Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 99 of 325
Found at i:29062029 original size:19 final size:20
Alignment explanation
Indices: 29062005--29062050 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
29061995 CATTCAAACA
*
29062005 CCAGAAAAGCAAATTA-TTT
1 CCAGAAAAGCAAATCATTTT
* *
29062024 CCAGAAAGGTAAATCATTTT
1 CCAGAAAAGCAAATCATTTT
29062044 CCAGAAA
1 CCAGAAA
29062051 TCATTTTCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGCAAATCATTTT
Found at i:29062053 original size:14 final size:14
Alignment explanation
Indices: 29062034--29062071 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
29062024 CCAGAAAGGT
29062034 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
29062048 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
29062062 AAAACATTTT
1 AAATCATTTT
29062072 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:29073113 original size:42 final size:42
Alignment explanation
Indices: 29073063--29073166 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
29073053 CTATGGTCTT
* *** *
29073063 ACAC-GTCTTACACGATATCTCGTATCAATGCCATGTCCCAG
1 ACACGGTCTTACACGAAATCAAATATCAATGCCATATCCCAG
*
29073104 ACACGGTCTTACATGAAATCAAATATCAATGCCATATCCCAG
1 ACACGGTCTTACACGAAATCAAATATCAATGCCATATCCCAG
* * *
29073146 ATATGGTCTTACATGAAATCA
1 ACACGGTCTTACACGAAATCA
29073167 CACGTAACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
41 4 0.07
42 50 0.93
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (42 bp):
ACACGGTCTTACACGAAATCAAATATCAATGCCATATCCCAG
Found at i:29078299 original size:38 final size:38
Alignment explanation
Indices: 29078256--29078549 Score: 201
Period size: 38 Copynumber: 7.0 Consensus size: 38
29078246 TTTCAAATTA
* *
29078256 ACATGTATAACCGTTGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
29078294 ACATGTTTCACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * * *
29078335 GAATCAATATATGTAATCGTGGCATATCCACTTAGCACCACGTC
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
29078379 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC-GT--T
* * *
29078420 GAATCAATATATGTAACCGAGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
29078464 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
29078512 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
29078550 TTTGTTTATT
Statistics
Matches: 203, Mismatches: 27, Indels: 52
0.72 0.10 0.18
Matches are distributed among these distances:
38 88 0.43
39 2 0.01
40 5 0.02
41 3 0.01
42 4 0.02
43 2 0.01
44 3 0.01
45 6 0.03
46 4 0.02
47 52 0.26
48 34 0.17
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:29078368 original size:85 final size:85
Alignment explanation
Indices: 29078271--29078469 Score: 353
Period size: 85 Copynumber: 2.3 Consensus size: 85
29078261 TATAACCGTT
* *
29078271 GCATATCCACTTAGCACCACGTTACATGTTTCACCGTGGTATATCCACTTAGCACCACGTTAATG
1 GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATG
* *
29078336 AATCAATATATGTAATCGTG
66 AATCAATATATGTAACCGAG
*
29078356 GCATATCCACTTAGCACCACGTCACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATG
1 GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATG
29078421 AATCAATATATGTAACCGAG
66 AATCAATATATGTAACCGAG
29078441 GCATATCCACTTAGCACCACGTTACATGT
1 GCATATCCACTTAGCACCACGTTACATGT
29078470 ATCAATATGT
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 108 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (85 bp):
GCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATG
AATCAATATATGTAACCGAG
Found at i:29078374 original size:47 final size:47
Alignment explanation
Indices: 29078303--29078512 Score: 258
Period size: 47 Copynumber: 4.6 Consensus size: 47
29078293 TACATGTTTC
29078303 ACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTA
1 ACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTA
* * * *
29078350 ATCGTGGCATATCCACTTAGCACCACG----T-CA-C-ATGT-T-TA
1 ACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTA
*
29078388 ACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATGTA
1 ACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTA
* * * *
29078435 ACCGAGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTA
1 ACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTA
*
29078483 ATCGTGGTATATCCACTTAGCACCACGTTA
1 ACCGTGGTATATCCACTTAGCACCACGTTA
29078513 CACGTATAAC
Statistics
Matches: 136, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 26 0.19
39 1 0.01
40 3 0.02
41 1 0.01
42 2 0.01
43 2 0.01
44 1 0.01
45 3 0.02
46 1 0.01
47 54 0.40
48 42 0.31
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (47 bp):
ACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTA
Found at i:29078495 original size:48 final size:48
Alignment explanation
Indices: 29078381--29078519 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
29078371 ACCACGTCAC
* * *
29078381 ATGTTTAACCGTGGTATATCCACTTAGCACCACATTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
29078428 ATATGTAACCGAGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
29078476 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
29078520 AACCGTGGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 32 0.40
48 48 0.60
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:29079229 original size:13 final size:13
Alignment explanation
Indices: 29079211--29079237 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29079201 GAAGTAATCG
29079211 CACACGGGCGTGT
1 CACACGGGCGTGT
29079224 CACACGGGCGTGT
1 CACACGGGCGTGT
29079237 C
1 C
29079238 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:29089391 original size:46 final size:46
Alignment explanation
Indices: 29089324--29089539 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
29089314 GGCAACCTGA
29089324 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
29089370 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
29089416 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
29089462 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
29089508 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
29089540 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:29089519 original size:138 final size:130
Alignment explanation
Indices: 29089274--29089539 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
29089264 AGTGTGCTCT
*
29089274 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
29089339 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
29089404 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
29089469 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
29089534 ATGGCA
123 ATGGCA
29089540 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:29094624 original size:38 final size:40
Alignment explanation
Indices: 29094570--29094690 Score: 156
Period size: 38 Copynumber: 2.9 Consensus size: 40
29094560 TCTGATATGA
29094570 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
29094610 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
29094648 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
29094691 ATGACAGAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
38 36 0.51
39 1 0.01
40 1 0.01
41 1 0.01
44 2 0.03
46 30 0.42
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:29094682 original size:46 final size:46
Alignment explanation
Indices: 29094615--29094739 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
29094605 ACCTGAGTGT
* *
29094615 AAGACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAAC
**
29094661 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAAC
* * * *
29094707 AAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAGACCATGGTTGAAAGATACCATGGCAACATG
29094740 TCAAAGATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 69 0.99
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAAC
Found at i:29105724 original size:13 final size:13
Alignment explanation
Indices: 29105706--29105731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29105696 AAGTAATCGT
29105706 ACACGGGCGTGTC
1 ACACGGGCGTGTC
29105719 ACACGGGCGTGTC
1 ACACGGGCGTGTC
29105732 CCTGTCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:29109953 original size:50 final size:50
Alignment explanation
Indices: 29109840--29110069 Score: 250
Period size: 50 Copynumber: 4.6 Consensus size: 50
29109830 CTATCTGATA
* * * * * * *
29109840 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
29109889 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
29109939 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGA-TACACG
* * * * *
29109990 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACG
29110040 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
29110070 TATTCACAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 32 0.21
50 80 0.53
51 40 0.26
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:29112984 original size:26 final size:27
Alignment explanation
Indices: 29112930--29112984 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
29112920 TTGTCGTAAA
*
29112930 TTCAAATCTTTTTGATTCATCAAATAT
1 TTCAAATCTTTTTGATTCATCAAAGAT
29112957 TTCAAA-CTTTTGTGA-TCAGT-AAAGAT
1 TTCAAATCTTTT-TGATTCA-TCAAAGAT
29112983 TT
1 TT
29112985 TCCATTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (27 bp):
TTCAAATCTTTTTGATTCATCAAAGAT
Found at i:29117441 original size:51 final size:50
Alignment explanation
Indices: 29117314--29117493 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 50
29117304 ATCTGATATG
* * * *
29117314 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATC--CGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAA-AGTCATTGGTACA
* * * *
29117363 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCATTG-GTACA
* *
29117414 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT-A-TGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-TCAA-AGTCATTGGTACA
**
29117464 TGTAGTAGCCTGCACTTAGTACTACACACG
1 CATAGTAGCCTGCACTTAGTACTACACACG
29117494 TGTATTCACA
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
48 3 0.03
49 32 0.29
50 32 0.29
51 36 0.33
52 3 0.03
53 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCATTGGTACA
Found at i:29121658 original size:42 final size:42
Alignment explanation
Indices: 29121575--29121693 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
29121565 TAAGATGCCA
* * * ***
29121575 ATGCCATATCCCAGACATGGCCTTACATGATATCTCGTATTG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATTG
*
29121617 ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAATATTG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATTG
* * * *
29121659 ACGGCATATCCCAGATATGGTATTACACGAAATCA
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCA
29121694 CACATAACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATTG
Found at i:29145389 original size:39 final size:39
Alignment explanation
Indices: 29145335--29145478 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
29145325 GAATGTTCGA
29145335 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
29145374 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29145413 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29145452 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
29145479 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:29145425 original size:78 final size:79
Alignment explanation
Indices: 29145336--29145518 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
29145326 AATGTTCGAG
29145336 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
29145400 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
29145414 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
29145479 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
29145493 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
29145519 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:29153459 original size:39 final size:39
Alignment explanation
Indices: 29153405--29153548 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
29153395 GAATGTTCGA
29153405 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
29153444 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29153483 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29153522 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
29153549 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:29153495 original size:78 final size:79
Alignment explanation
Indices: 29153406--29153588 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
29153396 AATGTTCGAG
29153406 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
29153470 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
29153484 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
29153549 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
29153563 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
29153589 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:29162007 original size:48 final size:48
Alignment explanation
Indices: 29161931--29162556 Score: 1036
Period size: 48 Copynumber: 13.0 Consensus size: 48
29161921 CAAGATAAAT
* * * *
29161931 ATATATATATGTGCTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29161979 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29162027 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29162075 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29162123 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29162171 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29162219 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29162267 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29162315 ATATGTATATGTGGTAAAGCCGAATGGCTAATCTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
29162363 ATATATATATGTGGTAAAGCCAAATGGCTAATGAGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
29162411 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29162459 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
29162507 ATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29162555 AT
1 AT
29162557 GTGTGTATAT
Statistics
Matches: 541, Mismatches: 37, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 541 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:29162738 original size:37 final size:37
Alignment explanation
Indices: 29162686--29162836 Score: 250
Period size: 37 Copynumber: 4.1 Consensus size: 37
29162676 ACATGAAACT
29162686 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAGAT-TATGTCCGGGTAAGACCCGATGACTACGTG
*
29162723 TGGAGATTATGTCCGGGTAAGACTCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
29162760 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* * *
29162797 TGGAGATTTTGTCCGGGTAAGACCCGATAACTACTTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
29162834 TGG
1 TGG
29162837 GGACTATTCG
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 3 0.03
37 105 0.97
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:29163860 original size:23 final size:23
Alignment explanation
Indices: 29163828--29163875 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
29163818 AATGTGAAAG
29163828 GTTAGGGGTAAAACGATAATTTT
1 GTTAGGGGTAAAACGATAATTTT
* *
29163851 GTTAGTGGTAAAATGATAATTTT
1 GTTAGGGGTAAAACGATAATTTT
29163874 GT
1 GT
29163876 CCGCGGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (23 bp):
GTTAGGGGTAAAACGATAATTTT
Found at i:29163887 original size:23 final size:23
Alignment explanation
Indices: 29163834--29163887 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
29163824 AAAGGTTAGG
* * *
29163834 GGTAAAACGATAATTTTGTTAGT
1 GGTAAAATGATAATTTTGTCAGC
*
29163857 GGTAAAATGATAATTTTGTCCGC
1 GGTAAAATGATAATTTTGTCAGC
*
29163880 GGTGAAAT
1 GGTAAAAT
29163888 TTAGGCTCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (23 bp):
GGTAAAATGATAATTTTGTCAGC
Found at i:29170017 original size:42 final size:41
Alignment explanation
Indices: 29169913--29170051 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 41
29169903 TGAGATATCG
* * * *
29169913 TGTAAGACCGTGTCTGGGATACAGGCCTCGATTTGAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATCT--GATTT-CA
* * * *
29169957 TATAAGACCATGTTTGGGACATAGGCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTGGGACACAGGCATCG-ATCTGATTTCA
* * *
29169999 TGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGAT-CTG-ATTTCA
29170042 TGTAAGACCA
1 TGTAAGACCA
29170052 CATCCGGGAC
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.03
42 30 0.39
43 18 0.23
44 24 0.31
45 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATCTGATTTCA
Found at i:29170061 original size:43 final size:42
Alignment explanation
Indices: 29169972--29170061 Score: 94
Period size: 43 Copynumber: 2.1 Consensus size: 42
29169962 GACCATGTTT
* * * * *
29169972 GGGACATAGGCATCGTATCTGATTTCGTGTAAGACCCTGTCT
1 GGGACAGAGGCATCGTATCTGATTACATGTAAGACCCTATCC
29170014 GGGACAGAGGCATCG-ATACTGAATTACATGTAAGACCAC-ATCC
1 GGGACAGAGGCATCGTAT-CTG-ATTACATGTAAGACC-CTATCC
29170057 GGGAC
1 GGGAC
29170062 GTCAACATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.05
42 17 0.43
43 20 0.50
44 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (42 bp):
GGGACAGAGGCATCGTATCTGATTACATGTAAGACCCTATCC
Found at i:29173844 original size:2 final size:2
Alignment explanation
Indices: 29173837--29173866 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29173827 CGAATTCATT
29173837 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
29173867 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:29174128 original size:39 final size:38
Alignment explanation
Indices: 29174083--29174207 Score: 142
Period size: 39 Copynumber: 3.2 Consensus size: 38
29174073 GGTCTTTAAC
**
29174083 CCGGATACTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATA-TTTTCCAGCATATAGCCTGCGGACCTCAAGT
* * * *
29174122 CTGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATAT-TTTCCAGCATATAGCCTGCGGACCTCAAGT
* *
29174161 CCGGATATTTTTCCAGCATATAGCCTACGGACCTCATGT
1 CCGGATA-TTTTCCAGCATATAGCCTGCGGACCTCAAGT
*
29174200 CCAGATAT
1 CCGGATAT
29174208 ATTTTCAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.03
39 70 0.96
40 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (38 bp):
CCGGATATTTTCCAGCATATAGCCTGCGGACCTCAAGT
Found at i:29178810 original size:43 final size:42
Alignment explanation
Indices: 29178655--29178811 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
29178645 TGTGATTTTG
* *
29178655 TGTAAGGCCATGTCT-GGAACGTTGGCATCA-ATTTGAGATTTACT
1 TGTAAGACCATGTCTAGG-ACGTTGGCATCATATTT--GA-TTACA
* * * * * ***
29178699 TGTAAGACCATGTTTGGGACATCGGTATCATATTTGATTTTG
1 TGTAAGACCATGTCTAGGACGTTGGCATCATATTTGATTACA
* *
29178741 TGTAAGACCCTATCTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGAC-GTTGGCATC-ATATTTGATTACA
*
29178784 TGTAAGACCATGTCTAGTACGTTGGCAT
1 TGTAAGACCATGTCTAGGACGTTGGCAT
29178812 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
42 24 0.28
43 35 0.40
44 22 0.25
45 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACGTTGGCATCATATTTGATTACA
Found at i:29183135 original size:35 final size:35
Alignment explanation
Indices: 29183094--29183207 Score: 151
Period size: 35 Copynumber: 3.3 Consensus size: 35
29183084 CATAGATAAG
*
29183094 TACATGTGAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAGCTTATATTGAACTTGTATATTCGAC
* *
29183129 TACATGTGAGGTTATATTGAACTTAAGTAT-TT-GAT
1 TACATGTGAGCTTATATTGAACTT--GTATATTCGAC
*
29183164 TACATGTGAGCTTATATTGAACTTGTATATTCGAT
1 TACATGTGAGCTTATATTGAACTTGTATATTCGAC
*
29183199 TATATGTGA
1 TACATGTGA
29183208 AGTTATCTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
33 4 0.06
34 2 0.03
35 58 0.83
36 2 0.03
37 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (35 bp):
TACATGTGAGCTTATATTGAACTTGTATATTCGAC
Found at i:29191700 original size:12 final size:12
Alignment explanation
Indices: 29191683--29191712 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29191673 CCATACACAC
29191683 CCGTGTACCAGG
1 CCGTGTACCAGG
*
29191695 CCGTGTACTAGG
1 CCGTGTACCAGG
29191707 CCGTGT
1 CCGTGT
29191713 CAATCTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.30, G:0.33, T:0.23
Consensus pattern (12 bp):
CCGTGTACCAGG
Found at i:29192743 original size:24 final size:24
Alignment explanation
Indices: 29192652--29192744 Score: 66
Period size: 24 Copynumber: 3.8 Consensus size: 24
29192642 AAGCTATGAT
**
29192652 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCT-CTTATGAGCTGA-GAA
* *
29192678 TAGTAAGCTC-TATCTAGCTG-GAAA
1 CAGTAAGCTCTTAT-GAGCTGAG-AA
* *
29192702 GAGTAAGCT-TTGACGAGCTGAGAA
1 CAGTAAGCTCTT-ATGAGCTGAGAA
29192726 CAGTAAGCTCTTATGAGCT
1 CAGTAAGCTCTTATGAGCT
29192745 AATATATCGG
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
23 1 0.02
24 33 0.63
25 10 0.19
26 8 0.15
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (24 bp):
CAGTAAGCTCTTATGAGCTGAGAA
Found at i:29208576 original size:71 final size:71
Alignment explanation
Indices: 29208492--29208654 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
29208482 CGATTTGTCT
29208492 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
29208557 CTTTCA
66 CTTTCA
29208563 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
29208628 CTTTCA
66 CTTTCA
29208634 CGTA-CTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
29208655 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 17 0.18
71 75 0.82
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:29223379 original size:27 final size:27
Alignment explanation
Indices: 29223341--29223394 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
29223331 GCAAAATAAT
29223341 CTTGTCATGCCATCATTTCGTCTTTTC
1 CTTGTCATGCCATCATTTCGTCTTTTC
*
29223368 CTTGTCATGCCATCGTTTCGTCTTTTC
1 CTTGTCATGCCATCATTTCGTCTTTTC
29223395 ATAAGCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.30, G:0.13, T:0.48
Consensus pattern (27 bp):
CTTGTCATGCCATCATTTCGTCTTTTC
Found at i:29231494 original size:13 final size:13
Alignment explanation
Indices: 29231470--29231506 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
29231460 AGTAATTGAA
*
29231470 CACGGGCATGTGC
1 CACGGGCGTGTGC
*
29231483 CATGGGCGTGTGC
1 CACGGGCGTGTGC
29231496 CACGGGCGTGT
1 CACGGGCGTGT
29231507 CCCTGTCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.11, C:0.27, G:0.43, T:0.19
Consensus pattern (13 bp):
CACGGGCGTGTGC
Found at i:29240074 original size:25 final size:26
Alignment explanation
Indices: 29240010--29240079 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
29240000 CGAATAGGGC
*
29240010 AGCACTATGTGTGCGTATGGAAAAGCT
1 AGCACTATGTGTGCGAATGGAAAA-CT
* *
29240037 AGCACTATATGTGCGAAT-GAATA-T
1 AGCACTATGTGTGCGAATGGAAAACT
29240061 ATGCACTATGTGTGCGAAT
1 A-GCACTATGTGTGCGAAT
29240080 TTATTAACCG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 16 0.42
26 4 0.11
27 16 0.42
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (26 bp):
AGCACTATGTGTGCGAATGGAAAACT
Found at i:29243693 original size:133 final size:133
Alignment explanation
Indices: 29243455--29243720 Score: 505
Period size: 133 Copynumber: 2.0 Consensus size: 133
29243445 CATTGCCGTG
29243455 AATCGATGATTTATTTGATCAGCTAAAGAGAGCTTCAGTGTTTTCAAAGATCAATCTGCGATCTG
1 AATCGATGATTTATTTGATCAGCTAAAGAGAGCTTCAGTGTTTTCAAAGATCAATCTGCGATCTG
*
29243520 ACTATTATCAGTTGAGAGTCAGAGACTCAGATGTGCCTAAGACTCCTTTCAGAACGAGATACGGA
66 ACTATTATCAGTTGAGAGTCAGAGACTCAGATGTGCCTAAGACTCCTTTCAGAACGAGAAACGGA
29243585 CAC
131 CAC
*
29243588 AATCGATGATTTATTTGATCAGCTAAAGAGAGCTTCAGTGTTTTCAAAGATCGATCTGCGATCTG
1 AATCGATGATTTATTTGATCAGCTAAAGAGAGCTTCAGTGTTTTCAAAGATCAATCTGCGATCTG
*
29243653 GCTATTATCAGTTGAGAGTCAGAGACTCAGATGTGCCTAAGACTCCTTTCAGAACGAGAAACGGA
66 ACTATTATCAGTTGAGAGTCAGAGACTCAGATGTGCCTAAGACTCCTTTCAGAACGAGAAACGGA
29243718 CAC
131 CAC
29243721 TATGAGTTCA
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 130 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (133 bp):
AATCGATGATTTATTTGATCAGCTAAAGAGAGCTTCAGTGTTTTCAAAGATCAATCTGCGATCTG
ACTATTATCAGTTGAGAGTCAGAGACTCAGATGTGCCTAAGACTCCTTTCAGAACGAGAAACGGA
CAC
Found at i:29247888 original size:27 final size:24
Alignment explanation
Indices: 29247825--29247927 Score: 84
Period size: 25 Copynumber: 4.2 Consensus size: 24
29247815 GTATATGCAT
*
29247825 GAATGAAAA-AGGCACTATGTGTAC
1 GAATGAAAATA-GCACTATGTGTGC
* **
29247849 GAATG-GAGCAGCACTATGTGTGC
1 GAATGAAAATAGCACTATGTGTGC
* *
29247872 GTATGGAAAAGCTAGCACTATATGTGC
1 GAAT-GAAAA--TAGCACTATGTGTGC
*
29247899 GAATGAATATATGCACTATGTGTGC
1 GAATGAAAATA-GCACTATGTGTGC
29247924 GAAT
1 GAAT
29247928 TTATTAACCG
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
23 16 0.26
24 9 0.15
25 17 0.27
26 4 0.06
27 16 0.26
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (24 bp):
GAATGAAAATAGCACTATGTGTGC
Found at i:29247922 original size:25 final size:26
Alignment explanation
Indices: 29247836--29247927 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 26
29247826 AATGAAAAAG
* *
29247836 GCACTATGTGTACGAATGG--AGC-A
1 GCACTATGTGTGCGAATGGAAAACTA
*
29247859 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGGAAAA-CTA
* *
29247886 GCACTATATGTGCGAAT-GAATA-TA
1 GCACTATGTGTGCGAATGGAAAACTA
29247910 TGCACTATGTGTGCGAAT
1 -GCACTATGTGTGCGAAT
29247928 TTATTAACCG
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 17 0.30
24 2 0.04
25 17 0.30
26 5 0.09
27 16 0.28
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (26 bp):
GCACTATGTGTGCGAATGGAAAACTA
Found at i:29251785 original size:32 final size:32
Alignment explanation
Indices: 29251747--29251810 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
29251737 TGCCACAGTC
29251747 CAAATAAAACATTATAGTCCCAAATAACAAAA
1 CAAATAAAACATTATAGTCCCAAATAACAAAA
29251779 CAAATAAAACATTATAGTCCCAAATAACAAAA
1 CAAATAAAACATTATAGTCCCAAATAACAAAA
29251811 GTATAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.59, C:0.19, G:0.03, T:0.19
Consensus pattern (32 bp):
CAAATAAAACATTATAGTCCCAAATAACAAAA
Found at i:29256152 original size:45 final size:46
Alignment explanation
Indices: 29255986--29256301 Score: 238
Period size: 46 Copynumber: 6.8 Consensus size: 46
29255976 AAGGTGTAAT
* * *
29255986 GCCGATGCCACGTCCCAGACAAGGTCTTACACTGGCTCATCCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-C-TCGTA
* * * **
29256033 GTCGATCCCATGTCCCAGACATGGTCTTACACTGACTGTCGAAATCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TC-ATCTCGTA
* *
29256081 GGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTCTGT-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTC-GTA
* * * * *
29256127 GTCGATGCCATGTCCAAAACATGGTCTTACACTGACACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGTA
29256173 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTCGTA
* * * ** * **
29256218 GGCCAATG-CATATCCCAAACAT-GTCTTACACTAACTCTCGTCTCAAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT--GGCTCATCTCGTA
*
29256265 GCTGATGCCATGT-CCAGACATGGTCTTACACTGGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
29256302 TCATAATGTG
Statistics
Matches: 213, Mismatches: 39, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
44 12 0.06
45 51 0.24
46 63 0.30
47 49 0.23
48 4 0.02
49 33 0.15
50 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGTA
Found at i:29256214 original size:46 final size:46
Alignment explanation
Indices: 29255986--29256342 Score: 218
Period size: 46 Copynumber: 7.7 Consensus size: 46
29255976 AAGGTGTAAT
* * *
29255986 GCCGATGCCACGTCCCAGACAAGGTCTTACACTGGC-TCATCCATC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCAT-C-TCGTA
* * * **
29256033 GTCGATCCCATGTCCCAGACATGGTCTTACACTGACTGTCGAAATCG-A
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTGGCT-TC-ATCTCGTA
* *
29256081 GGCCAACGCCATGTCCCAGACATGGTCTTACACTGGC-TC-TCTCTGT-
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATCTC-GTA
* * * * *
29256127 GTCGATGCCATGTCCAAAACATGGTCTTACACTGAC-ACATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATCTCGTA
29256173 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCGTA
* * * ** * **
29256218 GGCCAATGCATATCCCAAACAT-GTCTTACACTAACTCTCGTCTCAAA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCGTA
* * *
29256265 GCTGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TCAT-CTCGTA
* * *
29256312 GCCGATGCATGTTCCGGTCAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
29256343 AGCGCACAAA
Statistics
Matches: 243, Mismatches: 47, Indels: 41
0.73 0.14 0.12
Matches are distributed among these distances:
44 12 0.05
45 48 0.20
46 80 0.33
47 66 0.27
48 4 0.02
49 32 0.13
50 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCGTA
Found at i:29256322 original size:139 final size:138
Alignment explanation
Indices: 29255988--29256342 Score: 334
Period size: 139 Copynumber: 2.5 Consensus size: 138
29255978 GGTGTAATGC
* * *
29255988 CGATGCCACGTCCCAGACAAGGTCTTACACTGGCTCATCCATCAAGT--CGATCCCATGTCCCAG
1 CGATGCCATGT-CCAGACATGGTCTTACACTGGCTCAT-CAT-AAGTGCCGAT-GCATGTCCCAG
* * *
29256051 ACATGGTCTTACACTGACTGTCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTCTTACACTG
62 ACAT-GTCTTACACTGACTGTCGAAATCGAGGCCAACGCCATATCCCAAACATGGTCTTACACTA
* **
29256116 GCTCTCTCTGTGT
126 ACTCTCTCTAAGT
* * * *
29256129 CGATGCCATGTCCAAAACATGGTCTTACACTGACACATC-T-CGTAGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCC-AGACATGGTCTTACACTGGCTCATCATAAGT-GCCGATGCATGTCCCAGAC
* ** *
29256192 ATGTCTTACACTGGCT-TAC-ATCTCGAGGCCAATG-CATATCCCAAACAT-GTCTTACACTAAC
64 ATGTCTTACACTGACTGT-CGAAATCGAGGCCAACGCCATATCCCAAACATGGTCTTACACTAAC
29256253 TCTCGTCTCAAAG-
128 TCTC-TCT--AAGT
* * *
29256266 CTGATGCCATGTCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTTCCGGT
1 C-GATGCCATGTCCAGACATGGTCTTACACTGGCTCATCATAA-GT-GCCGATGCATGTCCCAGA
29256330 CATGTCTTACACT
63 CATGTCTTACACT
29256343 AGCGCACAAA
Statistics
Matches: 177, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
135 15 0.08
136 17 0.10
137 36 0.20
138 27 0.15
139 45 0.25
140 7 0.04
141 30 0.17
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (138 bp):
CGATGCCATGTCCAGACATGGTCTTACACTGGCTCATCATAAGTGCCGATGCATGTCCCAGACAT
GTCTTACACTGACTGTCGAAATCGAGGCCAACGCCATATCCCAAACATGGTCTTACACTAACTCT
CTCTAAGT
Found at i:29271652 original size:46 final size:46
Alignment explanation
Indices: 29271417--29271766 Score: 204
Period size: 46 Copynumber: 7.5 Consensus size: 46
29271407 ATGCCAATGC
* * * *
29271417 CATGTCCCAGACAAGGTCTTACACTGGCTCATCCAT-T-AA-GTCGATCC
1 CATGTCCCAGAC-ATGTCTTACACTTGCTC-T-CATCTCAAGGCCGAT-G
* ** * * *
29271464 CATGTCCCAGACATGGTCTTACAC-TGACTGTCGAAATCGAGGCCAACG
1 CATGTCCCAGACAT-GTCTTACACTTG-CTCTC-ATCTCAAGGCCGATG
* * * *
29271512 CCATGTCCTAGACATGGTCTTACACTGGCTCTC-TCT--ATGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTTGCTCTCATCTCAAGGCCGATG
* * * * * *
29271557 CCATGTCCCAAACATGGCCTTACAC-TG-ACACATCTCGTA-GCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTTGCTCTCATCTC-AAGGCCGATG
29271603 CATGTCCCAGACATGTCTTACACTTGCT-TACATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTTGCTCT-CATCTCAAGGCCGATG
* * * *
29271649 CATGTCCCAAACATTTCTTACACTAT-CTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-TGCTCTCATCTCAAGGCCGATG
* * **
29271695 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTTGCTCTCAT-CTCAAGGCCGATG
29271743 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
29271767 AGCGCACAAA
Statistics
Matches: 237, Mismatches: 44, Indels: 45
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 44 0.19
46 69 0.29
47 55 0.23
48 23 0.10
49 31 0.13
50 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTTGCTCTCATCTCAAGGCCGATG
Found at i:29271767 original size:94 final size:93
Alignment explanation
Indices: 29271406--29271766 Score: 309
Period size: 94 Copynumber: 3.9 Consensus size: 93
29271396 CATAAGGTGT
* * *
29271406 AATGCCAATGCCATGTCCCAGACAAGGTCTTACACTGGCTCATCCATTAA-GTCGATCCCATGTC
1 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACA-TAATGTCGAT-GCATGTC
* * **
29271470 CCAGACATGGTCTTACACTGACTGTCGAAATC
63 CCAAACATGGTCTTACACTGACTCTCG-TCTC
* * * * *
29271502 GAGGCCAACGCCATGTCCTAGACATGGTCTTACACTGGCTCT-C-TCTATGTCGATGCCATGTCC
1 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-AATGTCGATG-CATGTCC
* *
29271565 CAAACATGGCCTTACACTGACACATC-TCGT-
64 CAAACATGGTCTTACACTGACTC-TCGTC-TC
* * *
29271595 -A-GCCAATG-CATGTCCCAGACAT-GTCTTACACTTGCT-TACATCTCAAGGCCGATGCATGTC
1 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACA--T-AATGTCGATGCATGTC
*
29271655 CCAAACAT-TTCTTACACT-ATCTCTCGTCTC
63 CCAAACATGGTCTTACACTGA-CTCTCGTCTC
*
29271685 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTC
1 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGT---CGATGCATGTC
*
29271749 CCAGACAT-GTCTTACACT
63 CCAAACATGGTCTTACACT
29271767 AGCGCACAAA
Statistics
Matches: 217, Mismatches: 28, Indels: 42
0.76 0.10 0.15
Matches are distributed among these distances:
88 1 0.00
89 18 0.08
90 25 0.12
91 24 0.11
92 18 0.08
93 15 0.07
94 76 0.35
95 4 0.02
96 36 0.17
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (93 bp):
AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGTCGATGCATGTCCCA
AACATGGTCTTACACTGACTCTCGTCTC
Found at i:29273538 original size:14 final size:15
Alignment explanation
Indices: 29273519--29273549 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
29273509 AGTCCTTTAA
29273519 TAATTTAAT-ATTTT
1 TAATTTAATCATTTT
29273533 TAATTTAATCATTTT
1 TAATTTAATCATTTT
29273548 TA
1 TA
29273550 TCACATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TAATTTAATCATTTT
Found at i:29273784 original size:21 final size:21
Alignment explanation
Indices: 29273760--29273800 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29273750 GAGATTAATT
* *
29273760 ATTGCAGCAGTGAAATTAAAC
1 ATTGCAGCAATAAAATTAAAC
*
29273781 ATTGTAGCAATAAAATTAAA
1 ATTGCAGCAATAAAATTAAA
29273801 AATTATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (21 bp):
ATTGCAGCAATAAAATTAAAC
Found at i:29274650 original size:13 final size:13
Alignment explanation
Indices: 29274618--29274651 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
29274608 AATGAGCCAA
*
29274618 AGTTATATATTAG
1 AGTTATGTATTAG
29274631 AGTTATGTATTAG
1 AGTTATGTATTAG
29274644 AGTTATGT
1 AGTTATGT
29274652 CCCCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (13 bp):
AGTTATGTATTAG
Found at i:29282531 original size:30 final size:30
Alignment explanation
Indices: 29282495--29282595 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
29282485 GACAAGATTG
* * *
29282495 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
29282525 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
29282553 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
29282582 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
29282596 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:29282607 original size:29 final size:28
Alignment explanation
Indices: 29282524--29282599 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
29282514 AAAATTGTAC
* *
29282524 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
29282552 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
29282581 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
29282600 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:29290394 original size:30 final size:30
Alignment explanation
Indices: 29290358--29290458 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
29290348 GACAAGATTG
* * *
29290358 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
29290388 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
29290416 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
29290445 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
29290459 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:29290470 original size:29 final size:28
Alignment explanation
Indices: 29290387--29290462 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
29290377 AAAATTGTAC
* *
29290387 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
29290415 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
29290444 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
29290463 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:29293712 original size:47 final size:48
Alignment explanation
Indices: 29293639--29293825 Score: 259
Period size: 48 Copynumber: 3.9 Consensus size: 48
29293629 ATGGCAATAG
29293639 ATGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCAAT
1 ATGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCAAT
* *
29293687 ATGTGATCCCATGTGAGA-CATATCTAGGATATGGCATTGGCATGAAT
1 ATGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCAAT
* * * * *
29293734 ATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGAT
1 ATGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCAAT
* * * * *
29293782 ATGTGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCAT
29293826 GTGATTTTGT
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
47 45 0.37
48 77 0.63
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCAAT
Found at i:29293841 original size:42 final size:42
Alignment explanation
Indices: 29293772--29293888 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 42
29293762 GACATGGCAT
* * *
29293772 TGGCATCGATATGTGATCTCGTATAAGACCATATCTGGGATA
1 TGGCATCGACATGTGATCTCGTATAAGACCATATCTAGGACA
* * * * *
29293814 TGGCATCGGCATGTGATTTTGTGTAAGACCATGTCTAGGACA
1 TGGCATCGACATGTGATCTCGTATAAGACCATATCTAGGACA
* * * *
29293856 TGGCATTGATATGAGA-CTTCGTCTAAGACCATA
1 TGGCATCGACATGTGATC-TCGTATAAGACCATA
29293889 GATGGGCTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGGCATCGACATGTGATCTCGTATAAGACCATATCTAGGACA
Found at i:29297512 original size:27 final size:28
Alignment explanation
Indices: 29297456--29297525 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
29297446 AAATTTGTAC
29297456 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29297484 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29297511 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29297526 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29299500 original size:40 final size:39
Alignment explanation
Indices: 29299335--29299518 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
29299325 AAATTGAATG
* * *
29299335 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
29299375 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
29299415 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
29299455 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
29299494 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29299519 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:29299543 original size:80 final size:81
Alignment explanation
Indices: 29299375--29299563 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
29299365 GCTGGAAATT
* * * *
29299375 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
29299440 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
29299456 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
29299519 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
29299535 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
29299564 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:29307615 original size:40 final size:39
Alignment explanation
Indices: 29307450--29307633 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
29307440 AAATTGAATG
* * *
29307450 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
29307490 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
29307530 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
29307570 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
29307609 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29307634 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:29307658 original size:80 final size:81
Alignment explanation
Indices: 29307490--29307678 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
29307480 GCTGGAAATT
* * * *
29307490 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
29307555 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
29307571 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
29307634 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
29307650 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
29307679 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:29312012 original size:42 final size:42
Alignment explanation
Indices: 29311964--29312081 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
29311954 TCCGAGATTC
* *
29311964 CGTATAAGACCATATCTGGGATATGGCATTGGTATG-TGATTT
1 CGTATAAGACCATATCAGGGATATGGCATTGATATGAT-ATTT
* * * *
29312006 TGTATAAGACCATGTCAGGGAGATGGCGTTGATATGATATTT
1 CGTATAAGACCATATCAGGGATATGGCATTGATATGATATTT
* ** *
29312048 CATATAATTCCATATCCGGGATATGGCATTGATA
1 CGTATAAGACCATATCAGGGATATGGCATTGATA
29312082 CAGTACTAAG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (42 bp):
CGTATAAGACCATATCAGGGATATGGCATTGATATGATATTT
Found at i:29313266 original size:24 final size:24
Alignment explanation
Indices: 29313233--29313290 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
29313223 CTGGAGGCCT
* *
29313233 AGCCTCTTTTAATAG-TTGGGGCAA
1 AGCC-CTTTTAATAGACTGGAGCAA
*
29313257 AGCCCATTTTGATAGACTGGAGCAA
1 AGCCC-TTTTAATAGACTGGAGCAA
29313282 AGCCCTTTT
1 AGCCCTTTT
29313291 CGGTAAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 16 0.55
25 12 0.41
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAGACTGGAGCAA
Found at i:29313300 original size:25 final size:24
Alignment explanation
Indices: 29313253--29313315 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
29313243 AATAGTTGGG
*
29313253 GCAAAGCCCATTTTGATAGACTGGA
1 GCAAAGCCC-TTTTGATAAACTGGA
* *
29313278 GCAAAGCCCTTTTCGGTAAACTGGG
1 GCAAAGCCCTTTT-GATAAACTGGA
*
29313303 GCATAGCCCTTTT
1 GCAAAGCCCTTTT
29313316 AGCACTTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
GCAAAGCCCTTTTGATAAACTGGA
Found at i:29313734 original size:27 final size:27
Alignment explanation
Indices: 29313518--29313723 Score: 297
Period size: 27 Copynumber: 7.6 Consensus size: 27
29313508 GGGGCAAAAT
* * * *
29313518 GGTAATTTTACCCCATAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
29313545 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
29313572 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29313599 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
29313626 AGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29313653 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
29313680 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
29313707 GGTAATTCTACCCTACA
1 GGTAATTCTACCCTACA
29313724 AGGCTGTTTC
Statistics
Matches: 162, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 2 0.01
27 160 0.99
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:29313889 original size:54 final size:54
Alignment explanation
Indices: 29313737--29313890 Score: 148
Period size: 54 Copynumber: 2.9 Consensus size: 54
29313727 CTGTTTCGAT
* * * * * *
29313737 ATTTTACAAATCAAGAGTA-TTTCGATAATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAATCAAGGGTATTTTGGTA
* * ** *
29313791 ATTTTACAAGCCAAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTA
** * **
29313845 ATTTTGTAAACCAATGGTATTTTAGTAATTTTGGAAATCAAGGGTA
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCAAGGGTA
29313891 AAACGATAAT
Statistics
Matches: 79, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
54 75 0.95
55 4 0.05
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTA
Found at i:29313890 original size:27 final size:27
Alignment explanation
Indices: 29313737--29313890 Score: 128
Period size: 27 Copynumber: 5.7 Consensus size: 27
29313727 CTGTTTCGAT
* * * *
29313737 ATTTTACAAATCAAGAGTATTTCGATA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* ** *
29313764 ATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
29313791 ATTTTACAAGCCAAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
29313818 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
29313845 ATTTTGTAAACCAATGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
29313872 ATTTTGGAAATCAAGGGTA
1 ATTTTACAAACCAAGGGTA
29313891 AAACGATAAT
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:29313900 original size:27 final size:27
Alignment explanation
Indices: 29313879--29314160 Score: 393
Period size: 27 Copynumber: 10.4 Consensus size: 27
29313869 GTAATTTTGG
* * * *
29313879 AAATCAAGGGTAAAACGATAATTTTGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* *
29313906 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* * * *
29313933 AAATTGAGGGTAAAACGATAATTTTGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
29313960 AAATCAAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
29313987 AAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
29314014 AAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* *
29314041 AAATCGAGGGTAAAATGGTAATTTTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
29314068 AAATCGACGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
29314095 AAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* * *
29314122 CAATCGAGGGTAAAATGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
29314149 AAATCGAGGGTA
1 AAATCGAGGGTA
29314161 CTTTGGTAAT
Statistics
Matches: 231, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 231 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAT
Found at i:29317540 original size:25 final size:25
Alignment explanation
Indices: 29317506--29317556 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
29317496 GTAAAAGTTG
29317506 TTTATCTATGAATAAACTTTCATTT
1 TTTATCTATGAATAAACTTTCATTT
29317531 TTTATCTATGAATAAACTTTCATTT
1 TTTATCTATGAATAAACTTTCATTT
29317556 T
1 T
29317557 CTACCATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTATCTATGAATAAACTTTCATTT
Found at i:29329691 original size:36 final size:36
Alignment explanation
Indices: 29329644--29329716 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
29329634 GACATATCGG
*
29329644 AGGTCTAATCAGTTAGAGATCATTAGGTATATATAT
1 AGGTCTAATCAGTTAGAGATCATCAGGTATATATAT
*
29329680 AGGTCTAATCAGTTAGAGATCATCAGGTGTATATAT
1 AGGTCTAATCAGTTAGAGATCATCAGGTATATATAT
29329716 A
1 A
29329717 TAGACTCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (36 bp):
AGGTCTAATCAGTTAGAGATCATCAGGTATATATAT
Found at i:29331650 original size:49 final size:49
Alignment explanation
Indices: 29331593--29331713 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 49
29331583 TGTTGTGTGT
*
29331593 CAGTGTAAGACCTGTCTGGGACAT-GACATCGA-CAC-CGATATATGAGAGA
1 CAGTGTAAGACCTGTCTGGGACATGGA-AT-GAGC-CTCGATATATGAAAGA
* * *
29331642 CAGTGTAAGACCTGTCTGGGACATGGAATTAGCCTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGAATGAGCCTCGATATATGAAAGA
*
29331691 CAGTGTAAGACCTGTTTGGGACA
1 CAGTGTAAGACCTGTCTGGGACA
29331714 GGGCATCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
48 2 0.03
49 60 0.94
50 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGAATGAGCCTCGATATATGAAAGA
Found at i:29332997 original size:20 final size:21
Alignment explanation
Indices: 29332958--29332997 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29332948 GTCAACAGGG
*
29332958 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCGTGATGCCCTT
*
29332979 CCACACGGGCGT-ATGCCCT
1 CCACACAGGCGTGATGCCCT
29332998 GTTTTAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACAGGCGTGATGCCCTT
Found at i:29336675 original size:40 final size:40
Alignment explanation
Indices: 29336434--29336661 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
29336424 TATTCGGATG
* *
29336434 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
29336474 A-ATTCTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29336513 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29336553 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29336593 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
29336633 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
29336662 AGCAAGTAGC
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 34 0.20
40 139 0.80
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:29336675 original size:120 final size:119
Alignment explanation
Indices: 29336434--29336694 Score: 375
Period size: 120 Copynumber: 2.2 Consensus size: 119
29336424 TATTCGGATG
* *
29336434 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACTGGGCTAAGCCCGAAGGCAT
* * * *
29336499 TTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
* *
29336553 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACTGGGCTAAG-CCCGAAGGC
29336617 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
64 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CT
* * *
29336673 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
29336695 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
118 2 0.02
119 62 0.49
120 63 0.50
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACTGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
Found at i:29336860 original size:14 final size:14
Alignment explanation
Indices: 29336841--29336868 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29336831 TGAGCTTCCG
29336841 GCCTTTGGTTAAGT
1 GCCTTTGGTTAAGT
29336855 GCCTTTGGTTAAGT
1 GCCTTTGGTTAAGT
29336869 TGATCCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (14 bp):
GCCTTTGGTTAAGT
Found at i:29342342 original size:48 final size:48
Alignment explanation
Indices: 29342189--29342349 Score: 181
Period size: 44 Copynumber: 3.5 Consensus size: 48
29342179 TATGTGAGCC
* * * * *
29342189 AGTGTAATACATGTCTGGGACATGCATCGGCCACGTTAT-GA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATAGACAAGCT
* * *
29342235 ATTGTCAGACATGTCTGGGACATGCATCGGCAT--TG--AGACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATAGACAAGCT
* *
29342279 AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGGGATAGACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATAGACAAGCT
*
29342327 AGTGTAAGACCTGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
29342350 AGCGTTAGCT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.02
44 33 0.35
46 29 0.31
48 30 0.32
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATAGACAAGCT
Found at i:29345475 original size:13 final size:13
Alignment explanation
Indices: 29345434--29345487 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
29345424 TGCCCCTTTT
29345434 TTTAGGATTAGGG
1 TTTAGGATTAGGG
**
29345447 TTTTTTGATT--GG
1 -TTTAGGATTAGGG
29345459 TTTAGGATTAGGG
1 TTTAGGATTAGGG
*
29345472 TTTAGGTTTAGGG
1 TTTAGGATTAGGG
29345485 TTT
1 TTT
29345488 TAAGAGTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
11 7 0.21
12 2 0.06
13 17 0.52
14 7 0.21
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (13 bp):
TTTAGGATTAGGG
Found at i:29345498 original size:16 final size:15
Alignment explanation
Indices: 29345466--29345506 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
29345456 TGGTTTAGGA
29345466 TTAGGG-TTT-AGGT
1 TTAGGGTTTTAAGGT
29345479 TTAGGGTTTTAAGAGT
1 TTAGGGTTTTAAG-GT
*
29345495 TTAGAGTTTTAA
1 TTAGGGTTTTAA
29345507 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 3 0.12
15 2 0.08
16 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (15 bp):
TTAGGGTTTTAAGGT
Found at i:29345591 original size:64 final size:65
Alignment explanation
Indices: 29345522--29345709 Score: 178
Period size: 64 Copynumber: 2.9 Consensus size: 65
29345512 TTTAAGAGAC
*
29345522 AAATTA-ATTAAATTAGGGTTGAGGGTTAATTAATTAAATTAACTATTAATTTTAAAAAA-TAAT
1 AAATTAGATTAAATT-GGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTTAAAAAATTAAT
29345585 T
65 T
* * *
29345586 AAATTAGGGTTTAGAATT---TTTAGGGTTTATTAATTAAATTAATTATTAA-TTTAAAAGAATT
1 AAATTA--GATTA-AATTGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTTAAAA-AATT
29345647 AATT
62 AATT
* **
29345651 AAATTAGGGTT---TTGGGTAATTAATGTTAATTAATTAAATTAACTATTAATTTTAAAAAA
1 AAATTA-GATTAAATTGGGT--TTAGGGTTAATTAATTAAATTAACTATTAATTTTAAAAAA
29345710 ATCAATATAT
Statistics
Matches: 103, Mismatches: 9, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
60 2 0.02
63 8 0.08
64 40 0.39
65 39 0.38
66 7 0.07
67 3 0.03
68 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (65 bp):
AAATTAGATTAAATTGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTTAAAAAATTAATT
Found at i:29345684 original size:65 final size:64
Alignment explanation
Indices: 29345545--29345709 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 64
29345535 TAGGGTTGAG
** *
29345545 GGTTAATTAATTAAATTAACTATTAATTTTAAAAAATAATTAAATTAGGGTTTAGAATTTTTAG
1 GGTTAATTAATTAAATTAACTATTAATTTTAAAAAATAATTAAATTAGGGTTTAGAATAATTAA
* * * **
29345609 GGTTTATTAATTAAATTAATTATTAA-TTTAAAAGAATTAATTAAATTAGGGTTTTGGGTAATTA
1 GGTTAATTAATTAAATTAACTATTAATTTTAAAA-AA-TAATTAAATTAGGGTTTAGAATAATTA
29345673 A
64 A
*
29345674 TGTTAATTAATTAAATTAACTATTAATTTTAAAAAA
1 GGTTAATTAATTAAATTAACTATTAATTTTAAAAAA
29345710 ATCAATATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
63 7 0.08
64 26 0.30
65 47 0.54
66 7 0.08
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.44
Consensus pattern (64 bp):
GGTTAATTAATTAAATTAACTATTAATTTTAAAAAATAATTAAATTAGGGTTTAGAATAATTAA
Found at i:29345866 original size:127 final size:125
Alignment explanation
Indices: 29345735--29345993 Score: 367
Period size: 127 Copynumber: 2.1 Consensus size: 125
29345725 TTTTTTACTG
* * * *
29345735 CAGTAGTAT-TAGAGAAAATAATTTTGAGAAGGCGTTTCTGAATAAATAGTGTCAAAAACGCTTC
1 CAGTAGTATCT-GAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTC
* *
29345799 AAGCAGGATGCATTGACAGCAAAATTACGAAAAAAAAACTCATACGTGGACGCTCTTTTGCTA
65 AAGCAGGATGCATTGACAGCAAAATTACG--AAAAAAACTCACACATGGACGCTCTTTTGCTA
* *
29345862 CAGTAGTATCTGAAAAAATAATTTTAAGAAGATGTTTCTGAACAAATAGTGTCTAAAACGCTTCA
1 CAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCA
* * * *
29345927 AGCAGGATGCATTGTCAGCAAAATTATGGAAAAAACTCCCACATGGACGCTCTTTTGCTA
66 AGCAGGATGCATTGACAGCAAAATTACGAAAAAAACTCACACATGGACGCTCTTTTGCTA
*
29345987 CAATAGT
1 CAGTAGT
29345994 TACTATTTGG
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 34 0.29
127 83 0.70
128 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (125 bp):
CAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCA
AGCAGGATGCATTGACAGCAAAATTACGAAAAAAACTCACACATGGACGCTCTTTTGCTA
Found at i:29349056 original size:40 final size:40
Alignment explanation
Indices: 29348999--29349158 Score: 180
Period size: 40 Copynumber: 4.0 Consensus size: 40
29348989 TGAATGATAC
* * * *
29348999 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
29349039 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
29349079 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
29349119 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
29349159 TCGGCTGAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 91 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:29351527 original size:40 final size:39
Alignment explanation
Indices: 29351346--29351497 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
29351336 AATGTTCGAG
29351346 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
29351385 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
29351424 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
29351463 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
29351498 GGTTACCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:29360386 original size:40 final size:40
Alignment explanation
Indices: 29360329--29360492 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
29360319 TGAATGATAC
* * * *
29360329 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
29360369 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
29360409 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
29360449 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
29360489 CCGG
1 CCGG
29360493 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:29372546 original size:68 final size:71
Alignment explanation
Indices: 29372474--29372631 Score: 164
Period size: 68 Copynumber: 2.3 Consensus size: 71
29372464 CATCATGTGT
* ** * * *
29372474 ACAAGAGAGCTACGAGATACTATGTA-GTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-C
1 ACAAGAGAGCTACGAGATACGATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CAC
29372535 CATGTAG
65 CATGTAG
* * * * *
29372542 ACAAGA-AGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGATACGATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACAC
29372606 CATGTAG
65 CATGTAG
29372613 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
29372632 AATTGGCTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
67 13 0.18
68 26 0.37
69 1 0.01
70 1 0.01
71 20 0.28
72 10 0.14
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (71 bp):
ACAAGAGAGCTACGAGATACGATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACC
ATGTAG
Found at i:29386647 original size:2 final size:2
Alignment explanation
Indices: 29386640--29386670 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29386630 AAAATCTTAA
29386640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29386671 CTTAAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29387741 original size:24 final size:24
Alignment explanation
Indices: 29387713--29387764 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
29387703 TTATCAAGTC
* *
29387713 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
29387737 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
29387761 AAAT
1 AAAT
29387765 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:29391039 original size:31 final size:30
Alignment explanation
Indices: 29391001--29391063 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 30
29390991 GTTGTTGAAA
29391001 AAAAAAGACAAA-ATTGAATAGTT-GGATGACC
1 AAAAAAGA-AAATATT-AATAGTTAGG-TGACC
29391032 AAAAAAGAAAATTATTAATAGTTAGGTGACC
1 AAAAAAGAAAA-TATTAATAGTTAGGTGACC
29391063 A
1 A
29391064 TCTTGTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 3 0.10
31 21 0.72
32 5 0.17
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.22
Consensus pattern (30 bp):
AAAAAAGAAAATATTAATAGTTAGGTGACC
Found at i:29392447 original size:34 final size:35
Alignment explanation
Indices: 29392388--29392485 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 35
29392378 TCTTTGGCGG
* *
29392388 ATAGTA-CTACTTGGCAG-ACAATATCGCCTAG-TGG
1 ATAGTATC-ACTTGG-AGAACAGTATCGCCTAGATGA
* * * *
29392422 ATAGTGTCATTTGGCGAACTGTATCGCCT-GATGA
1 ATAGTATCACTTGGAGAACAGTATCGCCTAGATGA
29392456 ATAGTATCACTTGGAGAACAGTATCGCCTA
1 ATAGTATCACTTGGAGAACAGTATCGCCTA
29392486 ACGGACAGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
33 2 0.04
34 47 0.94
35 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (35 bp):
ATAGTATCACTTGGAGAACAGTATCGCCTAGATGA
Found at i:29395150 original size:13 final size:13
Alignment explanation
Indices: 29395132--29395157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29395122 TTTATTAAAT
29395132 TTAATTAATTTAC
1 TTAATTAATTTAC
29395145 TTAATTAATTTAC
1 TTAATTAATTTAC
29395158 CCAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTAATTTAC
Found at i:29397925 original size:10 final size:10
Alignment explanation
Indices: 29397910--29397941 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
29397900 TGACTAAATA
29397910 TGATTATATG
1 TGATTATATG
*
29397920 TGATTATTTG
1 TGATTATATG
29397930 TGATTATATG
1 TGATTATATG
29397940 TG
1 TG
29397942 GTTAATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (10 bp):
TGATTATATG
Found at i:29397965 original size:2 final size:2
Alignment explanation
Indices: 29397958--29397983 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29397948 ACATGTCGGA
29397958 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
29397984 GCCTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29398763 original size:20 final size:21
Alignment explanation
Indices: 29398716--29398768 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
29398706 TTTCCAAATG
29398716 GTATCGATACCACTTAAAGGAA
1 GTATCGATACCAC-TAAAGGAA
** *
29398738 AAATCGATACCA-TAAAGGTA
1 GTATCGATACCACTAAAGGAA
29398758 GTATCGATACC
1 GTATCGATACC
29398769 TACGTAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.62
22 10 0.38
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (21 bp):
GTATCGATACCACTAAAGGAA
Found at i:29401981 original size:22 final size:22
Alignment explanation
Indices: 29401953--29401999 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
29401943 GTAGGGTGGA
29401953 TGGGCCTATTATAACCCAATTG
1 TGGGCCTATTATAACCCAATTG
29401975 TGGGCCTATTATAACCCAATTG
1 TGGGCCTATTATAACCCAATTG
29401997 TGG
1 TGG
29402000 TGTGTAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (22 bp):
TGGGCCTATTATAACCCAATTG
Found at i:29403921 original size:30 final size:29
Alignment explanation
Indices: 29403863--29403922 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
29403853 TAAAATAAAA
*
29403863 TTTTAAAATACAATAAACTATAACAATTT
1 TTTTAAAAGACAATAAACTATAACAATTT
*
29403892 TTTTGAAAAGACAATAAACTATAATAATTT
1 TTTT-AAAAGACAATAAACTATAACAATTT
29403922 T
1 T
29403923 GGTACATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTTAAAAGACAATAAACTATAACAATTT
Found at i:29408788 original size:23 final size:26
Alignment explanation
Indices: 29408762--29408814 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 26
29408752 TGGGACGTAC
29408762 TTTTCT-TCTTCCTTT-TATTTT-TA
1 TTTTCTATCTTCCTTTCTATTTTATA
* *
29408785 TTTT-TATCTTGCTTTCTCTTTTATA
1 TTTTCTATCTTCCTTTCTATTTTATA
29408810 TTTTC
1 TTTTC
29408815 CTTTCTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 12 0.50
24 5 0.21
25 6 0.25
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTCTATCTTCCTTTCTATTTTATA
Found at i:29409439 original size:21 final size:21
Alignment explanation
Indices: 29409415--29409470 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
29409405 GTCCCTAGTC
*
29409415 CACACGGGCGTGTGCCTCAGT
1 CACACGAGCGTGTGCCTCAGT
* *
29409436 CACATGATCGTGTGCCTCAG-
1 CACACGAGCGTGTGCCTCAGT
*
29409456 CTACACGACCGTGTG
1 C-ACACGAGCGTGTG
29409471 TGTAACATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (21 bp):
CACACGAGCGTGTGCCTCAGT
Found at i:29415626 original size:19 final size:19
Alignment explanation
Indices: 29415582--29415630 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
29415572 ACTTTTCTTC
29415582 TTCCTTT-TATTTTTTATCT
1 TTCCTTTCT-TTTTTTATCT
*
29415601 TTGCTTTCTTTTTTATAT-T
1 TTCCTTTCTTTTTT-TATCT
29415620 TTCCTTTCTTT
1 TTCCTTTCTTT
29415631 CCCTTGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.73
Consensus pattern (19 bp):
TTCCTTTCTTTTTTTATCT
Found at i:29418305 original size:40 final size:40
Alignment explanation
Indices: 29418261--29418491 Score: 187
Period size: 40 Copynumber: 5.7 Consensus size: 40
29418251 TTCAAGCTGC
* *
29418261 GTATCAGCAAAGCTCCCCTATGAGTTTATGGATAAGTTGT
1 GTATCAGCAAAGCTCCCCTATGAGCTTATGGATAAGTTAT
* * * * * *
29418301 GTATCAACAAAGTTCCCTTGTGAGCTTATGGATAACTTTT
1 GTATCAGCAAAGCTCCCCTATGAGCTTATGGATAAGTTAT
* * * *
29418341 GTATCAACAAAGTTCCTCTGTGAGCTTATGGATAAGTTAT
1 GTATCAGCAAAGCTCCCCTATGAGCTTATGGATAAGTTAT
* * * * *
29418381 GTACCAGCAAATCTCCCCTATGAG-TTAAGGACAAGCTAT
1 GTATCAGCAAAGCTCCCCTATGAGCTTATGGATAAGTTAT
* * * *
29418420 GTATCAGCGAAGCTCCCC-ACGTGAGCTTAAGTGATGAAGCTGT
1 GTATCAGCAAAGCTCCCCTA--TGAGCTTATG-GAT-AAGTTAT
* * *
29418463 GTATTAGCAAAGCTCTCCATACGAGCTTA
1 GTATCAGCAAAGCTC-CCCTATGAGCTTA
29418492 AGTGATGGTG
Statistics
Matches: 155, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 27 0.17
40 91 0.59
41 5 0.03
42 2 0.01
43 26 0.17
44 2 0.01
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (40 bp):
GTATCAGCAAAGCTCCCCTATGAGCTTATGGATAAGTTAT
Found at i:29418466 original size:43 final size:43
Alignment explanation
Indices: 29418413--29418498 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
29418403 AGTTAAGGAC
* **
29418413 AAGCTATGTATCAGCGAAGCTCCCCACGTGAGCTTAAGTGATG
1 AAGCTATGTATCAGCAAAGCTCCCCACACGAGCTTAAGTGATG
* * * *
29418456 AAGCTGTGTATTAGCAAAGCTCTCCATACGAGCTTAAGTGATG
1 AAGCTATGTATCAGCAAAGCTCCCCACACGAGCTTAAGTGATG
29418499 GTGCTCATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
AAGCTATGTATCAGCAAAGCTCCCCACACGAGCTTAAGTGATG
Found at i:29419120 original size:30 final size:30
Alignment explanation
Indices: 29419085--29419152 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
29419075 ACGAAGATTG
29419085 GATTTTGTTATAGGTTTTAGATATGTTTAA
1 GATTTTGTTATAGGTTTTAGATATGTTTAA
29419115 GATTTTGTTATAGGTTTTAGATATGTTTAA
1 GATTTTGTTATAGGTTTTAGATATGTTTAA
29419145 GATTTTGT
1 GATTTTGT
29419153 GACTCTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (30 bp):
GATTTTGTTATAGGTTTTAGATATGTTTAA
Found at i:29427330 original size:18 final size:18
Alignment explanation
Indices: 29427307--29427345 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29427297 TTTCCTCATT
*
29427307 TTTATTTGATTTTAT-TTA
1 TTTATTT-ATTTCATATTA
29427325 TTTATTTATTTCATATTA
1 TTTATTTATTTCATATTA
29427343 TTT
1 TTT
29427346 CTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTTATTTCATATTA
Found at i:29428403 original size:3 final size:3
Alignment explanation
Indices: 29428395--29428543 Score: 93
Period size: 3 Copynumber: 52.0 Consensus size: 3
29428385 ATTATTGGTC
29428395 ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
29428442 -TC ACT ATT -TCT -TT ATT ACT ATT -TT ATT -TT ACT -TT GTT -TT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
29428481 ATT -TT TTT CTT ATT ATT AGT CTT CTT ATT GTT -TT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
29428525 ATT CTT ATT GATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT
29428544 GCTTAGTTGA
Statistics
Matches: 117, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
2 16 0.14
3 95 0.81
4 6 0.05
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:29428539 original size:16 final size:18
Alignment explanation
Indices: 29428520--29428553 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
29428510 GTTTTATTAT
29428520 TTATTATT-CTTA-TTGA
1 TTATTATTGCTTAGTTGA
29428536 TTATTATTGCTTAGTTGA
1 TTATTATTGCTTAGTTGA
29428554 CTCTTGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (18 bp):
TTATTATTGCTTAGTTGA
Found at i:29434491 original size:39 final size:39
Alignment explanation
Indices: 29434407--29434557 Score: 212
Period size: 39 Copynumber: 3.8 Consensus size: 39
29434397 TATGGTAACC
** * *
29434407 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
29434447 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
29434486 CGCACAATTGCCTTCGGGCTTAGCCTGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
29434525 TGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATC
29434558 CTCGAACATT
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 84 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:29434535 original size:78 final size:79
Alignment explanation
Indices: 29434388--29434557 Score: 261
Period size: 78 Copynumber: 2.2 Consensus size: 79
29434378 CTTCAGGACA
* **
29434388 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
29434453 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* ** * *
29434467 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCTGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
29434531 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
29434545 TAGCCCGGATATC
1 TAGCCCGGATATC
29434558 CTCGAACATT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 52 0.63
79 31 0.37
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
ATTGCCTTCGGGCT
Found at i:29439869 original size:28 final size:28
Alignment explanation
Indices: 29439835--29439899 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
29439825 TCAGTGTACG
* *
29439835 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
29439863 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
29439891 AAATATTGA
1 AAATATTGA
29439900 ATGACTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:29440016 original size:39 final size:39
Alignment explanation
Indices: 29439972--29440192 Score: 284
Period size: 39 Copynumber: 5.6 Consensus size: 39
29439962 GACTTTATAA
* *
29439972 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCCTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
29440011 TGGTGTTATATCCGAGCTAAGTCCTGAAGGCATTCCTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
29440050 TGATGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
29440089 TGGTGTTATATCTGGGCTAAGCCCCGAAGGCATT-GTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
29440127 TGGTGTTATATCCGGGCTAAAGTCCCGCAGG-GTTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
29440166 TGGTATTATATCCGGGCTTAAAGTCCC
1 TGGTGTTATATCCGGGC-T-AAGTCCC
29440193 ACAGGGTTTA
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 22 0.13
39 133 0.81
40 9 0.05
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:29444414 original size:25 final size:25
Alignment explanation
Indices: 29444386--29444435 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29444376 GGTATCGCAC
29444386 ACAGCCCACCTTTAAAATCGAAGCT
1 ACAGCCCACCTTTAAAATCGAAGCT
29444411 ACAGCCCACCTTTAAAATCGAAGCT
1 ACAGCCCACCTTTAAAATCGAAGCT
29444436 CTCTTGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.20
Consensus pattern (25 bp):
ACAGCCCACCTTTAAAATCGAAGCT
Found at i:29445255 original size:30 final size:30
Alignment explanation
Indices: 29445221--29445279 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
29445211 TCCTTAACTC
29445221 AAACTTTTGCAAAATTACAATTTTGCCCCG
1 AAACTTTTGCAAAATTACAATTTTGCCCCG
* * * *
29445251 AAACTTTTGCATATTTACACTTTTTCCCC
1 AAACTTTTGCAAAATTACAATTTTGCCCC
29445280 TAGGCTCGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCG
Found at i:29450403 original size:64 final size:64
Alignment explanation
Indices: 29450138--29450490 Score: 334
Period size: 67 Copynumber: 5.4 Consensus size: 64
29450128 CATAATTTTG
* * * * *
29450138 GCTCTCTTGTAC-AGATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * * * * * * *
29450201 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTACCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCG
29450266 TA
63 TA
* * * * * * *
29450268 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCG
29450333 TA
63 TA
* * *
29450335 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * *
29450399 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTA---CAT-TTATCTC
29450464 GTA
62 GTA
*
29450467 GCTCTCTTGTAC-ACATGGTATACA
1 GCTCTCTTGT-CTACATGGTGTACA
29450491 TCCCGTATTA
Statistics
Matches: 253, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
63 17 0.07
64 86 0.34
66 23 0.09
67 97 0.38
68 29 0.11
69 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
Found at i:29450408 original size:131 final size:131
Alignment explanation
Indices: 29450180--29450419 Score: 331
Period size: 131 Copynumber: 1.8 Consensus size: 131
29450170 CACCCATGTG
* * * *
29450180 ACCTAGCCACTTTATCTCGTAGCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGC
1 ACCTAGCCACTTTATCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGC
* *
29450245 AACCTAGCTACATTTACCTCGTAGCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACAT
64 AACCTAGCTACATATACCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACAT
29450310 GCA
129 GCA
* * * * *
29450313 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCG
1 ACCTAGCCAC-TTTATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCA
29450377 ACCTAGCTACATATATCC-CGTAGCTCTCTTGTCTACATGGTGT
65 ACCTAGCTACATATA-CCTCGTAGCTCTCTTGTCTACATGGTGT
29450420 ACACATAGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
131 53 0.56
132 2 0.02
133 9 0.10
134 30 0.32
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (131 bp):
ACCTAGCCACTTTATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAA
CCTAGCTACATATACCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACATGC
A
Found at i:29451017 original size:30 final size:30
Alignment explanation
Indices: 29450983--29451043 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29450973 TCCTTAACTC
29450983 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
29451013 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
29451043 A
1 A
29451044 GACTCAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:29455059 original size:25 final size:25
Alignment explanation
Indices: 29455031--29455078 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
29455021 TTTTCAGCAA
*
29455031 TTTAA-TTTTTTTTCTTTTATCTTCT
1 TTTAACTTTCTTTTCTTTT-TCTTCT
*
29455056 TTTAACTTTCTTTTGTTTTTCTT
1 TTTAACTTTCTTTTCTTTTTCTT
29455079 TATTTTCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTAACTTTCTTTTCTTTTTCTTCT
Found at i:29457011 original size:112 final size:112
Alignment explanation
Indices: 29456814--29457034 Score: 399
Period size: 112 Copynumber: 2.0 Consensus size: 112
29456804 ATAGTTTTAA
* *
29456814 GGAATGTTTGAATTTACTATAGTGCCGTGGACCTGGGTAACCTACAAATTTCATCTACCATGTGA
1 GGAATGTTTGAATTTACTATAGTGCCATGGACCTAGGTAACCTACAAATTTCATCTACCATGTGA
*
29456879 GTATAGAGTCATCTACTGGGAAGTCGAATTGTGTTTCATCTCAACTT
66 GTATAGAGTCATCTACTGGGAAGTCAAATTGTGTTTCATCTCAACTT
29456926 GGAATGTTTGAATTTA-TGATAGTGCCATGGACCTAGGTAACCTACAAATTTCATCTACCATGTG
1 GGAATGTTTGAATTTACT-ATAGTGCCATGGACCTAGGTAACCTACAAATTTCATCTACCATGTG
29456990 AGTATAGAGTCATCTACTGGGAAGTCAAATTGTGTTTCATCTCAA
65 AGTATAGAGTCATCTACTGGGAAGTCAAATTGTGTTTCATCTCAA
29457035 GGTCCAAGTT
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
111 1 0.01
112 104 0.99
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (112 bp):
GGAATGTTTGAATTTACTATAGTGCCATGGACCTAGGTAACCTACAAATTTCATCTACCATGTGA
GTATAGAGTCATCTACTGGGAAGTCAAATTGTGTTTCATCTCAACTT
Found at i:29457467 original size:29 final size:29
Alignment explanation
Indices: 29457434--29457493 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
29457424 TATGGCCCCA
29457434 TTCATGCTCCATCCCTTAACAGCATAACC
1 TTCATGCTCCATCCCTTAACAGCATAACC
** *
29457463 TTCATGCTTTATCCCTTAACGGCATAACC
1 TTCATGCTCCATCCCTTAACAGCATAACC
29457492 TT
1 TT
29457494 TGTTAACTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.33
Consensus pattern (29 bp):
TTCATGCTCCATCCCTTAACAGCATAACC
Found at i:29457939 original size:10 final size:10
Alignment explanation
Indices: 29457918--29457959 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
29457908 CTCCTTCGAA
29457918 TTTTATATATT
1 TTTTATA-ATT
29457929 TTTTATAATT
1 TTTTATAATT
29457939 TTTTGA-AA-T
1 TTTT-ATAATT
29457948 TTTTATAATT
1 TTTTATAATT
29457958 TT
1 TT
29457960 ACATATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 1 0.04
9 7 0.25
10 12 0.43
11 8 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:29457940 original size:19 final size:19
Alignment explanation
Indices: 29457916--29457965 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
29457906 CACTCCTTCG
29457916 AATTTTATATATTTTTTAT
1 AATTTTATATATTTTTTAT
* *
29457935 AATTTTTTGA-AATTTTTAT
1 AATTTTAT-ATATTTTTTAT
*
29457954 AATTTTACATAT
1 AATTTTATATAT
29457966 AAAATCTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTATATATTTTTTAT
Found at i:29458092 original size:13 final size:13
Alignment explanation
Indices: 29458074--29458102 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
29458064 AATTTAATAA
29458074 ATTTGTTTTGTAC
1 ATTTGTTTTGTAC
29458087 ATTTGTTTTGTAC
1 ATTTGTTTTGTAC
29458100 ATT
1 ATT
29458103 CTAAATGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (13 bp):
ATTTGTTTTGTAC
Found at i:29460541 original size:42 final size:42
Alignment explanation
Indices: 29460478--29460577 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
29460468 AAAATAATAG
* * * *
29460478 TTGAGGATTGAGAATTAAAAATTTG-AAATTGATAATTAAAAA
1 TTGAAGATTGAAAATTAAAAATTGGAAAATGGAT-ATTAAAAA
* *
29460520 TTGAAGATTGAAAA-TATAAAATTGGAAAATGGGTATTAAAGA
1 TTGAAGATTGAAAATTA-AAAATTGGAAAATGGATATTAAAAA
*
29460562 TTAAAGATTGAAAATT
1 TTGAAGATTGAAAATT
29460578 TAAGAAGGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.04
42 39 0.81
43 7 0.15
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (42 bp):
TTGAAGATTGAAAATTAAAAATTGGAAAATGGATATTAAAAA
Found at i:29460543 original size:21 final size:21
Alignment explanation
Indices: 29460478--29460540 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
29460468 AAAATAATAG
* *
29460478 TTGAGGATTGAGAATTAAAAA
1 TTGAAGATTGAAAATTAAAAA
*
29460499 TTTGAA-ATTGATAATTAAAAA
1 -TTGAAGATTGAAAATTAAAAA
29460520 TTGAAGATTGAAAATATAAAA
1 TTGAAGATTGAAAAT-TAAAA
29460541 TTGGAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 5 0.14
21 22 0.61
22 9 0.25
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (21 bp):
TTGAAGATTGAAAATTAAAAA
Done.