Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 92 of 295
Found at i:29275629 original size:66 final size:66
Alignment explanation
Indices: 29275519--29275651 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
29275509 TTAAAGCGAT
29275519 AAAATGCCAAAAAGCTGAAATGCCGAAATTCTGGCATTTCGAGGACTTGTGAGCAAGCGAACGCT
1 AAAATGCCAAAAAGCTGAAATGCCGAAATTCTGGCATTTCGAGGACTTGTGAGCAAGCGAACGCT
29275584 C
66 C
* * *
29275585 AAAATGCCGAAAAGCTGAAATGCCGAAATTTTGGCATTTTGAGGACTTGTGAGCAAGCGAACGCT
1 AAAATGCCAAAAAGCTGAAATGCCGAAATTCTGGCATTTCGAGGACTTGTGAGCAAGCGAACGCT
29275650 C
66 C
29275651 A
1 A
29275652 CTAGTTTGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (66 bp):
AAAATGCCAAAAAGCTGAAATGCCGAAATTCTGGCATTTCGAGGACTTGTGAGCAAGCGAACGCT
C
Found at i:29276143 original size:11 final size:11
Alignment explanation
Indices: 29276127--29276198 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
29276117 CATGATAGGT
29276127 ATGATATGCAC
1 ATGATATGCAC
*
29276138 ATGATATG--T
1 ATGATATGCAC
29276147 ATGATATGCAC
1 ATGATATGCAC
* *
29276158 ATGACATG--T
1 ATGATATGCAC
29276167 ATGATATGCAC
1 ATGATATGCAC
*
29276178 ATGATATG--T
1 ATGATATGCAC
29276187 ATGATATGCAC
1 ATGATATGCAC
29276198 A
1 A
29276199 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29276150 original size:9 final size:9
Alignment explanation
Indices: 29276118--29276194 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
29276108 TTTGATAAAC
*
29276118 ATGATAGGT
1 ATGATATGT
*
29276127 ATGATATGCAC
1 ATGATATG--T
29276138 ATGATATGT
1 ATGATATGT
*
29276147 ATGATATGCAC
1 ATGATATG--T
*
29276158 ATGACATGT
1 ATGATATGT
*
29276167 ATGATATGCAC
1 ATGATATG--T
29276178 ATGATATGT
1 ATGATATGT
29276187 ATGATATG
1 ATGATATG
29276195 CACACGAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 30 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:29276206 original size:20 final size:20
Alignment explanation
Indices: 29276116--29276198 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
29276106 ATTTTGATAA
*
29276116 ACATGATAGGTATGATATGC
1 ACATGATATGTATGATATGC
29276136 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29276156 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29276176 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29276196 ACA
1 ACA
29276199 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29276284 original size:23 final size:23
Alignment explanation
Indices: 29276254--29276302 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
29276244 AGGAAGTGCA
29276254 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29276277 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29276300 AAA
1 AAA
29276303 AGAGGCTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29276319 original size:25 final size:23
Alignment explanation
Indices: 29276254--29276323 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
29276244 AGGAAGTGCA
*
29276254 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTAGGCCCCAGTTATT
*
29276277 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTAGGCCCCAGTTATT
29276300 AAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAG-GGCTTAGGCC-CCAGTTAT
29276324 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 23 0.53
24 9 0.21
25 11 0.26
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTAGGCCCCAGTTATT
Found at i:29276552 original size:31 final size:31
Alignment explanation
Indices: 29276517--29276580 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29276507 CATTTACCGT
*
29276517 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29276548 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29276579 AA
1 AA
29276581 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29277360 original size:48 final size:48
Alignment explanation
Indices: 29277289--29277543 Score: 343
Period size: 48 Copynumber: 5.3 Consensus size: 48
29277279 GGGGTGTTAC
* *
29277289 ACATGGTTTTACACTGGCACATATATCATCGCCAATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCACATATATCATCGCCGATGCCATGTCCCAG
* *
29277337 ACATGGTCTTACACTGGCACATATATCATTGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCACATATATCATCGCCGATGCCATGTCCCAG
29277385 ACATGGTCTTACACTGGCACATATATCATCGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCACATATATCATCGCCGATGCCATGTCCCAG
* * * * *
29277433 ACATAGTTTTACACTGGCACATACATTATCGCCGATGCAATGTCCCAG
1 ACATGGTCTTACACTGGCACATATATCATCGCCGATGCCATGTCCCAG
* * * *
29277481 ACACGGTCTTACACAGGCACATATTTCAGAT-GCCAATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCACATATATC--ATCGCCGATGCCATGTCCCAG
*
29277530 AAAAT-GTCTTACAC
1 -ACATGGTCTTACAC
29277544 AAAATCTCAT
Statistics
Matches: 182, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
48 153 0.84
49 25 0.14
50 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCACATATATCATCGCCGATGCCATGTCCCAG
Found at i:29292277 original size:44 final size:44
Alignment explanation
Indices: 29292211--29292294 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
29292201 ACATGTATCA
* * *
29292211 CATCCATAATGAACTCGGACCAACTCAATGAGCTCGGATGCGAG
1 CATCCATAATGAACTCGAACCAACTCAACGAGCTCAGATGCGAG
29292255 CATCCATAATGAACTCGAACCAACTCAACGAGCTCAGATG
1 CATCCATAATGAACTCGAACCAACTCAACGAGCTCAGATG
29292295 TCTCATACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.18
Consensus pattern (44 bp):
CATCCATAATGAACTCGAACCAACTCAACGAGCTCAGATGCGAG
Found at i:29305541 original size:13 final size:13
Alignment explanation
Indices: 29305523--29305547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29305513 TATGTTGCCA
29305523 TCGATATGTGATT
1 TCGATATGTGATT
29305536 TCGATATGTGAT
1 TCGATATGTGAT
29305548 GTGCGAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
TCGATATGTGATT
Found at i:29305588 original size:101 final size:101
Alignment explanation
Indices: 29305432--29305657 Score: 314
Period size: 101 Copynumber: 2.2 Consensus size: 101
29305422 CGACATATGA
* * **
29305432 ATTCTGATATGTGATGTGTGAGTAAGACTATGGCATCGATGTGTGATTCCTATATATGTGCGCGA
1 ATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGACATGTGATTCCTATATATGTGCGCGA
*
29305497 GTAAGACCACGTTTAATATGTTGCCATCGATATGTG
66 GTAAGACCACGTTTAATATGTTGCCATCGAAATGTG
*
29305533 ATT-TCGATATGTGATGTGCGAGTAAGACCATGGCATCGACATGTGATT-CTGATATATGTGTGC
1 ATTCT-GATATGTGATGTGCGAGTAAGACCATGGCATCGACATGTGATTCCT-ATATATGTGCGC
* * *
29305596 GAGTAAGTCCACGTTTTATATGTTGGCATCGAAATGTG
64 GAGTAAGACCACGTTTAATATGTTGCCATCGAAATGTG
* *
29305634 ATTCTGATATATG-TATGCGAGTAA
1 ATTCTGATATGTGATGTGCGAGTAA
29305658 AACCCTGTCT
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
100 13 0.12
101 97 0.87
102 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (101 bp):
ATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGACATGTGATTCCTATATATGTGCGCGA
GTAAGACCACGTTTAATATGTTGCCATCGAAATGTG
Found at i:29305679 original size:56 final size:56
Alignment explanation
Indices: 29305563--29305692 Score: 140
Period size: 56 Copynumber: 2.3 Consensus size: 56
29305553 AGTAAGACCA
* * ** ** *
29305563 TGGCATCGACATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTTATATGT
1 TGGCATCGAAATGTGATTCTGATATATGTATGCGAGTAAAACCACGTTGGACATGT
29305619 TGGCATCGAAATGTGATTCTGATATATGTATGCGAGTAAAACC-CTGTCTGGGACA-G-
1 TGGCATCGAAATGTGATTCTGATATATGTATGCGAGTAAAACCAC-GT-T-GGACATGT
*
29305675 TGGCATCGATATGTGATT
1 TGGCATCGAAATGTGATT
29305693 ACATGAAAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
55 1 0.02
56 58 0.92
57 2 0.03
58 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (56 bp):
TGGCATCGAAATGTGATTCTGATATATGTATGCGAGTAAAACCACGTTGGACATGT
Found at i:29312497 original size:50 final size:50
Alignment explanation
Indices: 29312387--29312651 Score: 193
Period size: 50 Copynumber: 5.5 Consensus size: 50
29312377 GATGTCGACA
* * * * * *
29312387 CCATGTCCCAGACATGGTGTTACACTG--GCTCACACATCAAAG-TCGATG
1 CCATGTCCCAGACATGCTCTTACACTGACTCTCATATATCAAGGCT-GATG
* *
29312435 CTATGTCCCAGACATGCTCTTACACTGACTCTCATATATCAAGGCTAATG
1 CCATGTCCCAGACATGCTCTTACACTGACTCTCATATATCAAGGCTGATG
* * * *
29312485 CCATGTCCCAGACATGGC-CTTACACTGGCTCTCATCTGTC--GGTGTCGATG
1 CCATGTCCCAGACAT-GCTCTTACACTGACTCTCATATATCAAGG-CT-GATG
* * *
29312535 CCATGTCCTAGACATGGTCTTACATTGAC-C-C--ATATCAA-GCTGATG
1 CCATGTCCCAGACATGCTCTTACACTGACTCTCATATATCAAGGCTGATG
* * **
29312580 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGG-TCGATG
1 CCATGTCCCAGACATGCTCTTACACTGACTCTCATATATCAAGGCT-GATG
*
29312628 -CATCTCCCAGACATG-TCTTACACT
1 CCATGTCCCAGACATGCTCTTACACT
29312652 AGCACACATA
Statistics
Matches: 175, Mismatches: 27, Indels: 32
0.75 0.12 0.14
Matches are distributed among these distances:
45 30 0.17
46 14 0.08
47 17 0.10
48 34 0.19
49 4 0.02
50 73 0.42
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGCTCTTACACTGACTCTCATATATCAAGGCTGATG
Found at i:29312605 original size:95 final size:98
Alignment explanation
Indices: 29312387--29312651 Score: 303
Period size: 95 Copynumber: 2.8 Consensus size: 98
29312377 GATGTCGACA
* * *
29312387 CCATGTCCCAGACATGGTGTTACACTGGCTCACA-CATCAAAGTCGATGCTATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCAAAGTCGATGCCATGTCCCAGACATG
29312451 CTCTTACACTGACTCTCATATATCAAGGCTAATG
66 CTCTTACACTGACTCTCA-ATATCAAGGCTAATG
* * *** *
29312485 CCATGTCCCAGACATGGCCTTACACTGGCTCTCATCTGTCGGTGTCGATGCCATGTCCTAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-ATCAAAGTCGATGCCATGTCCCAGACAT
* * *
29312550 GGTCTTACATTGAC-C-C-ATATCAA-GCTGATG
65 GCTCTTACACTGACTCTCAATATCAAGGCTAATG
* *** *
29312580 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATG-CATCTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCAAAGTCGATGCCATGTCCCAGACATG
29312643 -TCTTACACT
66 CTCTTACACT
29312652 AGCACACATA
Statistics
Matches: 145, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
91 8 0.06
92 13 0.09
93 8 0.06
94 1 0.01
95 40 0.28
96 7 0.05
98 32 0.22
99 2 0.01
100 34 0.23
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (98 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCAAAGTCGATGCCATGTCCCAGACATG
CTCTTACACTGACTCTCAATATCAAGGCTAATG
Found at i:29316063 original size:44 final size:42
Alignment explanation
Indices: 29315987--29316130 Score: 121
Period size: 43 Copynumber: 3.4 Consensus size: 42
29315977 TGATAAGTGT
* ** ** *
29315987 TTTCATGTAAGACCGCGTCTGGGATGTTGGCATCA-ATTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATCGGCATCATA-TT-TGA
29316030 TTTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGA
* * * *
29316073 TTTCGTGTAAGACCCTGTCAGGGACAGT-GGCAACGATATTTGG
1 TTTCGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGA
* *
29316116 TTACATGTAAGACCA
1 TTTCGTGTAAGACCA
29316131 CATTTGGGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.31
43 29 0.35
44 28 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGA
Found at i:29316097 original size:42 final size:43
Alignment explanation
Indices: 29316027--29316130 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
29316017 CATCAATTTA
* *
29316027 TGATTTACGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATATT
1 TGATTT-CGTGTAAGACCATGTCAGGGACAGT-GGCAACGATATT
*
29316070 TGATTTCGTGTAAGACCCTGTCAGGGACAGTGGCAACGATATT
1 TGATTTCGTGTAAGACCATGTCAGGGACAGTGGCAACGATATT
* * *
29316113 TGGTTACATGTAAGACCA
1 TGATTTCGTGTAAGACCA
29316131 CATTTGGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCAGGGACAGTGGCAACGATATT
Found at i:29318419 original size:50 final size:50
Alignment explanation
Indices: 29318359--29318557 Score: 222
Period size: 50 Copynumber: 4.0 Consensus size: 50
29318349 ATCACTCATT
* * *
29318359 TGGCCGAATATACAAGATCAAATATAATATCACATATATGCATACCTATG
1 TGGCCGAATATACAAGATCAAATATAACATCACATATGTGCATACCTATA
* * ** * *
29318409 TGGCCAAATATGCAAGATCAAACCTAACATCACATATGTGCTTACTTATA
1 TGGCCGAATATACAAGATCAAATATAACATCACATATGTGCATACCTATA
* * *
29318459 TGGCTGAATATACAA-ATTCAAATATAACATCACATTTGTGCATACCTTTA
1 TGGCCGAATATACAAGA-TCAAATATAACATCACATATGTGCATACCTATA
* * * *
29318509 T-ACCTGAATATACAAGATCCAATATAACATCATATATGTACATACCTAT
1 TGGCC-GAATATACAAGATCAAATATAACATCACATATGTGCATACCTAT
29318558 GTTGCCGGAT
Statistics
Matches: 121, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 118 0.98
51 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAACATCACATATGTGCATACCTATA
Found at i:29337005 original size:50 final size:50
Alignment explanation
Indices: 29336890--29336996 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
29336880 TTTGGCTAAG
** * *
29336890 TATACAAGATCCAATATAATATCACATATATGCATACATATGTGGCCAAA
1 TATACAAGATAAAATATAACATCACATATATGCATACATATATGGCCAAA
* * * * **
29336940 TATGCAAGATAAAATATAACATCACATATGTGCTTACTTATATGGCTGAA
1 TATACAAGATAAAATATAACATCACATATATGCATACATATATGGCCAAA
29336990 TATACAA
1 TATACAA
29336997 ATTCAAATAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (50 bp):
TATACAAGATAAAATATAACATCACATATATGCATACATATATGGCCAAA
Found at i:29342159 original size:28 final size:28
Alignment explanation
Indices: 29342117--29342220 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
29342107 AGTAGTTGCT
29342117 CCTGATGGGCCATATGAATGTGATTGGG
1 CCTGATGGGCCATATGAATGTGATTGGG
* *
29342145 CTTGATGGGCCATATGAATGTGGTTGGG
1 CCTGATGGGCCATATGAATGTGATTGGG
* * **
29342173 CCTGATGGGCCATGTGAACGAAATTGGG
1 CCTGATGGGCCATATGAATGTGATTGGG
* *
29342201 CCTAAATGGGCCAAATGAAT
1 CCT-GATGGGCCATATGAAT
29342221 AAGCGTAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 51 0.81
29 12 0.19
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
CCTGATGGGCCATATGAATGTGATTGGG
Found at i:29342558 original size:27 final size:27
Alignment explanation
Indices: 29342520--29343047 Score: 472
Period size: 27 Copynumber: 19.7 Consensus size: 27
29342510 TAATAAAGTG
** * * *
29342520 AAATTACTGAAATACCTTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29342547 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
29342574 AAATTATCGAAATACCCTC-AATTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* ** *
29342600 AAATTACTAAAATACTTTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
29342627 AAATTATCGAAATACCCTCGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
29342654 AAATTATCAAAACACCTTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29342681 AAATTACCAAAATACCCTC-AATTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
29342707 AAATTATCGAAATACCCTCGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** * *
29342734 AAATTACTGAAATACCGTCGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * * * *
29342761 AAATTATCAAAACACCTTCAATTTTTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
29342788 AAATTACCAAAATACTTTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29342815 AAATTACTAAAATACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** *
29342841 AAATTACTTAACTACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
29342868 AAATTATCGAAATACTCTCGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29342895 AAATTACCAAAACACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29342922 AAATTACCGAAACACCAC-CGATTTGTA
1 AAATTACCAAAATACC-CTCGATTTGTA
* *
29342949 AAATTATCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29342976 AAATTAACTAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29343003 AAATTACCAAAACACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
29343030 AAATTATCGAAATACCCT
1 AAATTACCAAAATACCCT
29343048 TGTAGCATAA
Statistics
Matches: 406, Mismatches: 88, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
26 66 0.16
27 339 0.83
28 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:29342706 original size:107 final size:107
Alignment explanation
Indices: 29342520--29343035 Score: 533
Period size: 107 Copynumber: 4.8 Consensus size: 107
29342510 TAATAAAGTG
* * * * * * * *
29342520 AAATTACTGAAATACCTTTGATTTATAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAACACCTTCGATTTGTAAAATTACCAAA
* ** *
29342585 ATACCCTCAATTGTGAAATTACTAAAATACTTTCAATTTGTA
66 ATACCCTCAATTGTAAAATTACTAAAATACCCTCGATTTGTA
*
29342627 AAATTA-TCGAAATACCCTCGATTTGTGAAATTATCAAAACACCTTCGATTTGTAAAATTACCAA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTATCAAAACACCTTCGATTTGTAAAATTACCAA
* * *
29342691 AATACCCTCAATTGTGAAATTA-TCGAAATACCCTCGATTTGTG
65 AATACCCTCAATTGTAAAATTACT-AAAATACCCTCGATTTGTA
* * * *
29342734 AAATTACTGAAATACCGTCGATTTGTGAAATTATCAAAACACCTTCAATTTTTAAAATTACCAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAACACCTTCGATTTGTAAAATTACCAAA
** * * *
29342799 ATACTTTTGATTTGTAAAATTACTAAAATACCCTCGA-TTGTG
66 ATAC-CCTCAATTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * * *
29342841 AAATTACTTAACTACCCTCGATTTGTAAAATTATCGAAATA-CTCTCGATTTGTGAAATTACCAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAACACCT-TCGATTTGTAAAATTACCAA
* ** *
29342905 AACACCCTCAATTTGTAAAATTACCGAAACACCAC-CGATTTGTA
65 AATACCCTCAA-TTGTAAAATTACTAAAATACC-CTCGATTTGTA
* * * * * *
29342949 AAATTA-TCAAAATACCCTCAATTTGTAAAATTAACTAAATACCCTCGATTTGTAAAATTACCAA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTATCAAAACACCTTCGATTTGTAAAATTACCAA
*
29343013 AACACCC-CTAATTTGTAAAATTA
65 AATACCCTC-AA-TTGTAAAATTA
29343036 TCGAAATACC
Statistics
Matches: 349, Mismatches: 48, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
106 6 0.02
107 237 0.68
108 104 0.30
109 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (107 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAACACCTTCGATTTGTAAAATTACCAAA
ATACCCTCAATTGTAAAATTACTAAAATACCCTCGATTTGTA
Found at i:29342758 original size:134 final size:133
Alignment explanation
Indices: 29342533--29343047 Score: 550
Period size: 134 Copynumber: 3.8 Consensus size: 133
29342523 TTACTGAAAT
* * * * * *
29342533 ACCTTTGATTTATAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTC-AATT
1 ACCTTCGATTTGTAAAATTACCAAAATACCCTC-AATTGTAAAATTATCGAAATACCCTCGATTT
* * * * * * *
29342597 GTGAAATTACTAAAATACTTTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTGAAATTATC
65 GTAAAATTACTAAAATAC-CTCAATTTGTAAAATTATCAAAACACCCTCAATTTGTAAAATTACC
29342662 AAAAC
129 AAAAC
*
29342667 ACCTTCGATTTGTAAAATTACCAAAATACCCTCAATTGTGAAATTATCGAAATACCCTCGATTTG
1 ACCTTCGATTTGTAAAATTACCAAAATACCCTCAATTGTAAAATTATCGAAATACCCTCGATTTG
* * * * * *
29342732 TGAAATTACTGAAATACCGTCGATTTGTGAAATTATCAAAACACCTTCAATTTTTAAAATTACCA
66 TAAAATTACTAAAATACC-TCAATTTGTAAAATTATCAAAACACCCTCAATTTGTAAAATTACCA
*
29342797 AAAT
130 AAAC
* * * * * * *
29342801 ACTTTTGATTTGTAAAATTACTAAAATACCCTCGATTGTGAAATTA-CTTAACTACCCTCGATTT
1 ACCTTCGATTTGTAAAATTACCAAAATACCCTCAATTGTAAAATTATC-GAAATACCCTCGATTT
* * * *
29342865 GTAAAATTA-TCGAAATACTCTCGATTTGTGAAATTACCAAAACACCCTCAATTTGTAAAATTAC
65 GTAAAATTACT-AAAATAC-CTCAATTTGTAAAATTATCAAAACACCCTCAATTTGTAAAATTAC
*
29342929 CGAAAC
128 CAAAAC
** * * *
29342935 ACCACCGATTTGTAAAATTATCAAAATACCCTCAATTTGTAAAATTAACTAAATACCCTCGATTT
1 ACCTTCGATTTGTAAAATTACCAAAATACCCTCAA-TTGTAAAATTATCGAAATACCCTCGATTT
* * * * *
29343000 GTAAAATTACCAAAACACCCCTAATTTGTAAAATTATCGAAATACCCT
65 GTAAAATTACTAAAATACCTC-AATTTGTAAAATTATCAAAACACCCT
29343048 TGTAGCATAA
Statistics
Matches: 323, Mismatches: 49, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
133 26 0.08
134 235 0.73
135 61 0.19
136 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (133 bp):
ACCTTCGATTTGTAAAATTACCAAAATACCCTCAATTGTAAAATTATCGAAATACCCTCGATTTG
TAAAATTACTAAAATACCTCAATTTGTAAAATTATCAAAACACCCTCAATTTGTAAAATTACCAA
AAC
Found at i:29343073 original size:28 final size:27
Alignment explanation
Indices: 29343028--29343115 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
29343018 CCCTAATTTG
29343028 TAAAATTATCGAAATACCCTTGTAGCA
1 TAAAATTATCGAAATACCCTTGTAGCA
* **
29343055 TAAAATTTTCCGAAATACCCTTGTAGTG
1 TAAAATTAT-CGAAATACCCTTGTAGCA
* * **
29343083 TAAAATGACCGGCATACCCTTGTAG-A
1 TAAAATTATCGAAATACCCTTGTAGCA
29343109 GTAAAAT
1 -TAAAAT
29343116 GAGTTTTGCC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
27 28 0.56
28 22 0.44
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTTGTAGCA
Found at i:29362436 original size:38 final size:38
Alignment explanation
Indices: 29362306--29362478 Score: 197
Period size: 38 Copynumber: 4.5 Consensus size: 38
29362296 TAATCCAGTC
* **
29362306 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CTCGGATATAAT
* *
29362346 ACCAGCACTAGGCCTGCGGGATTTAAC-CTGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACTC-GGATATAAT
* *
29362384 A-CAGCACGAAGCCTGCGGGATTTAACTCGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACTCGGATATAAT
* *
29362421 ACCAGCACAAAGCCTGCGGGATTTATCCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACTCGGATATAAT
* * *
29362459 TCCAGCATATAGCCTGCGGG
1 ACCAGCACAAAGCCTGCGGG
29362479 TCTTTAAGCC
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
37 33 0.29
38 59 0.51
39 5 0.04
40 18 0.16
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACTCGGATATAAT
Found at i:29362436 original size:75 final size:77
Alignment explanation
Indices: 29362308--29362487 Score: 211
Period size: 75 Copynumber: 2.4 Consensus size: 77
29362298 ATCCAGTCAC
* *
29362308 CAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAATACCAGCACTAGGCCTGCGGGATTTAAC
1 CAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAATACCAGCACAAAGCCTGCGGGATTTAAC
*
29362373 CTGGATATAATA
66 CCGGATATAATA
* * ** * *
29362385 CAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATATTACCAGCACAAAGCCTGCGGGATTTATC
1 CAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAATACCAGCACAAAGCCTGCGGGATTTAAC
*
29362448 CCGGATATAATTC
66 CCGGATATAA-TA
* * * *
29362461 CAGCATATAGCCTGCGGGTCTTTAAGC
1 CAGCACAAAACCTGCGGGACTTTAAGC
29362488 CCGGATACAC
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
75 42 0.49
76 21 0.24
77 22 0.26
78 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (77 bp):
CAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAATACCAGCACAAAGCCTGCGGGATTTAAC
CCGGATATAATA
Found at i:29377020 original size:43 final size:43
Alignment explanation
Indices: 29376968--29377079 Score: 224
Period size: 43 Copynumber: 2.6 Consensus size: 43
29376958 TCGGCATTAC
29376968 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
29377011 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
29377054 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
29377080 TAATACTAAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.29, C:0.34, G:0.27, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:29377120 original size:38 final size:38
Alignment explanation
Indices: 29377072--29377175 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
29377062 GGCACGAAGG
* * * * *
29377072 CCCGAATATAATACTAACACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
*
29377110 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
** *
29377148 CCCGGATATTTTACCAGCACGAAGCCTG
1 CCCGGATATAATACCAACACGAAGCCTG
29377176 GGGGTCTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
Found at i:29380867 original size:40 final size:39
Alignment explanation
Indices: 29380823--29381087 Score: 313
Period size: 40 Copynumber: 6.6 Consensus size: 39
29380813 GCTCCTCGTT
*
29380823 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
29380863 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTATCTCGCA
* *
29380903 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTATCTCGCA
*
29380942 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTATCTCGCA
*
29380982 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * * *
29381022 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
29381063 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
29381088 CATCATTCAA
Statistics
Matches: 204, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
39 38 0.19
40 152 0.75
41 14 0.07
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:29385202 original size:42 final size:43
Alignment explanation
Indices: 29385155--29385259 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 43
29385145 GTGTGGTTTT
** *
29385155 GTGTAAGACCATGTCTGGGACATTGGCA-TCATATGAGATTAC
1 GTGTAAGACCATGTCTGGGACAAAGGCATTCATATGAGATAAC
* * * *
29385197 GTGTAAGACCCTGTCTTGGACAAAGGCATTGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACAAAGGCATTCATATGAGATAAC
* * *
29385240 ATGTAAGATCATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
29385260 TATGGTATTG
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 24 0.48
43 26 0.52
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAAAGGCATTCATATGAGATAAC
Found at i:29386814 original size:19 final size:19
Alignment explanation
Indices: 29386773--29386815 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
29386763 GGTCACCTAT
* *
29386773 TAAAACATTTTGTTCCACT
1 TAAAACATTTTGGTCCACG
29386792 TAAAACAATTTTGGT-CACG
1 TAAAAC-ATTTTGGTCCACG
29386811 TAAAA
1 TAAAA
29386816 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (19 bp):
TAAAACATTTTGGTCCACG
Found at i:29390537 original size:48 final size:48
Alignment explanation
Indices: 29390466--29390798 Score: 594
Period size: 48 Copynumber: 6.9 Consensus size: 48
29390456 ATAAATATAT
29390466 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
*
29390514 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
*
29390562 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
*
29390610 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
*
29390658 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
*
29390706 GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATAC
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
* * *
29390754 GTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAGA
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
29390799 CGTGTGTATA
Statistics
Matches: 279, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 279 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (48 bp):
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
Found at i:29391001 original size:37 final size:37
Alignment explanation
Indices: 29390946--29391047 Score: 150
Period size: 37 Copynumber: 2.8 Consensus size: 37
29390936 ATATTCCAGT
* *
29390946 TAAGACCCGATGATTACGTGTGGAGATTATGTCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTATATCCGGG
*
29390983 TAAGACCCGATGACTACGTGTGGAGATTTTATCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTATATCCGGG
* * *
29391020 TAAGACCAGATAACTTCGTGTGGAGATT
1 TAAGACCCGATGACTACGTGTGGAGATT
29391048 TCATCTGAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (37 bp):
TAAGACCCGATGACTACGTGTGGAGATTATATCCGGG
Found at i:29392326 original size:30 final size:30
Alignment explanation
Indices: 29392291--29392351 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
29392281 AAAATAATTG
29392291 TACAAATGAAAACAAACAAAATCATTAAAA
1 TACAAATGAAAACAAACAAAATCATTAAAA
*
29392321 TACAAATGAAAATAAACAAAATCATTAAAA
1 TACAAATGAAAACAAACAAAATCATTAAAA
29392351 T
1 T
29392352 GGATTAACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (30 bp):
TACAAATGAAAACAAACAAAATCATTAAAA
Found at i:29393662 original size:24 final size:26
Alignment explanation
Indices: 29393626--29393674 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
29393616 TATTGGTTTT
29393626 TTATTTTAATTTATTTTT-GTTTTTGG
1 TTATTTT-ATTTATTTTTGGTTTTTGG
29393652 TTATTTT-TTTATTTTTGGTTTTT
1 TTATTTTATTTATTTTTGGTTTTT
29393675 CTCTAGCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 6 0.27
26 7 0.32
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (26 bp):
TTATTTTATTTATTTTTGGTTTTTGG
Found at i:29396528 original size:27 final size:27
Alignment explanation
Indices: 29396494--29396970 Score: 639
Period size: 27 Copynumber: 17.7 Consensus size: 27
29396484 TTTAGTTTAC
*
29396494 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
29396521 AAATTTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* **
29396548 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
*
29396575 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
29396602 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
29396629 AAAATTACCAAAATACCCCTGGATTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
29396656 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
29396683 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
29396710 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
*
29396737 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
29396764 AAAATTACCAAAATACTCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
29396791 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
29396818 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
29396845 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
29396872 AAAATTACTAAAATACCCATGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
29396899 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
29396926 AAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
29396953 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
29396971 CCAATTTACA
Statistics
Matches: 388, Mismatches: 62, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 388 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:29396998 original size:81 final size:81
Alignment explanation
Indices: 29396488--29396989 Score: 779
Period size: 81 Copynumber: 6.2 Consensus size: 81
29396478 GAATACTTTA
* *
29396488 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAATTTACCAAAATACCCTTGGTTTGTAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
29396553 TACTAAAATACCCTTG
66 TACTAAAATACCCTTG
* * *
29396569 GTTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
* *
29396634 TACCAAAATACCCCTG
66 TACTAAAATACCCTTG
* **
29396650 GATTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
*
29396715 TACTAAAATACCCTTA
66 TACTAAAATACCCTTG
* *
29396731 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCTTGGTTTGTAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
*
29396796 TACTAAAATACCATTG
66 TACTAAAATACCCTTG
29396812 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
*
29396877 TACTAAAATACCCATG
66 TACTAAAATACCCTTG
* * **
29396893 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTCGACTTGTAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
* * ***
29396958 TACCAAAGTACCCCCA
66 TACTAAAATACCCTTG
*
29396974 ATTTACAAAATTACCA
1 GTTTACAAAATTACCA
29396990 TTTTACCCCC
Statistics
Matches: 384, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 384 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
TACTAAAATACCCTTG
Found at i:29397418 original size:27 final size:27
Alignment explanation
Indices: 29397015--29397401 Score: 499
Period size: 27 Copynumber: 14.4 Consensus size: 27
29397005 ACAAAATTTT
* **
29397015 TGAAATACCCCTATAGGGTATTATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * * **
29397042 CGAAATACCCCTATAAGGTATTATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * **
29397069 CGAAATACCCCTATAGGGTATTATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* *
29397096 TAAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * *
29397123 CGAAATACGCATGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
29397150 TGAAATACCCCTGTAGGGTAGAATTA-
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
29397176 TCGAAATACCCATGTAGGGTAGAATTAC
1 T-GAAATACCCCTGTAGGGTAGAATTAC
29397204 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
29397231 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * *
29397258 TGAAATACCCGTGTAGGATGGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* *
29397285 TGAAATACCCTTGTAGGGTAGAATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
29397312 TGAAA-ACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * *
29397338 CGAAATACCCTTGTAGGGTAGAAATAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
29397365 TGAAATACCCTTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
29397392 TGAGATACCC
1 TGAAATACCC
29397402 TTATGGGGTA
Statistics
Matches: 323, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
26 24 0.07
27 298 0.92
28 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAGAATTAC
Found at i:29397556 original size:21 final size:21
Alignment explanation
Indices: 29397531--29397580 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
29397521 ATATTGTTAT
29397531 ACATGATAGGACATGATATGC
1 ACATGATAGGACATGATATGC
* **
29397552 ACATGATATGTTATGATATGC
1 ACATGATAGGACATGATATGC
29397573 ACATGATA
1 ACATGATA
29397581 TGCTATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (21 bp):
ACATGATAGGACATGATATGC
Found at i:29397557 original size:11 final size:11
Alignment explanation
Indices: 29397531--29397583 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
29397521 ATATTGTTAT
*
29397531 ACATGATA-GG
1 ACATGATATGC
29397541 ACATGATATGC
1 ACATGATATGC
29397552 ACATGATATG-
1 ACATGATATGC
**
29397562 TTATGATATGC
1 ACATGATATGC
29397573 ACATGATATGC
1 ACATGATATGC
29397584 TATGATATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 16 0.44
11 20 0.56
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:29397602 original size:21 final size:21
Alignment explanation
Indices: 29397543--29397591 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
29397533 ATGATAGGAC
*
29397543 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
29397564 ATGATATGCACATGATATGCT
1 ATGATATGCACATGATATGCT
29397585 ATGATAT
1 ATGATAT
29397592 ACTCATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:29401641 original size:16 final size:18
Alignment explanation
Indices: 29401615--29401652 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29401605 GATGTTATGT
29401615 TTTTGTTACTT-ATTTAA
1 TTTTGTTACTTAATTTAA
29401632 TTTT-TTACTTACATTTAA
1 TTTTGTTACTTA-ATTTAA
29401650 TTT
1 TTT
29401653 AATTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTGTTACTTAATTTAA
Found at i:29404301 original size:49 final size:50
Alignment explanation
Indices: 29404204--29404301 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 50
29404194 ATCTATTTAT
* * * * * *
29404204 AGGTTGAAAAAACTTTATTCTGATCAATGTCAAATAGATGAAGTATAGTA
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAGGAAGCATAGTA
*
29404254 AGGTTG-AAAAACCTTATTCTAATCAATTTAAAATAAAAGGAA-CATAGT
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAAT-AAAGGAAGCATAGT
29404302 TTTATATGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
49 29 0.73
50 11 0.28
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAGGAAGCATAGTA
Found at i:29405710 original size:14 final size:14
Alignment explanation
Indices: 29405691--29405720 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29405681 ACCCATTCAT
29405691 TCCCTTATTCAGCA
1 TCCCTTATTCAGCA
*
29405705 TCCCTTATTCATCA
1 TCCCTTATTCAGCA
29405719 TC
1 TC
29405721 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.37, G:0.03, T:0.40
Consensus pattern (14 bp):
TCCCTTATTCAGCA
Found at i:29413835 original size:49 final size:50
Alignment explanation
Indices: 29413739--29413836 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
29413729 ATCTACTTAT
* * * *
29413739 AGGTTGAAAGAACCTTATTCTAATCAGTGTCAAATAGATGAAGTATAGTA
1 AGGTTGAAAGAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
*
29413789 AGGTTGAAA-AACCTTATTCTAATCAATGTAAAATAAAAGAATTATAGT
1 AGGTTGAAAGAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
29413837 TCTATATGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 34 0.79
50 9 0.21
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAGAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:29424929 original size:28 final size:27
Alignment explanation
Indices: 29424843--29424932 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
29424833 GTGACAGAGT
*
29424843 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
29424872 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
29424899 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
29424927 CACCAG
1 CACCAG
29424933 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:29425085 original size:28 final size:28
Alignment explanation
Indices: 29425040--29425102 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
29425030 ATTAACCCTG
*
29425040 GGGGTATAAAGGTCATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCATACATA
*
29425068 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCATACATA
29425096 GGGGTAT
1 GGGGTAT
29425103 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.33
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCATACATA
Found at i:29432786 original size:27 final size:27
Alignment explanation
Indices: 29432729--29432796 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
29432719 GTGACAGAGT
*
29432729 CACCAGATACAGATATCTTGTGGCAGTGC
1 CACCAGA-ACAGATATC-TGTGGCAGGGC
*
29432758 CACCAGAACAGATATAC-GTGGTAGGGC
1 CACCAGAACAGATAT-CTGTGGCAGGGC
29432785 CACCAGAACAGA
1 CACCAGAACAGA
29432797 AAATTTGTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 20 0.56
28 8 0.22
29 8 0.22
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (27 bp):
CACCAGAACAGATATCTGTGGCAGGGC
Found at i:29432971 original size:28 final size:28
Alignment explanation
Indices: 29432924--29432988 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
29432914 AAATTAACCC
*
29432924 TAGGGGTATAAAGGTTATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
29432952 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
29432980 TAGGGGTAT
1 TAGGGGTAT
29432989 TCTAGTAGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:29439684 original size:14 final size:14
Alignment explanation
Indices: 29439665--29439691 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29439655 ATACTCATTT
29439665 TGTTTGTTTGTTTG
1 TGTTTGTTTGTTTG
29439679 TGTTTGTTTGTTT
1 TGTTTGTTTGTTT
29439692 TCTATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (14 bp):
TGTTTGTTTGTTTG
Found at i:29446935 original size:6 final size:6
Alignment explanation
Indices: 29446906--29446990 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
29446896 TATCATAACT
* * * *
29446906 AGAATC AAAATG AGAATC AAAATC AGAATC AGAATC AGAATT AGGTAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
29446955 AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAAT
29446991 ATGAATGCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 4 0.06
6 51 0.81
7 5 0.08
8 3 0.05
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:29446960 original size:25 final size:25
Alignment explanation
Indices: 29446929--29446990 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
29446919 GAATCAAAAT
*
29446929 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
29446954 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
29446979 CAGAATCAGAAT
1 CAGAATCAGAAT
29446991 ATGAATGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:29447258 original size:27 final size:26
Alignment explanation
Indices: 29447210--29447261 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29447200 GCGAGACTGC
*
29447210 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
29447236 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
29447262 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:29448119 original size:27 final size:27
Alignment explanation
Indices: 29448089--29448153 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
29448079 GGGCATATTC
29448089 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
29448116 GTCACTTTGCCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
29448143 GTCTTTTTACC
1 GTCATTTTACC
29448154 TATTAGGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:29448237 original size:27 final size:27
Alignment explanation
Indices: 29448207--29448292 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
29448197 GTAAATCTAC
29448207 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
29448234 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
29448260 AGAAAGTCAAGGGTATTTCTGTAATTTAGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
29448290 AAA
1 AAA
29448293 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.46
28 7 0.15
29 17 0.35
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:29448300 original size:27 final size:27
Alignment explanation
Indices: 29448290--29448366 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
29448280 GTAATTTAGT
29448290 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATTAGGGGTATTTTGGTAATTTTAC
*
29448317 AAATT-GAGGGTATTTCGGTAATTTTAC
1 AAATTAG-GGGTATTTTGGTAATTTTAC
*
29448344 AAACTAGGGGTATTTTGGTAATT
1 AAATTAGGGGTATTTTGGTAATT
29448367 CTATCCTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 1 0.02
27 43 0.96
28 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (27 bp):
AAATTAGGGGTATTTTGGTAATTTTAC
Found at i:29448312 original size:56 final size:55
Alignment explanation
Indices: 29448204--29448366 Score: 161
Period size: 54 Copynumber: 3.0 Consensus size: 55
29448194 TTCGTAAATC
* * * ** *
29448204 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTAGTAAACTAGGGGTATTT-TGGTAATTTT
* * *
29448259 TAGAAAGTCAAGGGTATTTCTGTAATTTAGTAAATTAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTAGTAAACTAGGGGTATTTTGGTAATTTT
** * *
29448314 TACAAATTGAGGGTATTTCGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATT
1 TACAAATCAAGGGTATTTCAGTAA-TTTAGTAAACTAGGGGTATTTTGGTAATT
29448367 CTATCCTACA
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
54 35 0.39
55 19 0.21
56 35 0.39
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTAGTAAACTAGGGGTATTTTGGTAATTTT
Found at i:29448382 original size:54 final size:54
Alignment explanation
Indices: 29448269--29448399 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
29448259 TAGAAAGTCA
* * * * **
29448269 AGGGTATTTCTGTAA-TTTAGTAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTCTACAAACAG
* **
29448323 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACAG
1 AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAACAG
*
29448378 -GGGTATTTCAGTAATTTCACAA
1 AGGGTATTTCAGTAATTTTACAA
29448400 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 58 0.89
55 7 0.11
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACAG
Found at i:29448432 original size:27 final size:27
Alignment explanation
Indices: 29448398--29448733 Score: 368
Period size: 27 Copynumber: 12.4 Consensus size: 27
29448388 GTAATTTCAC
*
29448398 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
29448425 AA-CTGAGGGTAAAATGGTAATTTTTGTA
1 AATC-GAGGGTAAAATGGTAA-TTTTGTA
* * *
29448453 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
29448480 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
29448507 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
29448534 AATCGAGGATAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
29448561 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* ** *
29448588 AATCGAAGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
29448615 AATCGAGAGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
29448642 AATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*** *
29448669 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*** **
29448696 AATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
29448723 AGTCGAGGGTA
1 AATCGAGGGTA
29448734 TTTTAGTAAT
Statistics
Matches: 259, Mismatches: 47, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.00
27 234 0.90
28 23 0.09
29 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:29448719 original size:81 final size:81
Alignment explanation
Indices: 29448398--29448706 Score: 422
Period size: 81 Copynumber: 3.8 Consensus size: 81
29448388 GTAATTTCAC
* * ** *
29448398 AATCGAGGGTAAAATGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTTGTAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTATAAATC-GAGGGTAAAACAGTAA-TTCTGTAAATCGAGGG
* *
29448462 TAAAACGATAATTCTGTA
64 TAAAACGGTAATTTTGTA
* * * * *
29448480 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGATA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
*
29448545 AAACAGTAATTTTGTA
66 AAACGGTAATTTTGTA
* * *
29448561 AATTGAGGGTAAAATGGTAATTTTATAAATCGAAGGTAAAACAGTAATTCTGTAAATCGAGAGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
*
29448626 AAACGGTAATTTTTTA
66 AAACGGTAATTTTGTA
* *
29448642 AATCGAGGGTAAAATGGTAATTTTTTAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
29448707 CTTTGGTAAT
Statistics
Matches: 202, Mismatches: 24, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
81 161 0.80
82 41 0.20
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
AAACGGTAATTTTGTA
Found at i:29448742 original size:27 final size:26
Alignment explanation
Indices: 29448699--29448934 Score: 231
Period size: 27 Copynumber: 8.8 Consensus size: 26
29448689 TTCTGTAAAT
* *
29448699 CGAGGGTACTTTGGTAATTTTACAAGT
1 CGAGGGTATTTTGGTAATTTTACAA-A
* **
29448726 CGAGGGTATTTTAGTAATTTTACAGGT
1 CGAGGGTATTTTGGTAATTTTACA-AA
*** *
29448753 CGAGGGTATTTCAATAATTTCACAAA
1 CGAGGGTATTTTGGTAATTTTACAAA
29448779 TC-AGAGGTATTTTGGTAATTTTACAAA
1 -CGAG-GGTATTTTGGTAATTTTACAAA
* *
29448806 CTAGGGGCATTTTGGTAATTTTACAAA
1 CGA-GGGTATTTTGGTAATTTTACAAA
* *
29448833 CCAGAGGTATTTTGGTAATTTTATAAA
1 CGAG-GGTATTTTGGTAATTTTACAAA
* *
29448860 CCAAGGGTATTTTGGTAAGTTTACAAA
1 -CGAGGGTATTTTGGTAATTTTACAAA
*
29448887 CTAAGGGTATTTTGGTAATTTTACAAA
1 C-GAGGGTATTTTGGTAATTTTACAAA
*
29448914 CCAGGGGTATTTTGGTAATTT
1 CGA-GGGTATTTTGGTAATTT
29448935 GGTAAGCTAA
Statistics
Matches: 179, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.03
27 169 0.94
28 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
CGAGGGTATTTTGGTAATTTTACAAA
Found at i:29448756 original size:81 final size:80
Alignment explanation
Indices: 29448449--29448913 Score: 222
Period size: 81 Copynumber: 5.7 Consensus size: 80
29448439 TGGTAATTTT
*** * *** * * *
29448449 TGTAAATCGAGGGTAAAACGATAATTCTGTA-AATCGAGGGTAAAATGGTAATTCTATAAATTGA
1 TGTAAATCGAGGGTAATTTGGTAATT-T-TACAATCGAGGGTATTTTGGTAATTTTACAAATCGA
** *
29448513 GGGTAAAACGGTAATTT
64 GGGTAAAACAATAATTC
* **** * *** *
29448530 TGTAAATCGAGGATAAAACAGTAATTTTGTA-AATTGAGGGTAAAATGGTAATTTTATAAATCGA
1 TGTAAATCGAGGGTAATTTGGTAA-TTT-TACAATCGAGGGTATTTTGGTAATTTTACAAATCGA
* *
29448594 AGGTAAAACAGTAATTC
64 GGGTAAAACAATAATTC
* *** *** **
29448611 TGTAAATCGAGAGTAAAACGGTAATTTTTTA-AATCGAGGGTAAAATGGTAATTTTTTAAATCGA
1 TGTAAATCGAGGGTAATTTGGTAA--TTTTACAATCGAGGGTATTTTGGTAATTTTACAAATCGA
29448675 GGGTAAAACAATAATTC
64 GGGTAAAACAATAATTC
* * **
29448692 TGTAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAGGTCGAG
1 TGTAAATCGAGGGTAATTTGGTAATTTTACAA-TCGAGGGTATTTTGGTAATTTTACAAATCGAG
***
29448757 GGTATTTCAATAATT-
65 GGTAAAACAATAATTC
** * * * * *
29448772 TCACAAATC-AGAGGTATTTTGGTAATTTTACAAACTAGGGGCATTTTGGTAATTTTACAAA-CC
1 T-GTAAATCGAG-GGTAATTTGGTAATTTTACAATCGA-GGGTATTTTGGTAATTTTACAAATCG
****** *
29448835 AGAGGTATTTTGGTAATTT
63 AG-GGTAAAACAATAATTC
* * * * * * *
29448854 TATAAACCAAGGGTATTTTGGTAAGTTTACAAACTAAGGGTATTTTGGTAATTTTACAAA
1 TGTAAATCGAGGGTAATTTGGTAATTTTACAATC-GAGGGTATTTTGGTAATTTTACAAA
29448914 CCAGGGGTAT
Statistics
Matches: 323, Mismatches: 50, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
79 5 0.02
80 10 0.03
81 298 0.92
82 10 0.03
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (80 bp):
TGTAAATCGAGGGTAATTTGGTAATTTTACAATCGAGGGTATTTTGGTAATTTTACAAATCGAGG
GTAAAACAATAATTC
Found at i:29448914 original size:81 final size:81
Alignment explanation
Indices: 29448784--29448934 Score: 266
Period size: 81 Copynumber: 1.9 Consensus size: 81
29448774 ACAAATCAGA
* *
29448784 GGTATTTTGGTAATTTTACAAACTAGGGGCATTTTGGTAATTTTACAAACCAGAGGTATTTTGGT
1 GGTATTTTGGTAAGTTTACAAACTAAGGGCATTTTGGTAATTTTACAAACCAGAGGTATTTTGGT
29448849 AATTTTATAAACCAAG
66 AATTTTATAAACCAAG
* *
29448865 GGTATTTTGGTAAGTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAAGTTTACAAACTAAGGGCATTTTGGTAATTTTACAAACCAGAGGTATTTTGGT
29448930 AATTT
66 AATTT
29448935 GGTAAGCTAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAAGTTTACAAACTAAGGGCATTTTGGTAATTTTACAAACCAGAGGTATTTTGGT
AATTTTATAAACCAAG
Found at i:29451643 original size:37 final size:37
Alignment explanation
Indices: 29451592--29451695 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
29451582 ATTAATGAAT
* * *
29451592 GCATGATTAAGCATGCCATTGAGATTGTTAAACCAGAA
1 GCATGA-TAAGCATGCCATTAAAATTGTTAAACCAAAA
** * *
29451630 GCATGATAAGCATGCTGTTAAAATTATTAAACTAAAA
1 GCATGATAAGCATGCCATTAAAATTGTTAAACCAAAA
*
29451667 GCATGATAAGCATGCCATTAATATTGTTA
1 GCATGATAAGCATGCCATTAAAATTGTTA
29451696 CTGTTACCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
37 49 0.89
38 6 0.11
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (37 bp):
GCATGATAAGCATGCCATTAAAATTGTTAAACCAAAA
Found at i:29452926 original size:24 final size:24
Alignment explanation
Indices: 29452894--29452941 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
29452884 AATAAATAAA
* *
29452894 TAAAATTTTATGCATATTTCATAT
1 TAAAATTTTATCCATATATCATAT
29452918 TAAAATTTTATCCATATATCATAT
1 TAAAATTTTATCCATATATCATAT
29452942 ACCACCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (24 bp):
TAAAATTTTATCCATATATCATAT
Found at i:29463775 original size:26 final size:27
Alignment explanation
Indices: 29463746--29463799 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
29463736 TCACACAAGT
*
29463746 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
29463772 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
29463799 T
1 T
29463800 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:29463849 original size:27 final size:26
Alignment explanation
Indices: 29463819--29463999 Score: 173
Period size: 27 Copynumber: 6.7 Consensus size: 26
29463809 ACCCCACAAA
* *
29463819 GGTATCTCGGTAATTCTACCATATAGG
1 GGTATTTCGGTAATTCTACC-TACAGG
* * * *
29463846 GGTATTTCAGTATTTCTACCCTATAAG
1 GGTATTTCGGTAATTCTA-CCTACAGG
*
29463873 GGTATTTCGGTAATTCTATCCTACAGA
1 GGTATTTCGGTAATTCTA-CCTACAGG
* *
29463900 GGTATTTCGATAATTCTACCCTACTGG
1 GGTATTTCGGTAATTCTA-CCTACAGG
** *
29463927 GGTATTTCAATAATTCTATCCTACAAG
1 GGTATTTCGGTAATTCTA-CCTACAGG
* *
29463954 GGTATTTTGGTAATTCTATCTTACAGG
1 GGTATTTCGGTAATTCTA-CCTACAGG
*
29463981 GGTATTTCAGTAATTCTAC
1 GGTATTTCGGTAATTCTAC
29464000 AACTTATCCA
Statistics
Matches: 128, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (26 bp):
GGTATTTCGGTAATTCTACCTACAGG
Found at i:29463914 original size:81 final size:81
Alignment explanation
Indices: 29463800--29463999 Score: 242
Period size: 81 Copynumber: 2.5 Consensus size: 81
29463790 GGGGCAAAAT
* * * * * * * *
29463800 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCATA-TAGGGGTATTTCAGTATTTCTA
1 GGTAATTCTATCCTACAGAGGTATTTCGATAATTCTACCATACT-GGGGTATTTCAATAATTCTA
*
29463864 CCCTATAAGGGTATTTC
65 CCCTACAAGGGTATTTC
* *
29463881 GGTAATTCTATCCTACAGAGGTATTTCGATAATTCTACCCTACTGGGGTATTTCAATAATTCTAT
1 GGTAATTCTATCCTACAGAGGTATTTCGATAATTCTACCATACTGGGGTATTTCAATAATTCTAC
*
29463946 CCTACAAGGGTATTTT
66 CCTACAAGGGTATTTC
* *
29463962 GGTAATTCTATCTTACAGGGGTATTTC-AGTAATTCTAC
1 GGTAATTCTATCCTACAGAGGTATTTCGA-TAATTCTAC
29464000 AACTTATCCA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 101 0.98
82 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (81 bp):
GGTAATTCTATCCTACAGAGGTATTTCGATAATTCTACCATACTGGGGTATTTCAATAATTCTAC
CCTACAAGGGTATTTC
Found at i:29478377 original size:45 final size:45
Alignment explanation
Indices: 29478326--29478411 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
29478316 ATGTAATCTA
* * *
29478326 AACTCATTGAGTGGTGGTTTGAGTTCATGATATATGTGACATTCG
1 AACTCATTGAGTGATGGTCTGAGTTCATGATAAATGTGACATTCG
* *
29478371 AACTCATTGAGTTATGGTCTGAGTTCGTGATAAATGTGACA
1 AACTCATTGAGTGATGGTCTGAGTTCATGATAAATGTGACA
29478412 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.36
Consensus pattern (45 bp):
AACTCATTGAGTGATGGTCTGAGTTCATGATAAATGTGACATTCG
Found at i:29487554 original size:42 final size:45
Alignment explanation
Indices: 29487497--29487603 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 45
29487487 GATCCCACTA
* *
29487497 TCCCAAACACGGTCTTACACGAAATCATA-AAAGATGCCAA-T-G
1 TCCCAGACATGGTCTTACACGAAATCATAGAAAGATGCCAATTGG
* * * **
29487539 TCCCAGACATGGTCTTACATGTAATCTTAGATCGATGCCAATTGG
1 TCCCAGACATGGTCTTACACGAAATCATAGAAAGATGCCAATTGG
29487584 TCCCAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
29487604 AATATCACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 24 0.44
43 9 0.17
44 1 0.02
45 20 0.37
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
TCCCAGACATGGTCTTACACGAAATCATAGAAAGATGCCAATTGG
Found at i:29490929 original size:16 final size:16
Alignment explanation
Indices: 29490908--29490939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29490898 TCATCGTAGC
29490908 ATAGATACATTTATAT
1 ATAGATACATTTATAT
*
29490924 ATAGATTCATTTATAT
1 ATAGATACATTTATAT
29490940 TAAAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAGATACATTTATAT
Found at i:29497526 original size:28 final size:28
Alignment explanation
Indices: 29497438--29497528 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
29497428 ATCCATACTT
* * *
29497438 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
29497467 ATTCATATGGCCCATT-GGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* ** *
29497494 TTTCATATGGCCTGTTAGGCCTAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
29497522 ATTCATA
1 ATTCATA
29497529 GTCATGCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 21 0.40
29 9 0.17
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:29502189 original size:27 final size:28
Alignment explanation
Indices: 29502130--29502219 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
29502120 ATCCATACTT
* * * * *
29502130 ATTCATTTAGCCCTTTAAGCCCAATCTC
1 ATTCATATGGCCCATTAGGCCCAATCAC
29502158 ATTCATATGGCCCATT-GGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* * *
29502185 TTTCATATGGCCCGTTAGGCCTAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
29502213 ATTCATA
1 ATTCATA
29502220 GTCATGCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 23 0.44
28 29 0.56
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:29507168 original size:16 final size:17
Alignment explanation
Indices: 29507137--29507170 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29507127 AAACAACATG
*
29507137 AAATAATTAAATATAAA
1 AAATAATTAAAGATAAA
29507154 AAATAA-TAAAGATAAA
1 AAATAATTAAAGATAAA
29507170 A
1 A
29507171 CTAAAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATAATTAAAGATAAA
Found at i:29512955 original size:19 final size:19
Alignment explanation
Indices: 29512931--29512968 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29512921 AACGCAAGTA
29512931 TTTTAAAATTATGGCATGT
1 TTTTAAAATTATGGCATGT
29512950 TTTTAAAATTATGGCATGT
1 TTTTAAAATTATGGCATGT
29512969 ATAGGGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTTAAAATTATGGCATGT
Found at i:29521397 original size:39 final size:39
Alignment explanation
Indices: 29521338--29521500 Score: 139
Period size: 39 Copynumber: 4.2 Consensus size: 39
29521328 ATTAGCCCGG
* * * *
29521338 ATATAATTCCAGCACATAGCCGGCGAACCCGAAGTTCGA
1 ATATAATTCCCGCATATAGCCGACGAACCCGAAGTCCGA
* * * ** *
29521377 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCGACGAACCCGAAGTCCGA
* ** *
29521416 ATATAATTCCCGCATATAGCCTAC-AGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCGACGA-ACCCGAAGTCCGA
* * ** *
29521455 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCGACGAACCCGAAGTCCGA
29521494 ATATAAT
1 ATATAAT
29521501 CACCATATAT
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCGACGAACCCGAAGTCCGA
Found at i:29521435 original size:78 final size:78
Alignment explanation
Indices: 29521334--29521500 Score: 237
Period size: 78 Copynumber: 2.1 Consensus size: 78
29521324 GACTATTAGC
* * *
29521334 CCGGATATAATTCCAGCACATAGCCGGC-GAACCCGAAGTTCGAATATGATTCCCGCATATAGCC
1 CCGGATATAATTCCAGCACATAGCCGACAG-ACCCGAAGTCCGAATATAATTCCCGCATATAGCC
29521398 TACGGACCTTAAGT
65 TACGGACCTTAAGT
* * * ** *
29521412 CCGGATATAATTCCCGCATATAGCCTACAGACCTTAAGTCCGGATATAATTCCCGCATATAGCCT
1 CCGGATATAATTCCAGCACATAGCCGACAGACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
29521477 ACGGACCTTAAGT
66 ACGGACCTTAAGT
29521490 CCGGATATAAT
1 CCGGATATAAT
29521501 CACCATATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 78 0.99
79 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCGACAGACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
ACGGACCTTAAGT
Found at i:29534769 original size:64 final size:63
Alignment explanation
Indices: 29534688--29534871 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
29534678 AGACATTATG
*
29534688 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
29534751 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
29534816 TA
62 TA
** * * * *
29534818 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29534872 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 19 0.19
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:29539185 original size:64 final size:64
Alignment explanation
Indices: 29539104--29539287 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
29539094 AGACATTATG
* *
29539104 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
29539168 ATGTAGCTAGGTCGCATGCTTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29539233 AA
63 AA
* * * *
29539235 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29539288 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:29547711 original size:48 final size:42
Alignment explanation
Indices: 29547604--29547799 Score: 162
Period size: 42 Copynumber: 4.5 Consensus size: 42
29547594 TTCCAAAGCA
* **
29547604 ATGTCCCAGACATGGTCTTACATG-GGTCT-ACATATAGATGCC
1 ATGTCCCAGACATGGTCTTACACGAAATCTCACAT-T-GATGCC
* * * * *
29547646 ATATCCCAAATATGGTCTTATATGAAATCTCACATCGGTGTCGATGCC
1 ATGTCCCAGACATGGTCTTACACGAAATCTCACA----T-T-GATGCC
* *
29547694 ATGTCCCAGACATGGTCTTACACGAGACCTCACATTGATGCC
1 ATGTCCCAGACATGGTCTTACACGAAATCTCACATTGATGCC
* **
29547736 ATGTCCCAGACATGGTCTTACACGAAATCTCATATCAATGCC
1 ATGTCCCAGACATGGTCTTACACGAAATCTCACATTGATGCC
* * *
29547778 ATATCCCAGATATGGTTTTACA
1 ATGTCCCAGACATGGTCTTACA
29547800 TAAAATCACA
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
42 82 0.66
43 4 0.03
44 4 0.03
48 35 0.28
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACACGAAATCTCACATTGATGCC
Found at i:29547763 original size:90 final size:90
Alignment explanation
Indices: 29547604--29547767 Score: 224
Period size: 90 Copynumber: 1.8 Consensus size: 90
29547594 TTCCAAAGCA
* ** * * *
29547604 ATGTCCCAGACATGGTCTTACATGGGTCTACATATAGATGCCATATCCCAAATATGGTCTTATAT
1 ATGTCCCAGACATGGTCTTACACGGACCTACATATAGATGCCATATCCCAAACATGGTCTTACAC
29547669 GAAATCTCACATCGGTGTCGATGCC
66 GAAATCTCACATCGGTGTCGATGCC
* *
29547694 ATGTCCCAGACATGGTCTTACACGAGACCTCACAT-T-GATGCCATGTCCCAGACATGGTCTTAC
1 ATGTCCCAGACATGGTCTTACACG-GACCT-ACATATAGATGCCATATCCCAAACATGGTCTTAC
29547757 ACGAAATCTCA
64 ACGAAATCTCA
29547768 TATCAATGCC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
90 56 0.88
91 4 0.06
92 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (90 bp):
ATGTCCCAGACATGGTCTTACACGGACCTACATATAGATGCCATATCCCAAACATGGTCTTACAC
GAAATCTCACATCGGTGTCGATGCC
Found at i:29547841 original size:132 final size:132
Alignment explanation
Indices: 29547604--29547848 Score: 307
Period size: 132 Copynumber: 1.9 Consensus size: 132
29547594 TTCCAAAGCA
* ** *
29547604 ATGTCCCAGACATGGTCTTACATGGGTCTACATATAGATGCCATATCCCAAATATGGTCTTATAT
1 ATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTACAT
* * * * * * *
29547669 GAAATCTCACATCGGTGTCGATGCCATGTCCCAGACATGGTCTTACACGAGACCTCACATTGATG
66 AAAATCACACACCGGTGCCGACGCCATATCCCAAACATGGTCTTACACGAGACCTCACATTGATG
29547734 CC
131 CC
* *
29547736 ATGTCCCAGACATGGTCTTACACGAAATCT-CATATCA-ATGCCATATCCCAGATATGGTTTTAC
1 ATGTCCCAGACATGGTCTTACACG-AATCTACATAT-AGATGCCATATCCCAAATATGGTCTTAC
* *
29547799 ATAAAATCACATACCGAG-GCCGACGCCATATCCCAAATATGGTCTTACAC
64 ATAAAATCACACACCG-GTGCCGACGCCATATCCCAAACATGGTCTTACAC
29547849 TAGGACATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
132 90 0.95
133 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
ATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTACAT
AAAATCACACACCGGTGCCGACGCCATATCCCAAACATGGTCTTACACGAGACCTCACATTGATG
CC
Found at i:29547867 original size:132 final size:132
Alignment explanation
Indices: 29547604--29547895 Score: 286
Period size: 132 Copynumber: 2.2 Consensus size: 132
29547594 TTCCAAAGCA
* ** *
29547604 ATGTCCCAGACATGGTCTTACATGGGTCTACATATAGATGCCATATCCCAAATATGGTCTTATAT
1 ATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTACAT
* * * * * * * * **
29547669 GAAATCTCACATCGGTGTCGATGCCATGTCCCAGACATGGTCTTACACGAGACCTCACATTGATG
66 AAAATCACACACCGGTGCCGACGCCATATCCCAAACATGGTCTTACACGAGACATCACATCAATG
29547734 CC
131 CC
* *
29547736 ATGTCCCAGACATGGTCTTACACGAAATCT-CATATCA-ATGCCATATCCCAGATATGGTTTTAC
1 ATGTCCCAGACATGGTCTTACACG-AATCTACATAT-AGATGCCATATCCCAAATATGGTCTTAC
* * * *
29547799 ATAAAATCACATACCGAG-GCCGACGCCATATCCCAAATATGGTCTTACACTAGGACATATATCA
64 ATAAAATCACACACCG-GTGCCGACGCCATATCCCAAACATGGTCTTACACGA-GACAT-CA-C-
*
29547863 ATGCCGATGCC
124 AT--CAATGCC
29547874 ATGTCCCAGACAT-GTCTTACAC
1 ATGTCCCAGACATGGTCTTACAC
29547896 TGGCTATCAT
Statistics
Matches: 132, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
132 91 0.69
133 9 0.07
134 1 0.01
135 1 0.01
136 2 0.02
137 9 0.07
138 19 0.14
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
ATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTACAT
AAAATCACACACCGGTGCCGACGCCATATCCCAAACATGGTCTTACACGAGACATCACATCAATG
CC
Found at i:29547908 original size:47 final size:48
Alignment explanation
Indices: 29547817--29547953 Score: 136
Period size: 48 Copynumber: 2.9 Consensus size: 48
29547807 ACATACCGAG
* * * * *
29547817 GCCGACGCCATATCCCAAATATGGTCTTACACTAGGAC-AT-ATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GG-CTATCATATCAAC
29547865 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAAC
* * * ** *
29547912 ACTGATGACATGTCTTAGACATGGTCTTACACTGGCTCTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT
29547954 TAATCGTGGC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 4 0.05
47 34 0.45
48 36 0.48
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAAC
Found at i:29556556 original size:27 final size:27
Alignment explanation
Indices: 29556526--29556703 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
29556516 ATATTGAGTC
* *
29556526 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29556553 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29556580 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
29556608 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
29556635 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAACT
* * *
29556662 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
29556689 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29556704 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
27 98 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29564683 original size:27 final size:27
Alignment explanation
Indices: 29564653--29564830 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
29564643 ATATTGAGTC
* *
29564653 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29564680 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29564707 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
29564735 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
29564762 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAACT
* * *
29564789 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
29564816 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29564831 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
27 98 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29568736 original size:42 final size:42
Alignment explanation
Indices: 29568628--29568783 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 42
29568618 AACAAGTACA
* * *
29568628 ATGCCGATGTCCCGGACGTGGTCTTACATGTAACTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCAATAT-G
** * *
29568671 ATGCCTCTGTCCCAAACAGGGTCTTACATG-AAATCAAATATG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATC-AATATG
*
29568713 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTCAATA-G
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAA--TCAATATG
* *
29568756 AGGCCTATGTCCCAGACATGGTCTTACA
1 ATGCCGATGTCCCAGACATGGTCTTACA
29568784 CGATGTCTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 30 0.32
43 58 0.62
44 4 0.04
45 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCAATATG
Found at i:29568779 original size:85 final size:84
Alignment explanation
Indices: 29568628--29568783 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
29568618 AACAAGTACA
* * * *
29568628 ATGCCGATGTCCCGGACGTGGTCTTACATGTAACTCAATATCGATGCCTCTGTCCCAAACAGGGT
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAACTCAATA-CGAGGCCTATGTCCCAAACAGGGT
29568693 CTTACATGAAATCAAATATG
65 CTTACATGAAATCAAATATG
* * *
29568713 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTCAATA-GAGGCCTATGTCCCAGACATGG
1 ATGCCGATGTCCCAGACATGGTCTTACATGT-AA-CTCAATACGAGGCCTATGTCCCAAACAGGG
29568777 TCTTACA
64 TCTTACA
29568784 CGATGTCTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 53 0.85
86 2 0.03
87 7 0.11
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (84 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGTAACTCAATACGAGGCCTATGTCCCAAACAGGGTC
TTACATGAAATCAAATATG
Found at i:29575354 original size:34 final size:34
Alignment explanation
Indices: 29575316--29575393 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
29575306 AGTGGCAGTC
** *
29575316 CAGTATTAGTGTTGGCCTTAGCCCA-TAGCAGTAA
1 CAGTATTAGTGTCAGCCTTAACCCATTA-CAGTAA
* * *
29575350 CAGTATCAATGTCAGCCTTAACCCATTATAGTAA
1 CAGTATTAGTGTCAGCCTTAACCCATTACAGTAA
29575384 CAGTATTAGT
1 CAGTATTAGT
29575394 AATGCAACAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (34 bp):
CAGTATTAGTGTCAGCCTTAACCCATTACAGTAA
Found at i:29575452 original size:22 final size:23
Alignment explanation
Indices: 29575413--29575455 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
29575403 GAAATCCTAC
*
29575413 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
29575436 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
29575456 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:29583489 original size:28 final size:29
Alignment explanation
Indices: 29583453--29583512 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
29583443 TAAATGATTT
*
29583453 TTGACAAAAATGTCAATT-A-GGGATTAAA
1 TTGACAAAAATGTAAATTGATGGG-TTAAA
* *
29583481 TTGAGAAAAGTGTAAATTGATGGGTTAAA
1 TTGACAAAAATGTAAATTGATGGGTTAAA
29583510 TTG
1 TTG
29583513 TAAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 9 0.33
30 3 0.11
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGATGGGTTAAA
Found at i:29586706 original size:48 final size:48
Alignment explanation
Indices: 29586635--29586809 Score: 246
Period size: 48 Copynumber: 3.6 Consensus size: 48
29586625 TAAAGTATCA
* *
29586635 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCACCG
29586683 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
* *
29586731 ATGCCATGTCCCAGACAGGGTCTTACACTGGCACACATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
* * * *
29586779 ATCCCATGTCTCAGGCATGGACTTACACTGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGG
29586810 AACATTTAGC
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
48 113 0.97
49 1 0.01
50 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
Found at i:29594172 original size:27 final size:27
Alignment explanation
Indices: 29594142--29594215 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
29594132 AACCTACCCC
29594142 TAGGGGTATAATGGTCATTTTGACA-AT
1 TAGGGGTATAATGGTCATTTT-ACACAT
* * *
29594169 TAGGGGTAAAATGGTAATTTTACACCT
1 TAGGGGTATAATGGTCATTTTACACAT
* **
29594196 CAGGGGTATTTTGGTCATTT
1 TAGGGGTATAATGGTCATTT
29594216 AGCTAATTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (27 bp):
TAGGGGTATAATGGTCATTTTACACAT
Found at i:29602419 original size:37 final size:37
Alignment explanation
Indices: 29602369--29602447 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29602359 TTATTACGAA
* *
29602369 GTCTTACCCGGACATAATCTC-CACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CGCACACGAAGTCATCGG
*
29602406 GTCTTACCCGGACAAAATCCGCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCGCACACGAAGTCATCGG
29602443 GTCTT
1 GTCTT
29602448 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCGCACACGAAGTCATCGG
Found at i:29602732 original size:95 final size:96
Alignment explanation
Indices: 29602566--29602999 Score: 716
Period size: 95 Copynumber: 4.5 Consensus size: 96
29602556 CCCTTCGGGA
* * * * * * * *
29602566 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29602631 AC-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29602661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29602725 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29602756 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29602821 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29602852 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
29602914 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
29602947 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29603000 CTATCATTTC
Statistics
Matches: 326, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
94 17 0.05
95 195 0.60
96 68 0.21
97 18 0.06
98 28 0.09
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29602817 original size:49 final size:49
Alignment explanation
Indices: 29602566--29602999 Score: 719
Period size: 49 Copynumber: 9.1 Consensus size: 49
29602556 CCCTTCGGGA
* * * * *
29602566 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29602613 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602661 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602708 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602756 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602803 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602852 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602900 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29602947 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29602996 CTTA
1 CTTA
29603000 CTATCATTTC
Statistics
Matches: 366, Mismatches: 10, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
46 44 0.12
47 102 0.28
48 88 0.24
49 132 0.36
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29602894 original size:144 final size:144
Alignment explanation
Indices: 29602566--29602999 Score: 718
Period size: 144 Copynumber: 3.0 Consensus size: 144
29602556 CCCTTCGGGA
* * * * * * *
29602566 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCAC-ATCGCCATTAGGCCTTATCAC--ATATAT
29602629 ACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
29602691 CACATCGGCCATTAGGC
128 CACATCGGCCATTAGGC
29602708 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCACATATATAC
29602772 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
29602837 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
29602852 CTTATCACATATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACA
29602917 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
*
29602982 ATCGGCCATTAGAC
131 ATCGGCCATTAGGC
29602996 CTTA
1 CTTA
29603000 CTATCATTTC
Statistics
Matches: 277, Mismatches: 8, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
141 18 0.06
142 39 0.14
143 35 0.13
144 149 0.54
145 36 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:29619468 original size:31 final size:31
Alignment explanation
Indices: 29619432--29619510 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
29619422 TTTAACGATT
*
29619432 ACTGGGCCAAAGCCTTTTCATAAAT-GTTATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATT-TC
29619463 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
**
29619494 ACTGGGCTGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
29619511 GCTGTAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATTTC
Found at i:29619581 original size:42 final size:42
Alignment explanation
Indices: 29619534--29619625 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
29619524 TGGCCTATAG
* ** *
29619534 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
29619576 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
29619618 GCCCATTT
1 GCCCATTT
29619626 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:29619824 original size:27 final size:27
Alignment explanation
Indices: 29619770--29619842 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
29619760 CCTCTTTAAT
29619770 AACTGGGGCA-AAGCCC-TTTTCAATA
1 AACTGGGGCATAAGCCCTTTTTCAATA
**
29619795 AACTGGGGCATAAGCCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTTCAATA
29619822 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
29619843 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.23
26 6 0.14
27 28 0.64
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (27 bp):
AACTGGGGCATAAGCCCTTTTTCAATA
Found at i:29620744 original size:27 final size:27
Alignment explanation
Indices: 29620644--29620727 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
29620634 GGGCATATTC
* *
29620644 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
29620671 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
29620698 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
29620725 GTC
1 GTC
29620728 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:29620819 original size:27 final size:27
Alignment explanation
Indices: 29620766--29621004 Score: 196
Period size: 27 Copynumber: 8.8 Consensus size: 27
29620756 TTTCATCCTA
* * * *
29620766 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* **
29620793 CAAAGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
29620820 TAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* ** *
29620849 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
29620876 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
29620903 TAAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTACAAAC
*
29620930 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
29620957 TAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
29620984 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
29621005 GTAAATCGAG
Statistics
Matches: 171, Mismatches: 34, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 5 0.03
27 133 0.78
28 19 0.11
29 14 0.08
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:29620974 original size:81 final size:82
Alignment explanation
Indices: 29620766--29620994 Score: 241
Period size: 83 Copynumber: 2.8 Consensus size: 82
29620756 TTTCATCCTA
* * * ** ** *
29620766 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTTAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTT
* * * *
29620831 CTATAATTTTTAGAAAGT
65 CGATAATTTTCACAAAGC
* * *
29620849 CAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTAGTAATTTTACAAACTAAGGGTAT
29620912 TTCGATAA-TTTCACAAA-C
63 TTCGATAATTTTCACAAAGC
*
29620930 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTT
29620995 TAGTAATTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
79 2 0.02
80 7 0.06
81 49 0.40
82 7 0.06
83 50 0.41
84 4 0.03
85 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTC
GATAATTTTCACAAAGC
Found at i:29621002 original size:81 final size:79
Alignment explanation
Indices: 29620742--29621003 Score: 226
Period size: 81 Copynumber: 3.2 Consensus size: 79
29620732 TACCTAATAG
* ** * * * **
29620742 GGGTATTTTAGTCATTTCATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTTAG
1 GGGTATTTTAGTAATTTCA-CAAACAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTAG
**
29620807 TAATTTTGTAAACTAA
64 TAATTTTACAAACTAA
* * * *
29620823 TGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTAT
1 GGGTATTT-TAGTAA-TTTCACAAA--CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTAT
* *
29620885 TTTGGTAATTTTACAAATTAA
59 TTTAGTAATTTTACAAACTAA
*
29620906 GGGTA-TTTCGATAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA
1 GGGTATTTTAG-TAATTTCACAAA-CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTA
*
29620970 GTAATTTTACAAACCAA
63 GTAATTTTACAAACTAA
29620987 GGGTATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
29621004 TGTAAATCGA
Statistics
Matches: 142, Mismatches: 26, Indels: 26
0.73 0.13 0.13
Matches are distributed among these distances:
79 2 0.01
80 7 0.05
81 63 0.44
82 19 0.13
83 45 0.32
84 4 0.03
85 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (79 bp):
GGGTATTTTAGTAATTTCACAAACAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTAGTA
ATTTTACAAACTAA
Found at i:29621063 original size:27 final size:27
Alignment explanation
Indices: 29620996--29621206 Score: 219
Period size: 27 Copynumber: 7.9 Consensus size: 27
29620986 AGGGTATTTT
*
29620996 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
29621023 AAT-ATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
29621049 AGTAATTCTATAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
29621076 GGTAATTTTGTAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
29621103 GGTAATTTTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
29621130 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
29621157 GGTAATTATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
29621184 AGTAATTCTATAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
29621207 CTTTGGTAAT
Statistics
Matches: 159, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.14
27 135 0.85
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:29621206 original size:81 final size:81
Alignment explanation
Indices: 29620997--29621206 Score: 262
Period size: 81 Copynumber: 2.6 Consensus size: 81
29620987 GGGTATTTTA
* * *
29620997 GTAATTTTGTAAATCGAGGGTAAAACAAT-ATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTATATA
* *
29621061 AATTGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* ** * * * *
29621077 GTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAGTCGAGGGTAAAAC-GATAATTATGT
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAG-TAATTATAT
*
29621141 AAATCGGGGGTAAAACG
65 AAATCGAGGGTAAAACG
* *
29621158 GTAATTATGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGGGGGTA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
29621207 CTTTGGTAAT
Statistics
Matches: 107, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 26 0.24
81 81 0.76
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTATATA
AATCGAGGGTAAAACG
Found at i:29621260 original size:27 final size:27
Alignment explanation
Indices: 29621168--29621301 Score: 119
Period size: 27 Copynumber: 5.0 Consensus size: 27
29621158 GTAATTATGT
*** * *
29621168 AAATCGAGGGTAAAACAGTAATTCTAT
1 AAATCGAGGGTATTTCAGTAATTTTAC
* *
29621195 AAATCGGGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* * *
29621222 AAGTTGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
*
29621249 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
* *
29621276 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATC-GAGGGTATTTCAGTAATTTTA
29621302 GTAAACTAAA
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
26 4 0.05
27 81 0.95
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTCAGTAATTTTAC
Found at i:29623603 original size:30 final size:31
Alignment explanation
Indices: 29623527--29623604 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
29623517 GTTTAATGTT
29623527 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
29623558 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
29623589 ACTGGG-CGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
29623605 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 9 0.20
31 35 0.80
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:29623675 original size:42 final size:42
Alignment explanation
Indices: 29623628--29623719 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
29623618 TGGCCTATAG
* ** *
29623628 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
29623670 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
29623712 GCCCATTT
1 GCCCATTT
29623720 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:29623916 original size:26 final size:26
Alignment explanation
Indices: 29623864--29624013 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
29623854 CCTCTTTAAT
29623864 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
29623889 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
29623915 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
29623941 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
29623967 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
** *
29623993 AACTAAGGCATAAACCCTTTT
1 AACTGGGGCATAAGCCCTTTT
29624014 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 10 0.09
26 101 0.91
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:29623937 original size:52 final size:52
Alignment explanation
Indices: 29623864--29624013 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
29623854 CCTCTTTAAT
29623864 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
*
29623915 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
**
29623967 AACTGGGGCATAAGCCCTTTTCGGTAAACTAAGGCATAAACCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTT
29624014 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 10 0.11
52 84 0.89
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
Found at i:29624875 original size:27 final size:27
Alignment explanation
Indices: 29624813--29624877 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
29624803 GGGCATATTC
29624813 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
29624840 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
29624867 GTCTTTTTACC
1 GTCATTTTACC
29624878 TAATAGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:29624961 original size:27 final size:27
Alignment explanation
Indices: 29624931--29624982 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
29624921 GTAAATCTAC
*
29624931 AAACCAAAGGT-ATTTTAATAATTTTGT
1 AAACCAAAGGTAATTCT-ATAATTTTGT
*
29624958 AAACCAATGGTAATTCTATAATTTT
1 AAACCAAAGGTAATTCTATAATTTT
29624983 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTAATTCTATAATTTTGT
Found at i:29625044 original size:27 final size:27
Alignment explanation
Indices: 29625018--29625146 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
29625008 CTTTGTAAAT
29625018 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
29625044 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
29625072 CAAGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
29625099 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
29625126 CAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
29625147 GTAAATCGAG
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 86 0.98
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:29625079 original size:54 final size:54
Alignment explanation
Indices: 29625021--29625160 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
29625011 TGTAAATTAG
29625021 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
29625075 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
29625129 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
29625161 AAATAGTAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:29625158 original size:27 final size:27
Alignment explanation
Indices: 29625021--29625447 Score: 152
Period size: 27 Copynumber: 15.9 Consensus size: 27
29625011 TGTAAATTAG
* * *
29625021 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTATAAATCGA
** * * * *
29625048 GGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * *
29625075 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * * *
29625101 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTAGTAATTTTATAAATCGA
*
29625129 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * *
29625156 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** *
29625183 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
** *
29625210 GGGTA--AAACGATAATTTTGTAAATCGA
1 GGGTATTTTA-G-TAATTTTATAAATCGA
*** * *
29625237 GGGTAAAACT-GTAATTCTATGAATCGA
1 GGGT-ATTTTAGTAATTTTATAAATCGA
**** *
29625264 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * *
29625291 GGGTAAAATGGTAATTCTGTAAATC-A
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * *
29625317 GGGGTAAAAT-GATAATTATGTAAATCGG
1 -GGGTATTTTAG-TAATTTTATAAATCGA
* * * *
29625345 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* *
29625372 AGGTA-TTTAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * *
29625398 GGGTATTTCAGT-ATTTTACAAA-CTAA
1 GGGTATTTTAGTAATTTTATAAATC-GA
**
29625424 GGGTATTTCGGTAATTTTAGTAAA
1 GGGTATTTTAGTAATTTTA-TAAA
29625448 CTAAAGTATT
Statistics
Matches: 329, Mismatches: 55, Indels: 31
0.79 0.13 0.07
Matches are distributed among these distances:
25 3 0.01
26 53 0.16
27 265 0.81
28 8 0.02
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCGA
Found at i:29625170 original size:81 final size:81
Alignment explanation
Indices: 29625018--29625171 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
29625008 CTTTGTAAAT
*** * ***
29625018 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAA
*
29625083 TGGTAATTTTACAAAC
66 TAGTAATTTTACAAAC
* *** * *
29625099 TAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAA
29625164 TAGTAATT
66 TAGTAATT
29625172 CTGTAAATCA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAA
TAGTAATTTTACAAAC
Found at i:29625187 original size:81 final size:79
Alignment explanation
Indices: 29625112--29625402 Score: 228
Period size: 81 Copynumber: 3.6 Consensus size: 79
29625102 GGGTATTTTG
*
29625112 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAACCAAGGGTA-TATAGTAATTTTGTAAATCGAGGGTAAAAT-GTAATTCTGTA
*
29625177 AATCAAGGGTAAAATA
64 AATCGAGGGTAAAATA
* * * * * *
29625193 GTAATTCTATAAATCGAGGGTA-AAACGATAATTTTGTAAATCGAGGGTAAAACTGTAATTCTAT
1 GTAATTTTACAAACCAAGGGTATATA-G-TAATTTTGTAAATCGAGGGTAAAA-TGTAATTCTGT
* *
29625257 GAATCGAGGGTAAAACA
63 AAATCGAGGGTAAAATA
** * * * * * *
29625274 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATC-AGGGGTAAAATGATAATTATGT
1 GTAATTTTACAAACCAAGGGT-ATATAGTAATTTTGTAAATCGA-GGGTAAAATG-TAATTCTGT
* *** *
29625338 AAATCGGGGGTACTTTG
63 AAATCGAGGGTAAAATA
* * * **
29625355 GTAATTTTACAAGTCGAA-GGTATTTAGTAATTTTACAAATCGAGGGTA
1 GTAATTTTACAA-ACCAAGGGTATATAGTAATTTTGTAAATCGAGGGTA
29625403 TTTCAGTATT
Statistics
Matches: 165, Mismatches: 36, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
79 1 0.01
80 23 0.14
81 136 0.82
82 4 0.02
83 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (79 bp):
GTAATTTTACAAACCAAGGGTATATAGTAATTTTGTAAATCGAGGGTAAAATGTAATTCTGTAAA
TCGAGGGTAAAATA
Found at i:29625360 original size:54 final size:55
Alignment explanation
Indices: 29625137--29625349 Score: 267
Period size: 54 Copynumber: 3.9 Consensus size: 55
29625127 AAGGGTATTT
* * * *
29625137 TAGTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAATGAGTAATTTTGTAAATCGAGGGTAAAA
*
29625191 TAGTAATTCTATAAATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAATGAGTAATTTTGTAAATCGAGGGTAAAA
* *
29625245 CT-GTAATTCTATGAATCGAGGGTAAAA-CAGTAATTTTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTATAAATCGAGGGTAAAATGAGTAATTTTGTAAATCGAGGGTAAAA
* * * *
29625299 TGGTAATTCTGTAAATC-AGGGGTAAAATGA-TAATTATGTAAATCGGGGGTA
1 TAGTAATTCTATAAATCGA-GGGTAAAATGAGTAATTTTGTAAATCGAGGGTA
29625350 CTTTGGTAAT
Statistics
Matches: 141, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
53 3 0.02
54 135 0.96
55 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (55 bp):
TAGTAATTCTATAAATCGAGGGTAAAATGAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:29625387 original size:26 final size:26
Alignment explanation
Indices: 29625346--29625442 Score: 99
Period size: 26 Copynumber: 3.7 Consensus size: 26
29625336 GTAAATCGGG
* *
29625346 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
*
29625373 GGTATTTAGTAATTTTACAAATCGAG
1 GGTATTTAGTAATTTTACAAATCGAA
*
29625399 GGTATTTCAGT-ATTTTACAAA-CTAA
1 GGTATTT-AGTAATTTTACAAATCGAA
*
29625424 GGGTATTTCGGTAATTTTA
1 -GGTATTT-AGTAATTTTA
29625443 GTAAACTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.03
26 46 0.75
27 13 0.21
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAA
Found at i:29625456 original size:27 final size:26
Alignment explanation
Indices: 29625374--29625457 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
29625364 CAAGTCGAAG
* *
29625374 GTATTT-AGTAATTTTACAAA-TCGAGG
1 GTATTTCAGT-ATTTTACAAACT-AAGA
*
29625400 GTATTTCAGTATTTTACAAACTAAGG
1 GTATTTCAGTATTTTACAAACTAAGA
* *
29625426 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGT-ATTTTA-CAAACTAAGA
29625453 GTATT
1 GTATT
29625458 CTAAACAGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
26 28 0.56
27 15 0.30
28 7 0.14
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (26 bp):
GTATTTCAGTATTTTACAAACTAAGA
Done.