAA-AGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCTTTTT
22293571 ACACCCTTAA
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
87 11 0.08
88 71 0.55
89 18 0.14
90 30 0.23
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (87 bp):
AATTGAGTGCAAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATA
CATTTTGAAAATTCAAGTACCA
Found at i:22303866 original size:32 final size:32
Alignment explanation
Indices: 22303829--22303905 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
22303819 ATGCATGTGT
* * **
22303829 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
22303861 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
22303893 GTAACTTTTCATA
1 GTAACTTTTCATA
22303906 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:22310379 original size:137 final size:137
Alignment explanation
Indices: 22310133--22310409 Score: 518
Period size: 137 Copynumber: 2.0 Consensus size: 137
22310123 ATGAAAGTAA
* *
22310133 ATAAACTAAATAAAATATACTTATAATTGAATTAGTGGAAGAAAAAGATGAAAGATATCTTCTTC
1 ATAAACTAAATAAAATATACTTATAACTGAATTAGTGGAAGAAAAAGATGAAAGATATCATCTTC
*
22310198 TTCTTCCAAACAACGAAACAAGAGAAGGAAAAGCTAAAGAAAACTTCAAGGTATTTGGCCTTAAT
66 TTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTAAAGAAAACTTCAAGGTATTTGGCCTTAAT
22310263 TTATATT
131 TTATATT
*
22310270 ATAAATTAAATAAAATATACTTATAACTGAATTAGTGGAAGAAAAAGATGAAAGATATCATCTTC
1 ATAAACTAAATAAAATATACTTATAACTGAATTAGTGGAAGAAAAAGATGAAAGATATCATCTTC
22310335 TTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTAAAGAAAACTTCAAGGTATTTGGCCTTAAT
66 TTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTAAAGAAAACTTCAAGGTATTTGGCCTTAAT
22310400 TTATATT
131 TTATATT
22310407 ATA
1 ATA
22310410 CTATTACTGA
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (137 bp):
ATAAACTAAATAAAATATACTTATAACTGAATTAGTGGAAGAAAAAGATGAAAGATATCATCTTC
TTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTAAAGAAAACTTCAAGGTATTTGGCCTTAAT
TTATATT
Found at i:22318033 original size:15 final size:15
Alignment explanation
Indices: 22318013--22318047 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
22318003 TCTCTAGAAA
22318013 TCTTCTAAAATAATT
1 TCTTCTAAAATAATT
*
22318028 TCTTCTGAAATAATT
1 TCTTCTAAAATAATT
22318043 TCTTC
1 TCTTC
22318048 AGAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (15 bp):
TCTTCTAAAATAATT
Found at i:22318052 original size:15 final size:15
Alignment explanation
Indices: 22318020--22318052 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22318010 AAATCTTCTA
*
22318020 AAATAATTTCTTCTG
1 AAATAATTTCTTCAG
22318035 AAATAATTTCTTCAG
1 AAATAATTTCTTCAG
22318050 AAA
1 AAA
22318053 ATTTTCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (15 bp):
AAATAATTTCTTCAG
Found at i:22318224 original size:58 final size:60
Alignment explanation
Indices: 22318162--22318275 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 60
22318152 ATTACTTTAA
* * *
22318162 TATTAAATTAATACAACACTTA-T-CAAGATAAATACTAGATTAAATTTAATATTAAATC
1 TATTAAAGTAATACAACACTTACTACAAGATAAATACTAAATTAAACTTAATATTAAATC
* * *
22318220 TATTAAAGTAATAGAATACTTATCTACAAGATAAATATTAAATTAAACTTAATATT
1 TATTAAAGTAATACAACACTTA-CTACAAGATAAATACTAAATTAAACTTAATATT
22318276 GAGATAATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 19 0.40
60 1 0.02
61 27 0.57
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (60 bp):
TATTAAAGTAATACAACACTTACTACAAGATAAATACTAAATTAAACTTAATATTAAATC
Found at i:22318303 original size:20 final size:18
Alignment explanation
Indices: 22318253--22318304 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
22318243 CTACAAGATA
22318253 AATATTAAATTAA-ACTT
1 AATATTAAATTAATACTT
*
22318270 AATATTGAGA-TAATCACTTT
1 AATATT-AAATTAAT-AC-TT
22318290 AATATTAAATTAATA
1 AATATTAAATTAATA
22318305 AAATATTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 5 0.18
20 12 0.43
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATACTT
Found at i:22323132 original size:15 final size:16
Alignment explanation
Indices: 22323100--22323134 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22323090 TAAATAATTT
22323100 TTATAAAGATTATATA
1 TTATAAAGATTATATA
*
22323116 TTATAAAG-TTTTATA
1 TTATAAAGATTATATA
22323131 TTAT
1 TTAT
22323135 TTCTTTACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TTATAAAGATTATATA
Found at i:22343666 original size:23 final size:23
Alignment explanation
Indices: 22343622--22343666 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
22343612 TTATATTAAT
* * **
22343622 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAAAAAAATATTA
22343645 ATAATTTAATTAAAAAAATATT
1 ATAATTTAATTAAAAAAATATT
22343667 GGTATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAATTTAATTAAAAAAATATTA
Found at i:22346243 original size:16 final size:16
Alignment explanation
Indices: 22346224--22346254 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22346214 TCTAGATATT
22346224 AAAAAGAGAGTTCTGA
1 AAAAAGAGAGTTCTGA
22346240 AAAAAGAGAGTTCTG
1 AAAAAGAGAGTTCTG
22346255 GAACCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (16 bp):
AAAAAGAGAGTTCTGA
Found at i:22352698 original size:24 final size:24
Alignment explanation
Indices: 22352671--22352716 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
22352661 TGCTAAAGAA
22352671 GGAAAGGGTTTCAGTTAAAAATGG
1 GGAAAGGGTTTCAGTTAAAAATGG
*
22352695 GGAAAGGGTTTTAGTTAAAAAT
1 GGAAAGGGTTTCAGTTAAAAAT
22352717 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.28
Consensus pattern (24 bp):
GGAAAGGGTTTCAGTTAAAAATGG
Found at i:22352723 original size:24 final size:24
Alignment explanation
Indices: 22352672--22352723 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22352662 GCTAAAGAAG
***
22352672 GAAAGGGTTTCAGTTAAAAATGGG
1 GAAAGGGTTTCAGTTAAAAATAAA
*
22352696 GAAAGGGTTTTAGTTAAAAATAAA
1 GAAAGGGTTTCAGTTAAAAATAAA
22352720 GAAA
1 GAAA
22352724 AAAATAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (24 bp):
GAAAGGGTTTCAGTTAAAAATAAA
Found at i:22353062 original size:11 final size:11
Alignment explanation
Indices: 22353046--22353181 Score: 53
Period size: 11 Copynumber: 12.4 Consensus size: 11
22353036 TTTTTTTCTA
22353046 TTTATTATTAT
1 TTTATTATTAT
*
22353057 TTTATTGTTAT
1 TTTATTATTAT
*
22353068 TTTCTT-TT-T
1 TTTATTATTAT
22353077 GTTTATTATTAT
1 -TTTATTATTAT
* ***
22353089 TTTGTTGCCAT
1 TTTATTATTAT
* *
22353100 TTCATAATTAT
1 TTTATTATTAT
* *
22353111 ATTGTTATT-T
1 TTTATTATTAT
22353121 TATTATTATTAT
1 T-TTATTATTAT
* *
22353133 TTGAATATTAT
1 TTTATTATTAT
* * * * *
22353144 ATAACTCTTGT
1 TTTATTATTAT
*
22353155 TTTATTGTTAAT
1 TTTATTATT-AT
*
22353167 TTTGTTATTAT
1 TTTATTATTAT
22353178 TTTA
1 TTTA
22353182 GAGATATTTG
Statistics
Matches: 85, Mismatches: 34, Indels: 12
0.65 0.26 0.09
Matches are distributed among these distances:
9 1 0.01
10 8 0.09
11 65 0.76
12 11 0.13
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:22353682 original size:17 final size:17
Alignment explanation
Indices: 22353644--22353692 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
22353634 GGGTGAGAAG
22353644 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
22353662 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
22353679 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
22353693 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:22358110 original size:2 final size:2
Alignment explanation
Indices: 22358103--22358128 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22358093 ATAACAAAAG
22358103 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
22358129 GAGGTGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22368439 original size:43 final size:43
Alignment explanation
Indices: 22368115--22368437 Score: 400
Period size: 43 Copynumber: 7.5 Consensus size: 43
22368105 CCATTAAAGG
* *
22368115 TCATGACTTTTAGCGGCGCTGTTCCCACAAACGCCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* *
22368158 TCATGACTTTTAGCGGCGCTTTTCCCACAAATC-TCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAA-CGCCGCTATAGA
* * * *
22368201 TCATAACTTTTAGCGGTGCTGTTCCCACAAACGCCGCTACAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
22368244 TCATGACTTTTAGCGGCG-TTGTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTT-TTCCCACAAACGCCGCTATAGA
* **
22368287 TCATGACTTTTAGCGGCGCTTCTCCCATTAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* * *
22368330 TCATGACTTTTAGCGGCGCTTCTCCTACAAACGCCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* * *** *
22368373 TCATGAATTTTAGCGACGCTTTTTTTATAAACGCCGCTA-AGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* * *
22368415 ACATGACCTTTAGCGGCGGTTTT
1 TCATGACTTTTAGCGGCGCTTTT
22368438 TTAAAAAACA
Statistics
Matches: 245, Mismatches: 31, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
42 23 0.09
43 219 0.89
44 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
Found at i:22368763 original size:21 final size:21
Alignment explanation
Indices: 22368739--22368809 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
22368729 TTCTGCTCTG
*
22368739 CTCTACTTCCCTCGCTGC-AGC
1 CTCTGCTTCCCTCGCTGCTA-C
* * *
22368760 CTCTGCTTCTCTCACTGCTAT
1 CTCTGCTTCCCTCGCTGCTAC
*
22368781 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTAC
*
22368802 ATCTGCTT
1 CTCTGCTT
22368810 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.07, C:0.42, G:0.14, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTAC
Found at i:22368962 original size:87 final size:87
Alignment explanation
Indices: 22368759--22368949 Score: 321
Period size: 87 Copynumber: 2.2 Consensus size: 87
22368749 CTCGCTGCAG
* *
22368759 CCTCTGCTTCTCTC-ACTGCTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTG
1 CCTCAGCTTCTCTCGA-TACTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTG
22368823 GAGTTCTTCATATTTTCTTTGAA
65 GAGTTCTTCATATTTTCTTTGAA
* *
22368846 CCTCAGCTTCTCTCGATACTACCTCTGCTTCCCTCGCTGTTGCATCTGCTTTAAGTTGTAGCTGG
1 CCTCAGCTTCTCTCGATACTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGG
22368911 AGTTCTTCATATTTTCTTTGAA
66 AGTTCTTCATATTTTCTTTGAA
*
22368933 CCTCGGCTTCTCTCGAT
1 CCTCAGCTTCTCTCGAT
22368950 GTTGTCTCTG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 97 0.99
88 1 0.01
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.41
Consensus pattern (87 bp):
CCTCAGCTTCTCTCGATACTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGG
AGTTCTTCATATTTTCTTTGAA
Found at i:22369651 original size:31 final size:31
Alignment explanation
Indices: 22369608--22369687 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
22369598 CATGGTTGAT
22369608 TTAGCAGCAAAAAACAATAGAAGGTACCATC
1 TTAGCAGCAAAAAACAATAGAAGGTACCATC
* * *
22369639 TTAGCAGTAAAAACCAATAGAATGTACCATC
1 TTAGCAGCAAAAAACAATAGAAGGTACCATC
* * *
22369670 GTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAAACAAT
22369688 TAAAAACCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (31 bp):
TTAGCAGCAAAAAACAATAGAAGGTACCATC
Found at i:22370896 original size:45 final size:46
Alignment explanation
Indices: 22370847--22370964 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 46
22370837 ATTTGATTTA
* *
22370847 TAGTGCTTGTATTTTTCAAAAATTTTATAGTAGGAATTTAA-TCTG
1 TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCTG
* * * *
22370892 TAGTGTTTGTATTTTTCTAAAACTTCAAATTAGGAATTTAACTCTG
1 TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCTG
*
22370938 TGAAGTCAGGTTGTATTTTTCAAAAAT
1 T--AGT--GCTTGTATTTTTCAAAAAT
22370965 ACTAATTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
45 35 0.59
46 5 0.08
48 3 0.05
50 16 0.27
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (46 bp):
TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCTG
Found at i:22371106 original size:7 final size:7
Alignment explanation
Indices: 22371096--22371121 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22371086 TAATAACCCA
22371096 TAAACCT
1 TAAACCT
22371103 TAAACCT
1 TAAACCT
22371110 TAAACCT
1 TAAACCT
22371117 TAAAC
1 TAAAC
22371122 TCCAAGCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:22371191 original size:14 final size:14
Alignment explanation
Indices: 22371172--22371208 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22371162 ATAAATCATA
*
22371172 AACCCCTAACCCTT
1 AACCCCTAACACTT
22371186 AACCCCTAACACTT
1 AACCCCTAACACTT
*
22371200 AAACCCTAA
1 AACCCCTAA
22371209 GCCCCAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:22371229 original size:7 final size:7
Alignment explanation
Indices: 22371214--22371252 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
22371204 CCTAAGCCCC
*
22371214 AACCTTA
1 AACCATA
22371221 AACCATA
1 AACCATA
*
22371228 AACCACA
1 AACCATA
22371235 AACCATA
1 AACCATA
*
22371242 ATCCATA
1 AACCATA
22371249 AACC
1 AACC
22371253 CTTAACCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCATA
Found at i:22371314 original size:8 final size:7
Alignment explanation
Indices: 22371297--22371400 Score: 52
Period size: 7 Copynumber: 14.6 Consensus size: 7
22371287 ACATTAACTA
22371297 TAAACCC
1 TAAACCC
22371304 TAAACCCC
1 TAAA-CCC
22371312 T-AACCC
1 TAAACCC
*
22371318 TTAACCCC
1 -TAAACCC
22371326 T-AACACC
1 TAAAC-CC
* *
22371333 TAAGCCT
1 TAAACCC
22371340 TAAACCC
1 TAAACCC
*
22371347 -CAACCC
1 TAAACCC
*
22371353 TTAAACCA
1 -TAAACCC
*
22371361 TAATCCC
1 TAAACCC
22371368 TAAACCC
1 TAAACCC
*
22371375 TTAACCC
1 TAAACCC
** *
22371382 ATATTCCT
1 -TAAACCC
22371390 TAAACCC
1 TAAACCC
22371397 TAAA
1 TAAA
22371401 TCATAGAATA
Statistics
Matches: 69, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
6 10 0.14
7 42 0.61
8 17 0.25
ACGTcount: A:0.38, C:0.40, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:22371323 original size:21 final size:22
Alignment explanation
Indices: 22371301--22371381 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 22
22371291 TAACTATAAA
22371301 CCCTAAACCCCTAACCCTTAAC
1 CCCTAAACCCCTAACCCTTAAC
* *
22371323 CCCT-AACACCTAAGCCTTAAAC
1 CCCTAAACCCCTAACCCTT-AAC
* * * *
22371345 CCC--AACCCTTAAACCATAAT
1 CCCTAAACCCCTAACCCTTAAC
*
22371365 CCCTAAACCCTTAACCC
1 CCCTAAACCCCTAACCC
22371382 ATATTCCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.10
21 22 0.46
22 21 0.44
ACGTcount: A:0.35, C:0.46, G:0.01, T:0.19
Consensus pattern (22 bp):
CCCTAAACCCCTAACCCTTAAC
Found at i:22371376 original size:22 final size:22
Alignment explanation
Indices: 22371348--22371405 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
22371338 CTTAAACCCC
22371348 AACCCTTAAACCATAATCCCTA
1 AACCCTTAAACCATAATCCCTA
* * *
22371370 AACCCTTAACCCATATTCCTTA
1 AACCCTTAAACCATAATCCCTA
*
22371392 AACCC-TAAATCATA
1 AACCCTTAAACCATA
22371406 GAATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTTAAACCATAATCCCTA
Found at i:22371441 original size:39 final size:39
Alignment explanation
Indices: 22371387--22371473 Score: 140
Period size: 39 Copynumber: 2.2 Consensus size: 39
22371377 AACCCATATT
*
22371387 CCTTAAACCCTAAATCATAGAATATATATAAACCT-TAAA
1 CCTTAAACCCTAAATCATAGAACATATATAAA-CTATAAA
*
22371426 CCTTAAACCCTAAATCATAGAACATATATAAATTATAAA
1 CCTTAAACCCTAAATCATAGAACATATATAAACTATAAA
22371465 CCTTAAACC
1 CCTTAAACC
22371474 TCAACCCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.02
39 44 0.98
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (39 bp):
CCTTAAACCCTAAATCATAGAACATATATAAACTATAAA
Found at i:22371536 original size:15 final size:14
Alignment explanation
Indices: 22371496--22371536 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
22371486 CAATAAACAA
*
22371496 TAAACCATAACCCC
1 TAAACCATAATCCC
22371510 TAAATCCATAATCCC
1 TAAA-CCATAATCCC
22371525 TAAACCACTAAT
1 TAAACCA-TAAT
22371537 GCGTCTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:22371774 original size:102 final size:101
Alignment explanation
Indices: 22371608--22371805 Score: 276
Period size: 102 Copynumber: 2.0 Consensus size: 101
22371598 AAAACTGTCG
* * *
22371608 CTAATGCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCTCAACAAAAA
1 CTAATGCTTGAATTTTGCGGCGTTTTTTGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAAA
*
22371673 AACGAAT-CCGTTTGCTTAAAATTTTTTGCGGCGCTTC
66 AACG-ATGCCGTTTGCTTAAAA-ATTTTGCGGCGCTTC
*
22371710 CTAATGCTTGAATTTTGCGGCGTTTTTAT-AAAAG-AGCCACTAATGTGTCTAAAACTCAACAAA
1 CTAATGCTTGAATTTTGCGGCGTTTTT-TGAAAAGCA-CCACTAATGTCTCTAAAACTCAACAAA
* *
22371773 AAAACGTTGTCGTTTGCTTAAAAATTTTGCGGC
64 AAAACGATGCCGTTTGCTTAAAAATTTTGCGGC
22371806 TCTATTGTGA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
101 11 0.13
102 74 0.86
103 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (101 bp):
CTAATGCTTGAATTTTGCGGCGTTTTTTGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAAA
AACGATGCCGTTTGCTTAAAAATTTTGCGGCGCTTC
Found at i:22371947 original size:111 final size:110
Alignment explanation
Indices: 22371710--22372027 Score: 363
Period size: 111 Copynumber: 2.8 Consensus size: 110
22371700 GCGGCGCTTC
* * * * *
22371710 CTAATGCTTGAATTTTGCGGCGTTTTT-ATAAAAGAGCCACTAATGTGTCTAAAACTCAACAA-A
1 CTAATGCTTGACTTTTGCGGCGTTTTTCA-GAAAGCGCCACTAATGTCTCTAAAGCT-AA-AAGA
* * * * *
22371773 AAAACGTTGTCGTTTGCTTAAAAATTTTGCGGCTCTATTGTGAAAGCACTG
63 ACAAC---GTCGTTTGCTTAAAACTTTTGCGGCACTATTGAGAAAGCACCG
* *
22371824 CTAATTCTTGACTTTTGCAGCGTTTTTCAGAAAGCGCCACTAATGTCTCTAAAGCTGAAAAGAAC
1 CTAATGCTTGACTTTTGCGGCGTTTTTCAGAAAGCGCCACTAATGTCTCTAAAGCT-AAAAGAAC
* *
22371889 AACGTCGTTTGCTTAAAACTTTTGTGGCACTTTTGAGAAAGCACCG
65 AACGTCGTTTGCTTAAAACTTTTGCGGCACTATTGAGAAAGCACCG
* * *
22371935 CTAATGCTTGACTTTTGCGGCG-TTTCCTGATAAGCGCCACTAATTTCTCTAAAGCTAAAAGAAA
1 CTAATGCTTGACTTTTGCGGCGTTTTTCAGA-AAGCGCCACTAATGTCTCTAAAGCTAAAAG--A
*
22371999 ACAACGTCGTTTGCTTAAGACTTTTGCGG
63 ACAACGTCGTTTGCTTAAAACTTTTGCGG
22372028 TGCTCTTGAC
Statistics
Matches: 177, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
110 11 0.06
111 81 0.46
112 28 0.16
113 2 0.01
114 54 0.31
115 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (110 bp):
CTAATGCTTGACTTTTGCGGCGTTTTTCAGAAAGCGCCACTAATGTCTCTAAAGCTAAAAGAACA
ACGTCGTTTGCTTAAAACTTTTGCGGCACTATTGAGAAAGCACCG
Found at i:22382672 original size:33 final size:31
Alignment explanation
Indices: 22382635--22382710 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 31
22382625 ATATTTAAAA
22382635 ATTTTAAAAATA-AAAAAT-TCAAACAAATATAT
1 ATTTTAAAAATATAAAAATGTC--A-AAATATAT
* *
22382667 CATTTT-CAAATATTAAAATGTCAAAATATAT
1 -ATTTTAAAAATATAAAAATGTCAAAATATAT
22382698 ATTTTAAAAATAT
1 ATTTTAAAAATAT
22382711 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 5 0.14
31 14 0.38
32 6 0.16
33 10 0.27
34 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (31 bp):
ATTTTAAAAATATAAAAATGTCAAAATATAT
Found at i:22382765 original size:19 final size:19
Alignment explanation
Indices: 22382698--22382771 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
22382688 CAAAATATAT
*
22382698 ATTTTAAAAATATT-TAAA-
1 ATTTTAAAAA-ATTAAAAAC
*
22382716 ATTTTCAACAAAA-TAAATA-
1 ATTTT-AA-AAAATTAAAAAC
22382735 ATTTTAAAAAATTATAAAAC
1 ATTTTAAAAAATTA-AAAAC
22382755 ATTTT-AAAAATTAAAAA
1 ATTTTAAAAAATTAAAAA
22382772 TTAAAAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.09
18 14 0.30
19 21 0.45
20 8 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTTAAAAAATTAAAAAC
Found at i:22382777 original size:6 final size:7
Alignment explanation
Indices: 22382758--22382785 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22382748 ATAAAACATT
22382758 TTAAAAA
1 TTAAAAA
22382765 TTAAAAA
1 TTAAAAA
22382772 TTAAAAA
1 TTAAAAA
22382779 TTAAAAA
1 TTAAAAA
22382786 AATAAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:22383365 original size:67 final size:67
Alignment explanation
Indices: 22383287--22383427 Score: 239
Period size: 67 Copynumber: 2.1 Consensus size: 67
22383277 GGAGCAAAAG
* *
22383287 ATTTTTTCAATTTTTTGTCTTTCAGAGTTTAAAAA-ATTTAATTTTAATATTTTCAAAAACTAAA
1 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATA-TTAATTTTAACATTTTCAAAAACTAAA
22383351 ATT
65 ATT
*
22383354 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAATTAAAA
1 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
22383419 TT
66 TT
22383421 ATTTTTT
1 ATTTTTT
22383428 AAAATCTGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (67 bp):
ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
TT
Found at i:22386588 original size:184 final size:185
Alignment explanation
Indices: 22386276--22386650 Score: 725
Period size: 184 Copynumber: 2.0 Consensus size: 185
22386266 CAGTAGCAAT
22386276 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
1 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTT-AAA
22386341 AATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACT
65 AATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACT
22386406 GTATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
130 GTATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
22386462 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTT-AAA
1 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
*
22386526 ATCTCAGTTCATCTCCTTCAATTAAGGAGCTAACAATCTTTTCTAACATCAACCAGATTGAACTG
66 ATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACTG
22386591 TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
131 TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
22386646 ATTCC
1 ATTCC
22386651 TTTTTTTCCC
Statistics
Matches: 188, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 127 0.68
186 61 0.32
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (185 bp):
ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
ATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACTG
TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
Found at i:22394917 original size:14 final size:13
Alignment explanation
Indices: 22394898--22394959 Score: 61
Period size: 14 Copynumber: 4.5 Consensus size: 13
22394888 AGCTCGTTTG
*
22394898 TTTATTTCTCGTTA
1 TTTATTTCT-TTTA
*
22394912 TTTATTTCTTTTT
1 TTTATTTCTTTTA
*
22394925 TTTATTTGCTTTTT
1 TTTATTT-CTTTTA
*
22394939 TTTATTTCTCTTAA
1 TTTATTTCT-TTTA
22394953 TTTATTT
1 TTTATTT
22394960 TATGGTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.26
14 31 0.74
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATTTCTTTTA
Found at i:22396428 original size:23 final size:23
Alignment explanation
Indices: 22396402--22396448 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22396392 ACATACTTAG
22396402 TTACCTTTGAATATTAACCATTC
1 TTACCTTTGAATATTAACCATTC
22396425 TTACCTTTGAATATTAACCATTC
1 TTACCTTTGAATATTAACCATTC
22396448 T
1 T
22396449 ATAATGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.45
Consensus pattern (23 bp):
TTACCTTTGAATATTAACCATTC
Found at i:22399043 original size:19 final size:18
Alignment explanation
Indices: 22399021--22399068 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
22399011 TTCTAATATT
22399021 TTTTAATTATTTTAGTAAA
1 TTTTAATT-TTTTAGTAAA
* * *
22399040 TTTTTATTTTTTTGTAAT
1 TTTTAATTTTTTAGTAAA
22399058 TTTGTAATTTT
1 TTT-TAATTTT
22399069 ATACTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTTTAGTAAA
Found at i:22399152 original size:26 final size:25
Alignment explanation
Indices: 22399118--22399168 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22399108 TTTAAATAAC
*
22399118 TTTTTTGTAATTATATTTATTGTAAA
1 TTTTGTGTAATT-TATTTATTGTAAA
* *
22399144 TTTTGTGTAATTTTTTTATTTTAAA
1 TTTTGTGTAATTTATTTATTGTAAA
22399169 AGATTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (25 bp):
TTTTGTGTAATTTATTTATTGTAAA
Found at i:22410405 original size:45 final size:45
Alignment explanation
Indices: 22410340--22410427 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
22410330 TTCACTAACG
*
22410340 GTACTCATTTATTTCTGAGTTCTTTAATTTCCCGAACTAGAATCT
1 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAATCT
22410385 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAAT
1 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAAT
22410428 ATTTCTTACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (45 bp):
GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAATCT
Found at i:22410794 original size:17 final size:17
Alignment explanation
Indices: 22410754--22410796 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
22410744 AAGTTCTAAT
**
22410754 GAAAAAAAAGATTAAAA
1 GAAAAAAAAGAAGAAAA
* *
22410771 TATAAAAAAGAAGAAAA
1 GAAAAAAAAGAAGAAAA
22410788 GAAAAAAAA
1 GAAAAAAAA
22410797 TCATCAAAGT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAAAAAGAAGAAAA
Found at i:22410887 original size:19 final size:19
Alignment explanation
Indices: 22410860--22410900 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22410850 GAAAAATAAT
* *
22410860 AAAATAGAAGACAAAAGTA
1 AAAAGAGAAGACAAAAATA
*
22410879 AAAAGAGAAGAGAAAAATA
1 AAAAGAGAAGACAAAAATA
22410898 AAA
1 AAA
22410901 TGTAATTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAGAGAAGACAAAAATA
Found at i:22416801 original size:25 final size:25
Alignment explanation
Indices: 22416773--22416833 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
22416763 TAAAATATGT
* *
22416773 TATGTTATGATTCGATATAACATGA
1 TATGTTAAGATTCAATATAACATGA
* * *
22416798 TATGCTAAGATTCAATATGATATGA
1 TATGTTAAGATTCAATATAACATGA
22416823 TATGTTAAGAT
1 TATGTTAAGAT
22416834 ATGATTTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (25 bp):
TATGTTAAGATTCAATATAACATGA
Found at i:22419564 original size:26 final size:26
Alignment explanation
Indices: 22419530--22419593 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
22419520 TGTTAATTTC
*
22419530 AAGACTTATTTAATGTTAGTGATTCA
1 AAGACTTATGTAATGTTAGTGATTCA
22419556 AAGACTTATGTAATGTTAGTGATTCA
1 AAGACTTATGTAATGTTAGTGATTCA
22419582 AAGACTTA-GTAA
1 AAGACTTATGTAA
22419594 AACCATAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (26 bp):
AAGACTTATGTAATGTTAGTGATTCA
Found at i:22425556 original size:73 final size:73
Alignment explanation
Indices: 22425479--22425633 Score: 186
Period size: 73 Copynumber: 2.1 Consensus size: 73
22425469 AGCTGTATAA
* * * * * *
22425479 CAGGAAGCTCATAAGAGCCATAT-TTAGGAAGCTCATGTGAGCCAATAACGGGTAGCTCTGAAGA
1 CAGGAAGCTCAGAAGAGCCATATATCAGGAAGCTCAAGCGAGCC-ATAACGGGAAGCTCCGAAGA
22425543 GCCATTAAT
65 GCCATTAAT
* * * * * *
22425552 CAGGAAGCTCCGGATAGCCATATATCAGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGGAGAG
1 CAGGAAGCTCAGAAGAGCCATATATCAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCGAAGAG
22425617 CCATTAAT
66 CCATTAAT
22425625 CAGGAAGCT
1 CAGGAAGCT
22425634 TACAAAGAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
73 53 0.77
74 16 0.23
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (73 bp):
CAGGAAGCTCAGAAGAGCCATATATCAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCGAAGAG
CCATTAAT
Found at i:22425610 original size:48 final size:51
Alignment explanation
Indices: 22425539--22425685 Score: 155
Period size: 48 Copynumber: 2.9 Consensus size: 51
22425529 GGTAGCTCTG
*
22425539 AAGAGCC-ATTAATCAGGAAGCTCCGGATAGCCATATATCAGGAAG-TT-CA
1 AAGAGCCTA-TAATCGGGAAGCTCCGGATAGCCATATATCAGGAAGCTTACA
* *
22425588 AGCGAGCC-AT-ATCGGGAAGCTCCGGAGAGCCAT-TAATCAGGAAGCTTACA
1 A-AGAGCCTATAATCGGGAAGCTCCGGATAGCCATAT-ATCAGGAAGCTTACA
* **
22425638 AAGAGCCTTTAATCGGGAAGCTCACAAATAGCCATATATCAGG-AGCTT
1 AAGAGCCTATAATCGGGAAGCTC-CGGATAGCCATATATCAGGAAGCTT
22425686 CCTGATATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
47 1 0.01
48 30 0.37
49 9 0.11
50 10 0.12
51 17 0.21
52 14 0.17
53 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (51 bp):
AAGAGCCTATAATCGGGAAGCTCCGGATAGCCATATATCAGGAAGCTTACA
Found at i:22425649 original size:26 final size:26
Alignment explanation
Indices: 22425539--22425681 Score: 102
Period size: 25 Copynumber: 5.7 Consensus size: 26
22425529 GGTAGCTCTG
*
22425539 AAGAGCCATTAATCAGGAAGCTC-CG
1 AAGAGCCATTAATCAGGAAGCTCACA
* * *
22425564 GATAGCCA-TATATCAGGAAGTTCA-A
1 AAGAGCCATTA-ATCAGGAAGCTCACA
** * *
22425589 GCGAGCCA-T-ATCGGGAAGCTC-CG
1 AAGAGCCATTAATCAGGAAGCTCACA
* *
22425612 GAGAGCCATTAATCAGGAAGCTTACA
1 AAGAGCCATTAATCAGGAAGCTCACA
* *
22425638 AAGAGCCTTTAATCGGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTCACA
*
22425664 AATAGCCA-TATATCAGGA
1 AAGAGCCATTA-ATCAGGA
22425682 GCTTCCTGAT
Statistics
Matches: 91, Mismatches: 20, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
23 17 0.19
24 3 0.03
25 36 0.40
26 35 0.38
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAGCTCACA
Found at i:22427585 original size:28 final size:29
Alignment explanation
Indices: 22427553--22427626 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 29
22427543 AATACATTTT
*
22427553 TAAAATTTTTAAAATTCA-AAAAATATTA
1 TAAAATTTTTAAAAATCATAAAAATATTA
** *
22427581 TAAAAAATTTAAAAATCATTAAAATTATTA
1 TAAAATTTTTAAAAATCA-TAAAAATATTA
* * *
22427611 AAAAATTATAAAAAAT
1 TAAAATTTTTAAAAAT
22427627 TATTTTTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 15 0.43
30 20 0.57
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (29 bp):
TAAAATTTTTAAAAATCATAAAAATATTA
Found at i:22427622 original size:10 final size:10
Alignment explanation
Indices: 22427571--22427629 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
22427561 TTAAAATTCA
22427571 AAAAATATTAT
1 AAAAA-ATTAT
22427582 AAAAAATT-T
1 AAAAAATTAT
*
22427591 -AAAAATCAT
1 AAAAAATTAT
*
22427600 -TAAAATTATT
1 AAAAAATTA-T
22427610 AAAAAATTAT
1 AAAAAATTAT
22427620 AAAAAATTAT
1 AAAAAATTAT
22427630 TTTTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 6 0.15
9 8 0.20
10 15 0.37
11 12 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:22427628 original size:27 final size:26
Alignment explanation
Indices: 22427577--22427628 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
22427567 TTCAAAAAAT
22427577 ATTATAAAAAATTTAAAAATCATTAAA
1 ATTATAAAAAATTTAAAAA-CATTAAA
22427604 ATTATTAAAAAATTATAAAAA-ATTA
1 ATTA-TAAAAAATT-TAAAAACATTA
22427629 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 8 0.35
28 9 0.39
29 6 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTATAAAAAATTTAAAAACATTAAA
Found at i:22429010 original size:43 final size:43
Alignment explanation
Indices: 22428947--22429151 Score: 275
Period size: 43 Copynumber: 4.8 Consensus size: 43
22428937 CGTCGCTAAT
* * * *
22428947 TTTAGTGGCGCTTTTTCCACAAATGCCGCTAAAGACCAGAACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACC
* * *
22428990 TTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACTAGGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACC
* * *
22429033 TTTAGCGGCGCTTTTTCTATAAACGCCGCTAAAGACCAGGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACC
22429076 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACC
* * * * *
22429119 TTTAGCGTCACTTTTACCATAAATGCCGCTAAA
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
22429152 AACATGACTT
Statistics
Matches: 141, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACC
Found at i:22429045 original size:86 final size:86
Alignment explanation
Indices: 22428947--22429151 Score: 311
Period size: 86 Copynumber: 2.4 Consensus size: 86
22428937 CGTCGCTAAT
* *
22428947 TTTAGTGGCGCTTTTTCCACAAATGCCGCTAAAGACCAGAACCTTTAGCGACGCTTTTCCCACAA
1 TTTAGCGGCGCTTTTTCCATAAATGCCGCTAAAGACCAGAACCTTTAGCGACGCTTTTCCCACAA
*
22429012 ACACCGCTAAAGACTAGGACC
66 ACACCGCTAAAGACCAGGACC
* * * *
22429033 TTTAGCGGCGCTTTTTCTATAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAA
1 TTTAGCGGCGCTTTTTCCATAAATGCCGCTAAAGACCAGAACCTTTAGCGACGCTTTTCCCACAA
*
22429098 ACGCCGCTAAAGACCAGGACC
66 ACACCGCTAAAGACCAGGACC
* * *
22429119 TTTAGCGTCACTTTTACCATAAATGCCGCTAAA
1 TTTAGCGGCGCTTTTTCCATAAATGCCGCTAAA
22429152 AACATGACTT
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 106 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (86 bp):
TTTAGCGGCGCTTTTTCCATAAATGCCGCTAAAGACCAGAACCTTTAGCGACGCTTTTCCCACAA
ACACCGCTAAAGACCAGGACC
Found at i:22435459 original size:7 final size:7
Alignment explanation
Indices: 22435449--22435493 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
22435439 CACTAACTCT
22435449 TAACCCC
1 TAACCCC
*
22435456 TAACCTC
1 TAACCCC
22435463 TAACCCC
1 TAACCCC
22435470 TAACCCC
1 TAACCCC
**
22435477 TAACTAC
1 TAACCCC
22435484 TAACCCC
1 TAACCCC
22435491 TAA
1 TAA
22435494 ATCTTATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:22435465 original size:21 final size:21
Alignment explanation
Indices: 22435449--22435493 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
22435439 CACTAACTCT
22435449 TAACCCCTAACCTCTAACCCC
1 TAACCCCTAACCTCTAACCCC
22435470 TAACCCCTAA-CTACTAACCCC
1 TAACCCCTAACCT-CTAACCCC
22435491 TAA
1 TAA
22435494 ATCTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACCCCTAACCTCTAACCCC
Found at i:22435637 original size:94 final size:98
Alignment explanation
Indices: 22435453--22435637 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 98
22435443 AACTCTTAAC
* * *
22435453 CCCTAACCTCTAACCCCTAACCCCTAACTACTAACCCCTAAATCTTATTTAATATATAAATTAAA
1 CCCTAACCTCTAACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAA
*
22435518 AAACACTAATTAATCTAGACCCTAAATCCTCAA
66 AAACACTAATTAATCTAAACCCTAAATCCTCAA
* * * * *
22435551 CCCTAACC-CTAA-CCCAAATCCCTAACCCCTAACCCCTACACCTTA-TTCA-ATATAAATTAGA
1 CCCTAACCTCTAACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAA
*
22435612 ACACACTAATTAATCTAAACCCTAAA
66 AAACACTAATTAATCTAAACCCTAAA
22435638 CTCTAACCTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 35 0.45
95 3 0.04
96 27 0.35
97 4 0.05
98 8 0.10
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (98 bp):
CCCTAACCTCTAACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAA
AAACACTAATTAATCTAAACCCTAAATCCTCAA
Found at i:22435828 original size:14 final size:14
Alignment explanation
Indices: 22435806--22435842 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22435796 ATCCTAAATT
22435806 AACCATATACCCTA
1 AACCATATACCCTA
*
22435820 AATCATATACCCTA
1 AACCATATACCCTA
22435834 AACCATATA
1 AACCATATA
22435843 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:22436276 original size:41 final size:41
Alignment explanation
Indices: 22436212--22436414 Score: 325
Period size: 41 Copynumber: 5.0 Consensus size: 41
22436202 TCAAAAACGG
* * * *
22436212 GCATTAGCGGCACTTTTTAAAAAACGCCACTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
22436253 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
22436294 GCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAGGCCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
22436335 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
22436376 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
22436415 CAAAAACTCA
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 151 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:22436574 original size:40 final size:39
Alignment explanation
Indices: 22436455--22436584 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
22436445 TAGGCTTGTT
* *
22436455 GCGGCGCTTTTCAAAAAACGCCGCTAATGCTT-ATTTTTA
1 GCGGCG-TTTTTAAAAAGCGCCGCTAATGCTTGATTTTTA
* * **
22436494 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGACCTTTA
1 GCGGCGTTTT-TAAAAAGCGCCGCTAATGCTTGATTTTTA
*
22436534 GCGACGTTTTTAGAAAAGCGCC-CTTAATGCTTGATTTTTA
1 GCGGCGTTTTTA-AAAAGCGCCGC-TAATGCTTGATTTTTA
*
22436574 GTGGCGTTTTT
1 GCGGCGTTTTT
22436585 TGTCCAAACG
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.05
39 27 0.36
40 45 0.59
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTA
Found at i:22437326 original size:9 final size:9
Alignment explanation
Indices: 22437312--22437342 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22437302 GTAGTAATTC
22437312 AATTCGGTT
1 AATTCGGTT
*
22437321 AATTCGGGT
1 AATTCGGTT
22437330 AATTCGGTT
1 AATTCGGTT
22437339 AATT
1 AATT
22437343 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:22438854 original size:43 final size:43
Alignment explanation
Indices: 22438779--22438887 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 43
22438769 AATGTCATAT
* * * * *
22438779 CCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAA
1 CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATAA
* **
22438822 CCCAGCCATGGTCTTACACGAAATCACATATCGATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATAA
*
22438865 CCTAGACATGGTCTTACAC-AAAT
1 CCCAGACATGGTCTTACACGAAAT
22438888 TCTTATATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 4 0.07
43 52 0.93
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATAA
Found at i:22445788 original size:5 final size:5
Alignment explanation
Indices: 22445778--22445803 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22445768 TGAGCATTCG
22445778 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
22445804 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:22446316 original size:19 final size:19
Alignment explanation
Indices: 22446283--22446330 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
22446273 TAAACAATTC
22446283 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
22446300 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
22446319 AATAATATAAAT
1 AATAATATAAAT
22446331 AGAAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:22446839 original size:9 final size:9
Alignment explanation
Indices: 22446825--22446861 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22446815 TATAGTTTGA
22446825 TATTCGAAT
1 TATTCGAAT
22446834 TATTCGAAT
1 TATTCGAAT
*
22446843 TATTCGAGT
1 TATTCGAAT
22446852 TATTCGAAT
1 TATTCGAAT
22446861 T
1 T
22446862 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22452161 original size:12 final size:12
Alignment explanation
Indices: 22452134--22452174 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
22452124 CAAATGAAAT
*
22452134 ATTTCTCATTTTC
1 ATTTCT-ATTTCC
22452147 ATTTCTATTTCC
1 ATTTCTATTTCC
*
22452159 ATTTCCATTTCC
1 ATTTCTATTTCC
22452171 ATTT
1 ATTT
22452175 TTTTGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTATTTCC
Found at i:22452167 original size:18 final size:19
Alignment explanation
Indices: 22452133--22452174 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
22452123 GCAAATGAAA
*
22452133 TATTTCTCATTTTCATTTC
1 TATTTCTCATTTCCATTTC
22452152 TATTTC-CATTTCCATTTC
1 TATTTCTCATTTCCATTTC
*
22452170 CATTT
1 TATTT
22452175 TTTTGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTCTCATTTCCATTTC
Found at i:22456937 original size:43 final size:43
Alignment explanation
Indices: 22456857--22457091 Score: 294
Period size: 43 Copynumber: 5.5 Consensus size: 43
22456847 GCTAATTTTT
* * * *
22456857 GCGGCGCTTACAGAAAAAAAACGCCTCTAAAGGTCATGTTCTTTA
1 GCGGCGCTT--AGGAAAAAAACGCCGCTAATGATCATGTTCTTTA
*
22456902 GCGGCGCTTAGGAAAAAAACGTCGCTAATGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTTCTTTA
* * *
22456945 GCAGCGCTTAGGAAAAAAATGCCGTTAATGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTTCTTTA
* *
22456988 GCAGCGCTTAGG-AAAAAACGCCCCTAATGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTTCTTTA
* * * *
22457030 GCGGCGCTTTGG-AAAAAACGCCGCTAAAGAACATGATCTTTA
1 GCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTTCTTTA
* *
22457072 GTGGCGTTTAGGAAAAAAAC
1 GCGGCGCTTAGGAAAAAAAC
22457092 ACCGTTAAAA
Statistics
Matches: 168, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 72 0.43
43 87 0.52
45 9 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (43 bp):
GCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTTCTTTA
Found at i:22457017 original size:42 final size:42
Alignment explanation
Indices: 22456872--22457089 Score: 283
Period size: 42 Copynumber: 5.1 Consensus size: 42
22456862 GCTTACAGAA
* * *
22456872 AAAAAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* *
22456914 AAAAAAACGTCGCTAATGATCATGTTCTTTAGCAGCGCTTAGG
1 -AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* * *
22456957 AAAAAAATGCCGTTAATGATCATGTTCTTTAGCAGCGCTTAGG
1 -AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* *
22457000 AAAAAACGCCCCTAATGATCATGTTCTTTAGCGGCGCTTTGG
1 AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* * * * *
22457042 AAAAAACGCCGCTAAAGAACATGATCTTTAGTGGCGTTTAGG
1 AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
22457084 AAAAAA
1 AAAAAA
22457090 ACACCGTTAA
Statistics
Matches: 155, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 78 0.50
43 77 0.50
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:22457109 original size:85 final size:86
Alignment explanation
Indices: 22456857--22457155 Score: 306
Period size: 85 Copynumber: 3.5 Consensus size: 86
22456847 GCTAATTTTT
* * *
22456857 GCGGCGCTTACAGAAAAAAAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAAC
1 GCGGCGCTT--AGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAAC
*
22456922 GTCGCTAATGATCATGTTCTTTA
64 GCCGCTAATGATCATGTTCTTTA
* * * * *
22456945 GCAGCGCTTAGGAAAAAAATGCCGTTAATGATCATGTTCTTTAGCAGCGCTTAGG-AAAAAACGC
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGC
*
22457009 CCCTAATGATCATGTTCTTTA
66 CGCTAATGATCATGTTCTTTA
* * * * * *
22457030 GCGGCGCTTTGG-AAAAAACGCCGCTAAAGAACATGATCTTTAGTGGCGTTTAGGAAAAAAACAC
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGC
* * * *
22457094 CGTTAA-AAGTAATGTTCTATA
66 CGCTAATGA-TCATGTTCTTTA
* * *
22457115 GCGGCGC---GGTAAAAAACGCCACTAAA-AGTAATGTTCTTTAG
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAG
22457156 TGACGCTTCA
Statistics
Matches: 177, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
82 3 0.02
83 25 0.14
84 35 0.20
85 67 0.38
86 39 0.22
88 8 0.05
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (86 bp):
GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGC
CGCTAATGATCATGTTCTTTA
Found at i:22457638 original size:21 final size:21
Alignment explanation
Indices: 22457614--22457654 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22457604 TCGCTGTTTC
*
22457614 TCTTGCTGCGGCCTCTGCTTT
1 TCTTGCTGCAGCCTCTGCTTT
22457635 TCTTGCTGCAGCCTCTGCTT
1 TCTTGCTGCAGCCTCTGCTT
22457655 CCCTCGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.34, G:0.22, T:0.41
Consensus pattern (21 bp):
TCTTGCTGCAGCCTCTGCTTT
Found at i:22460976 original size:10 final size:10
Alignment explanation
Indices: 22460961--22460989 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22460951 ATTAATAACT
22460961 ATATATATCC
1 ATATATATCC
22460971 ATATATATCC
1 ATATATATCC
22460981 ATATATATC
1 ATATATATC
22460990 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATCC
Found at i:22463067 original size:14 final size:14
Alignment explanation
Indices: 22463048--22463115 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
22463038 ATGACCGTTG
22463048 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
22463062 AAACCCTTAAACCTC
1 AAACCC-TAAATCTC
*
22463077 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
*
22463090 -AACCTTAAATCTC
1 AAACCCTAAATCTC
*
22463103 AAACCTTAAATCT
1 AAACCCTAAATCT
22463116 ATACCCCGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 8 0.18
12 1 0.02
14 19 0.43
15 11 0.25
16 5 0.11
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:22463662 original size:41 final size:40
Alignment explanation
Indices: 22463598--22463837 Score: 210
Period size: 41 Copynumber: 5.9 Consensus size: 40
22463588 TTTTGTTACT
* * * *
22463598 ATTAACGGCGCTTCGGTAAAAACGCCGCTAAAGGTAAATGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGA-GC
* * * *
22463639 ATTAGCGGCGCTTAGCTACAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-TAGAGC
* * * * * *
22463680 ATTAGTGGTGCTCAGATAAAAATGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT-AGAGC
* *
22463721 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-TAGAGC
* * * ** * *
22463762 ATTAGCAGCGCTGAGGTAAAAACGCCGCTAAATATCCGAGT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT-AGAGC
**
22463803 ATTAGCGGCGCTTAGATAAAAACGTTGCTAAAGGT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT
22463838 TTAAAAAATC
Statistics
Matches: 155, Mismatches: 40, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
41 153 0.99
42 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGAGC
Found at i:22463751 original size:82 final size:82
Alignment explanation
Indices: 22463614--22463836 Score: 295
Period size: 82 Copynumber: 2.7 Consensus size: 82
22463604 GGCGCTTCGG
* ** * *
22463614 TAAAAACGCCGCTAAAGGT-AAATGCATTAGCGGCGCTTAGCTACAAACGCCGCTAAAGGCCAGA
1 TAAAAACGCCGCTAAAGATCCGA-GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGA
** *
22463678 GAATTAGTGGTGCTCAGA
65 GAATTAGCAGCGCTCAGA
*
22463696 TAAAAATGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAG
1 TAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAG
* *
22463761 AATTAGCAGCGCTGAGG
66 AATTAGCAGCGCTCAGA
* * **
22463778 TAAAAACGCCGCTAAATATCCGAGTATTAGCGGCGCTTAGATAAAAACGTTGCTAAAGG
1 TAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
22463837 TTTAAAAAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
82 123 0.99
83 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.18
Consensus pattern (82 bp):
TAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAG
AATTAGCAGCGCTCAGA
Done.