Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 98 of 161
Found at i:30987478 original size:3 final size:3
Alignment explanation
Indices: 30987470--30987495 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30987460 TGTTTCGCCA
30987470 CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CC
30987496 GCCACTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:30999212 original size:6 final size:6
Alignment explanation
Indices: 30999201--30999249 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
30999191 CATTTCTCAA
*
30999201 GAAAAT GAAAAT GAGAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
30999249 G
1 G
30999250 GCCTCTGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
GAAAAT
Found at i:31002409 original size:13 final size:13
Alignment explanation
Indices: 31002391--31002416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31002381 CAGAGATTTT
31002391 TTTTTTGTGTGTG
1 TTTTTTGTGTGTG
31002404 TTTTTTGTGTGTG
1 TTTTTTGTGTGTG
31002417 CGCGCTTCTT
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (13 bp):
TTTTTTGTGTGTG
Found at i:31002681 original size:23 final size:23
Alignment explanation
Indices: 31002650--31002695 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
31002640 TAAGACGAGC
*
31002650 ATCTTTCTTCTAACTAGTACATT
1 ATCTCTCTTCTAACTAGTACATT
31002673 ATCTCTCTTCTAACTAGTACATT
1 ATCTCTCTTCTAACTAGTACATT
31002696 TGAAGTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (23 bp):
ATCTCTCTTCTAACTAGTACATT
Found at i:31016045 original size:7 final size:7
Alignment explanation
Indices: 31016035--31016068 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
31016025 TGCCACCAAT
*
31016035 ATGTGAT
1 ATGTGAG
*
31016042 ATGTAAG
1 ATGTGAG
31016049 ATGTGAG
1 ATGTGAG
31016056 ATGTGAG
1 ATGTGAG
31016063 ATGTGA
1 ATGTGA
31016069 TGGTGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (7 bp):
ATGTGAG
Found at i:31018357 original size:41 final size:41
Alignment explanation
Indices: 31018295--31018425 Score: 149
Period size: 41 Copynumber: 3.2 Consensus size: 41
31018285 TCAAACACAT
* * *
31018295 CATTTTCATTTGTTACCCTTTTCAGTTAATATTCTTTTCAA
1 CATTTTCATTTGTTATCCTTTTCAGATAATATCCTTTTCAA
* * * *
31018336 CATTTTCATTTGATATTCTTTTCGGAT-ACATCCTTTTCAA
1 CATTTTCATTTGTTATCCTTTTCAGATAATATCCTTTTCAA
* *
31018376 CCTTTTCATTTGTTATCCTTTTCAAATAACT-TCCTTTTCAA
1 CATTTTCATTTGTTATCCTTTTCAGATAA-TATCCTTTTCAA
*
31018417 CCTTTTCAT
1 CATTTTCAT
31018426 GGGTTCGAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 33 0.44
41 42 0.56
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (41 bp):
CATTTTCATTTGTTATCCTTTTCAGATAATATCCTTTTCAA
Found at i:31020150 original size:19 final size:19
Alignment explanation
Indices: 31020126--31020164 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31020116 AATTGCAGTA
31020126 TCTTTAGCGCCACAACGAC
1 TCTTTAGCGCCACAACGAC
* *
31020145 TCTTTAGTGCCACAATGAC
1 TCTTTAGCGCCACAACGAC
31020164 T
1 T
31020165 AACTTCTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (19 bp):
TCTTTAGCGCCACAACGAC
Found at i:31023044 original size:40 final size:41
Alignment explanation
Indices: 31022957--31023087 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 41
31022947 TCAAACACAT
* * *
31022957 CCTTTTCATTTGTTACCCTTTTAGGGTAATATCCTTTTCAA
1 CCTTTTCATTTGTTATCCTTTTAGGATAATATCATTTTCAA
* * * *
31022998 CATTTTCATTTGATATCCTTTTCGGAT-ATATCATTTTCCA
1 CCTTTTCATTTGTTATCCTTTTAGGATAATATCATTTTCAA
*
31023038 CCTTTTCATTTGTTATCCTTTTTA-GATAACT-TCCTTTTCAA
1 CCTTTTCATTTGTTATCC-TTTTAGGATAA-TATCATTTTCAA
31023079 CCTTTTCAT
1 CCTTTTCAT
31023088 GGATTCAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
40 30 0.40
41 44 0.59
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.07, T:0.51
Consensus pattern (41 bp):
CCTTTTCATTTGTTATCCTTTTAGGATAATATCATTTTCAA
Found at i:31028276 original size:101 final size:102
Alignment explanation
Indices: 31028159--31028343 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
31028149 AAAGTGATGG
** *
31028159 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGGATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGCAGT
31028222 ACTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
65 ACTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
* * *
31028260 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTATCGGATAGTGATGGTCACATGTGCAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGCAGTA
*
31028325 CTATGTGCAGGCTACTATG
66 CTATGTACAGGCTACTATG
31028344 TGAACCGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 39 0.52
102 32 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGCAGTA
CTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
Found at i:31028278 original size:51 final size:50
Alignment explanation
Indices: 31028159--31028343 Score: 153
Period size: 51 Copynumber: 3.7 Consensus size: 50
31028149 AAAGTGATGG
* * * * * *
31028159 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-AT-GA
** *
31028209 TCGGATGTGTAGTACTATGTACAGGCTACTATGCGTA-CTGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATC-GGATAG-TAT-GA
* * * * *
31028260 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-ATGA
*
31028311 TCACATGTGCAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
31028344 TGAACCGATA
Statistics
Matches: 107, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
49 1 0.01
50 34 0.32
51 69 0.64
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTATGA
Found at i:31030981 original size:21 final size:21
Alignment explanation
Indices: 31030951--31031003 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
31030941 TGTCAGAAAA
*
31030951 TTCTTGTAATTGTGTTTTAAG
1 TTCTTATAATTGTGTTTTAAG
31030972 TTCTTATAATTGTGTTTTAAG
1 TTCTTATAATTGTGTTTTAAG
*
31030993 TTCTTTTAATT
1 TTCTTATAATT
31031004 CAGCAAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (21 bp):
TTCTTATAATTGTGTTTTAAG
Found at i:31034263 original size:12 final size:12
Alignment explanation
Indices: 31034246--31034275 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31034236 AACCTCACGC
31034246 CCGTGTGCTAGG
1 CCGTGTGCTAGG
31034258 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
31034270 CTGTGT
1 CCGTGT
31034276 AAAACCTGAC
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:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:31035049 original size:17 final size:17
Alignment explanation
Indices: 31035023--31035067 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
31035013 TGATAAATCT
31035023 CCGA-TGAGCTTCCAAC
1 CCGATTGAGCTTCCAAC
31035039 CCGATTGAGCTTCCAAC
1 CCGATTGAGCTTCCAAC
* *
31035056 CTGATCGAGCTT
1 CCGATTGAGCTT
31035068 TCGATAGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.24
Consensus pattern (17 bp):
CCGATTGAGCTTCCAAC
Found at i:31039966 original size:51 final size:53
Alignment explanation
Indices: 31039890--31039994 Score: 142
Period size: 51 Copynumber: 2.0 Consensus size: 53
31039880 ATCAAAGAAC
* * *
31039890 AGGCACTGAGTGCCAAGCCTGTAGGCTAAACAT-C-CCTCCAAAAACACGCCT
1 AGGCACTAAGTGCCAAGCCCGTAGGCTAAACATCCTCCCCCAAAAACACGCCT
* * *
31039941 AGGCACTAAGTGCCAATCCCGTAGGCTACACATCCTCCCCCGAAAACACGCCT
1 AGGCACTAAGTGCCAAGCCCGTAGGCTAAACATCCTCCCCCAAAAACACGCCT
31039994 A
1 A
31039995 AAAAATTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 29 0.63
52 1 0.02
53 16 0.35
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.15
Consensus pattern (53 bp):
AGGCACTAAGTGCCAAGCCCGTAGGCTAAACATCCTCCCCCAAAAACACGCCT
Found at i:31041500 original size:45 final size:45
Alignment explanation
Indices: 31041449--31041586 Score: 181
Period size: 45 Copynumber: 3.1 Consensus size: 45
31041439 AGATAAAATC
*
31041449 TGCCACTGGGCTGTGGATACACAGCAAAAATTCACAGATGAAACT
1 TGCCACTAGGCTGTGGATACACAGCAAAAATTCACAGATGAAACT
* * *
31041494 TGCCACTAGGCTGTGGGTACACAGC-AAAATATCGCAGAT-AAAAT
1 TGCCACTAGGCTGTGGATACACAGCAAAAAT-TCACAGATGAAACT
* * *
31041538 CTACCACTAGGCTGTGGATACACAACAAAAATTCATAGATGAAACT
1 -TGCCACTAGGCTGTGGATACACAGCAAAAATTCACAGATGAAACT
31041584 TGC
1 TGC
31041587 TATTGGATGT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
44 9 0.12
45 60 0.77
46 9 0.12
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (45 bp):
TGCCACTAGGCTGTGGATACACAGCAAAAATTCACAGATGAAACT
Found at i:31041651 original size:88 final size:90
Alignment explanation
Indices: 31041439--31041652 Score: 297
Period size: 90 Copynumber: 2.4 Consensus size: 90
31041429 CTGGTTTCGT
* * *
31041439 AGATAAAATCTGCCACTGGGCTGTGGATACACAGCAAAAATTCACAGATGAAACTTGCCACTAGG
1 AGATAAAATCTACCACTAGGCTGTGGATACACAACAAAAATTCACAGATGAAACTTGCCACTAGG
* *
31041504 CTGTGGGTACACAGCAAAATATCGC
66 ATGTGGGTACACAGAAAAATATCGC
* * *
31041529 AGATAAAATCTACCACTAGGCTGTGGATACACAACAAAAATTCATAGATGAAACTTGCTA-TTGG
1 AGATAAAATCTACCACTAGGCTGTGGATACACAACAAAAATTCACAGATGAAACTTGCCACTAGG
* *
31041593 ATGTGGGTGCATAGAAAAATATCGC
66 ATGTGGGTACACAGAAAAATATCGC
* * *
31041618 AGAT-AAATCTACCACTTGGCTGTAGATGCACAACA
1 AGATAAAATCTACCACTAGGCTGTGGATACACAACA
31041653 TATTTGTAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 28 0.25
89 28 0.25
90 55 0.50
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (90 bp):
AGATAAAATCTACCACTAGGCTGTGGATACACAACAAAAATTCACAGATGAAACTTGCCACTAGG
ATGTGGGTACACAGAAAAATATCGC
Found at i:31042222 original size:27 final size:28
Alignment explanation
Indices: 31042190--31042351 Score: 143
Period size: 28 Copynumber: 5.9 Consensus size: 28
31042180 ATAAAATTTT
* *
31042190 GGGCAAATTTGTAAAA-CTTAGAAAATA-
1 GGGCAAAATTGTAAAATC-TAAAAAATAG
*
31042217 GGGCAAAACTGTAAAATCTAAAAAATAG
1 GGGCAAAATTGTAAAATCTAAAAAATAG
31042245 GGGCAAAATTGTAAAATCTAAAAAATAG
1 GGGCAAAATTGTAAAATCTAAAAAATAG
* * * * *
31042273 AGG-AAAACTCT-AAATCTAAAAAAAAA
1 GGGCAAAATTGTAAAATCTAAAAAATAG
* * * *
31042299 AGGAAAAACTATAAAATCTAAAAAATAG
1 GGGCAAAATTGTAAAATCTAAAAAATAG
* * * *
31042327 GGGAAAAACTATAAAATCTGAAAAA
1 GGGCAAAATTGTAAAATCTAAAAAA
31042352 CAAGGGACAC
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 16 0.14
27 35 0.30
28 66 0.56
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (28 bp):
GGGCAAAATTGTAAAATCTAAAAAATAG
Found at i:31042257 original size:28 final size:28
Alignment explanation
Indices: 31042211--31042351 Score: 162
Period size: 28 Copynumber: 5.1 Consensus size: 28
31042201 TAAAACTTAG
31042211 AAAATA-GGGCAAAACTGTAAAATCTAA
1 AAAATAGGGGCAAAACTGTAAAATCTAA
*
31042238 AAAATAGGGGCAAAATTGTAAAATCTAA
1 AAAATAGGGGCAAAACTGTAAAATCTAA
* *
31042266 AAAATAGAGG-AAAACTCT-AAATCTAA
1 AAAATAGGGGCAAAACTGTAAAATCTAA
* ** * *
31042292 AAAAAAAAGGAAAAACTATAAAATCTAA
1 AAAATAGGGGCAAAACTGTAAAATCTAA
* * *
31042320 AAAATAGGGGAAAAACTATAAAATCTGA
1 AAAATAGGGGCAAAACTGTAAAATCTAA
31042348 AAAA
1 AAAA
31042352 CAAGGGACAC
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
26 16 0.16
27 19 0.19
28 65 0.65
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (28 bp):
AAAATAGGGGCAAAACTGTAAAATCTAA
Found at i:31042260 original size:55 final size:54
Alignment explanation
Indices: 31042190--31042351 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
31042180 ATAAAATTTT
* * *
31042190 GGGCAAATTTGTAAAA-CTTAGAAAATAG-GGCAAAACTGTAAAATCTAAAAAATAG
1 GGGCAAAATTGTAAAATC-TAAAAAATAGAGG-AAAACTCT-AAATCTAAAAAATAG
* *
31042245 GGGCAAAATTGTAAAATCTAAAAAATAGAGGAAAACTCTAAATCTAAAAAAAAA
1 GGGCAAAATTGTAAAATCTAAAAAATAGAGGAAAACTCTAAATCTAAAAAATAG
* * * * * * *
31042299 AGGAAAAACTATAAAATCTAAAAAATAGGGGAAAAACTATAAAATCTGAAAAA
1 GGGCAAAATTGTAAAATCTAAAAAATAGAGG-AAAACTCT-AAATCTAAAAAA
31042352 CAAGGGACAC
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
54 39 0.43
55 38 0.42
56 14 0.15
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (54 bp):
GGGCAAAATTGTAAAATCTAAAAAATAGAGGAAAACTCTAAATCTAAAAAATAG
Found at i:31042314 original size:54 final size:55
Alignment explanation
Indices: 31042211--31042351 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 55
31042201 TAAAACTTAG
* * * ** * * *
31042211 AAAATAGGGCAAAACTGTAAAATCTAAAAAATAGGGGCAAAATTGTAAAATCTAA
1 AAAATAGGGAAAAACTATAAAATCTAAAAAAAAAAGGAAAAACTATAAAATCTAA
*
31042266 AAAATAGAGG-AAAACTCT-AAATCTAAAAAAAAAAGGAAAAACTATAAAATCTAA
1 AAAATAG-GGAAAAACTATAAAATCTAAAAAAAAAAGGAAAAACTATAAAATCTAA
*
31042320 AAAATAGGGGAAAAACTATAAAATCTGAAAAA
1 AAAATA-GGGAAAAACTATAAAATCTAAAAAA
31042352 CAAGGGACAC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
54 38 0.52
55 22 0.30
56 13 0.18
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (55 bp):
AAAATAGGGAAAAACTATAAAATCTAAAAAAAAAAGGAAAAACTATAAAATCTAA
Found at i:31042821 original size:45 final size:45
Alignment explanation
Indices: 31042767--31042856 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
31042757 ATTATCGTTA
31042767 TAGAAGTTCTATAGTGATTCAAGATCTAAACATCGAGATTGAGGC
1 TAGAAGTTCTATAGTGATTCAAGATCTAAACATCGAGATTGAGGC
31042812 TAGAAGTTCTATAGTGATTCAAGATCTAAACATCGAGATTGAGGC
1 TAGAAGTTCTATAGTGATTCAAGATCTAAACATCGAGATTGAGGC
31042857 GTACTTACCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (45 bp):
TAGAAGTTCTATAGTGATTCAAGATCTAAACATCGAGATTGAGGC
Found at i:31043240 original size:24 final size:24
Alignment explanation
Indices: 31043176--31043252 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
31043166 CCTAGAATTT
31043176 AAAGG-AATTTTTGAAGAAAAATA
1 AAAGGAAATTTTTGAAGAAAAATA
*
31043199 AAAGGGATGATTTTTGAAGAAAAATA
1 AAA-GGA-AATTTTTGAAGAAAAATA
31043225 AAAGGAAATTTTTGAAGAAAAATA
1 AAAGGAAATTTTTGAAGAAAAATA
31043249 AAAG
1 AAAG
31043253 TTTTGGGCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
23 3 0.06
24 23 0.47
25 3 0.06
26 20 0.41
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAGGAAATTTTTGAAGAAAAATA
Found at i:31045912 original size:43 final size:42
Alignment explanation
Indices: 31045832--31045912 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 42
31045822 TGTGATTTGA
* * **
31045832 GTTGGTTTGGGTTTGAAATTGATTCGGGAATCAATTAAGAAG
1 GTTGGTTTGGGTTAGAAATCGATTCAAGAATCAATTAAGAAG
* *
31045874 GTTGGTTTAGGGTTAGAAATCGATTCAATAATCGATTAA
1 GTTGGTTT-GGGTTAGAAATCGATTCAAGAATCAATTAA
31045913 CAGGGTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 8 0.25
43 24 0.75
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (42 bp):
GTTGGTTTGGGTTAGAAATCGATTCAAGAATCAATTAAGAAG
Found at i:31046147 original size:6 final size:6
Alignment explanation
Indices: 31046138--31046182 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
31046128 TTCAATTTCA
*
31046138 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT
31046183 ACAATTTCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (6 bp):
ATTTTG
Found at i:31046153 original size:18 final size:18
Alignment explanation
Indices: 31046132--31046171 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
31046122 GGTTATTTCA
31046132 ATTTCAATTTTGATTTTG
1 ATTTCAATTTTGATTTTG
**
31046150 ATTTTGATTTTGATTTTG
1 ATTTCAATTTTGATTTTG
31046168 ATTT
1 ATTT
31046172 TGATTTCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (18 bp):
ATTTCAATTTTGATTTTG
Found at i:31047350 original size:26 final size:25
Alignment explanation
Indices: 31047302--31047384 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 25
31047292 TTGGTGTGTA
* *
31047302 TGACTGTTTTTTAATATACATGCTG
1 TGACTATTTTTTAATATACATGCAG
**
31047327 TTGACTATTTTTTAATATGTATGCAG
1 -TGACTATTTTTTAATATACATGCAG
*
31047353 TGAGTATTTTTTTAATAATATGCATGCAG
1 TGACTA-TTTTTTAAT-ATA--CATGCAG
31047382 TGA
1 TGA
31047385 TTGTTGGTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.11
26 30 0.65
27 2 0.04
29 9 0.20
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (25 bp):
TGACTATTTTTTAATATACATGCAG
Found at i:31047456 original size:25 final size:25
Alignment explanation
Indices: 31047402--31047479 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
31047392 TGTGTATGAA
* **
31047402 TATTTTTTAATATACATGTTGTTGAC
1 TATTTTTTAATATGCATGCAG-TGAC
*
31047428 TATTTTTTAATATGCATGCAGTGAG
1 TATTTTTTAATATGCATGCAGTGAC
31047453 TATTTTTTAATAATATGCATGCAGTGA
1 TA-TTTTT--TAATATGCATGCAGTGA
31047480 TTGTTGGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.11
26 23 0.51
28 17 0.38
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (25 bp):
TATTTTTTAATATGCATGCAGTGAC
Found at i:31047480 original size:95 final size:96
Alignment explanation
Indices: 31047272--31047536 Score: 487
Period size: 96 Copynumber: 2.8 Consensus size: 96
31047262 GAGTGTTTTT
*
31047272 TAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGCTGTTGACTATTT
1 TAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGACTATTT
*
31047337 TTTAATATGTATGCAGTGAGTATTTTTTTAA
66 TTTAATATGCATGCAGTGAGTATTTTTTTAA
* *
31047368 TAATATGCATGCAGTGATTGTTGGTGTGTATGAATATTTTTTAATATACATGTTGTTGACTATTT
1 TAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGACTATTT
31047433 TTTAATATGCATGCAGTGAGTA-TTTTTTAA
66 TTTAATATGCATGCAGTGAGTATTTTTTTAA
31047463 TAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGACTATTT
1 TAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGACTATTT
31047528 TTTAATATG
66 TTTAATATG
31047537 TGTATGAATA
Statistics
Matches: 163, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
95 80 0.49
96 83 0.51
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.48
Consensus pattern (96 bp):
TAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGACTATTT
TTTAATATGCATGCAGTGAGTATTTTTTTAA
Found at i:31047620 original size:28 final size:28
Alignment explanation
Indices: 31047577--31047631 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
31047567 AACTATTTTT
*
31047577 TAATATGCATGCAGTGAGTATTTTTTAA
1 TAATATGCATGCAGTGACTATTTTTTAA
* *
31047605 TAATATGCATGTAGTGACTGTTTTTTA
1 TAATATGCATGCAGTGACTATTTTTTA
31047632 GGTGCGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.45
Consensus pattern (28 bp):
TAATATGCATGCAGTGACTATTTTTTAA
Found at i:31048323 original size:21 final size:20
Alignment explanation
Indices: 31048299--31048368 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
31048289 CAAGTGGTTG
31048299 CCCCAACTCAACAACAGGCTA
1 CCCCAACTC-ACAACAGGCTA
* *
31048320 CCCCAAATCAGCAAGAGAG-TA
1 CCCCAACTCA-CAACAG-GCTA
31048341 CCCCAACT--CAACAGGCTA
1 CCCCAACTCACAACAGGCTA
31048359 CCCCAACTCA
1 CCCCAACTCA
31048369 GTTACAAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 1 0.03
18 15 0.38
20 1 0.03
21 22 0.55
22 1 0.03
ACGTcount: A:0.37, C:0.41, G:0.11, T:0.10
Consensus pattern (20 bp):
CCCCAACTCACAACAGGCTA
Found at i:31048362 original size:18 final size:18
Alignment explanation
Indices: 31048310--31048368 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
31048300 CCCAACTCAA
*
31048310 CAACAGGCTACCCCAAAT
1 CAACAGGCTACCCCAACT
* *
31048328 CAGCAAGAGAGTACCCCAACT
1 CAAC-AG-G-CTACCCCAACT
31048349 CAACAGGCTACCCCAACT
1 CAACAGGCTACCCCAACT
31048367 CA
1 CA
31048369 GTTACAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 15 0.45
19 3 0.09
20 3 0.09
21 12 0.36
ACGTcount: A:0.37, C:0.39, G:0.14, T:0.10
Consensus pattern (18 bp):
CAACAGGCTACCCCAACT
Found at i:31062027 original size:43 final size:43
Alignment explanation
Indices: 31061951--31062178 Score: 253
Period size: 42 Copynumber: 5.3 Consensus size: 43
31061941 ACGTCGCTAA
* * *
31061951 CTTTTGCGGCGCTTACAGAAAAAAACGCTGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAGGTCATGTT
* *
31061995 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * ** *
31062038 CTTTAGCGGCGCTT-GGGAAAAAACGCCGTTAAAGAACATGAT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * *
31062080 CTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * * * *
31062123 CTATAGCGACGCTT-GGTAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* *
31062165 CTTTAACGGTGCTT
1 CTTTAGCGGCGCTT
31062179 CATCTACAAA
Statistics
Matches: 157, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 73 0.46
43 70 0.45
44 14 0.09
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
Found at i:31062071 original size:85 final size:85
Alignment explanation
Indices: 31061970--31062178 Score: 267
Period size: 85 Copynumber: 2.5 Consensus size: 85
31061960 CGCTTACAGA
* * *
31061970 AAAAAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCT-AATGATCA
1 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAA
* *
31062034 TGTTCTTTAGCGGCGCTTGGG
65 TGTTCTATAGCGACGCTTGGG
* ** * *
31062055 AAAAAACGCCGTTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAAT
1 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
*
31062120 GTTCTATAGCGACGCTTGGT
66 GTTCTATAGCGACGCTTGGG
* * * *
31062140 AAAAAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTT
1 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
31062179 CATCTACAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 100 0.97
86 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (85 bp):
AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
GTTCTATAGCGACGCTTGGG
Found at i:31062231 original size:43 final size:43
Alignment explanation
Indices: 31062101--31062235 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 43
31062091 TTTAGGAAAA
* * * ** * *
31062101 AAACGCCGCTAAAAGTAATGTTCTATAGCGACGCTTGGT-AAA
1 AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCTAC
*
31062143 AAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTAC
1 AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCTAC
* * ** *
31062186 AAACGTCGCTAAAAGTAGTGTTCTTTCGCGGCGCTT-ATTTCAC
1 AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCT-AC
31062229 AAACGCC
1 AAACGCC
31062236 ACTATATGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.47
43 40 0.53
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCTAC
Found at i:31062675 original size:12 final size:12
Alignment explanation
Indices: 31062658--31062685 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31062648 TTTTGAACCT
31062658 CTGCTTCTCTCG
1 CTGCTTCTCTCG
31062670 CTGCTTCTCTCG
1 CTGCTTCTCTCG
31062682 CTGC
1 CTGC
31062686 AGCCTCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:31062694 original size:21 final size:21
Alignment explanation
Indices: 31062670--31062714 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31062660 GCTTCTCTCG
*
31062670 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* *
31062691 CTGCTTCCCTCGTTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
31062712 CTG
1 CTG
31062715 TTTTAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.44, G:0.20, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:31062924 original size:43 final size:43
Alignment explanation
Indices: 31062794--31062928 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 43
31062784 TTTAGGAAAA
* * * ** * *
31062794 AAACGCCGCTAAAAGTAATGTTCTATAGCGACGCTTGGT-AAA
1 AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCTAC
*
31062836 AAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTAC
1 AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCTAC
* * ** *
31062879 AAACGTCGCTAAAAGTAGTGTTCTTTCGCGGCGCTT-ATTTCAC
1 AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCT-AC
31062922 AAACGCC
1 AAACGCC
31062929 ACTATATGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.47
43 40 0.53
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTAATGTTCTTTAACGGCGCTTCATCTAC
Found at i:31063299 original size:692 final size:693
Alignment explanation
Indices: 31062066--31063450 Score: 2709
Period size: 692 Copynumber: 2.0 Consensus size: 693
31062056 AAAAACGCCG
31062066 TTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCG
1 TTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCG
31062131 ACGCTTGGTAAAAAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTACAAACGTCGCT
66 ACGCTTGGTAAAAAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTACAAACGTCGCT
31062196 AAAAGTAGTGTTCTTTCGCGGCGCTTATTTCACAAACGCCACTATATGATATGACTTTTAGCGGC
131 AAAAGTAGTGTTCTTTCGCGGCGCTTATTTCACAAACGCCACTATATGATATGACTTTTAGCGGC
31062261 GCTTTTTTAAAAAACGCCACTAATTTTGGGATTTTTTAAAAATAAAATTGTCTGTTTTTTTCAAC
196 GCTTTTTTAAAAAACGCCACTAATTTTGGGATTTTTTAAAAATAAAATTGTCTGTTTTTTTCAAC
* * *
31062326 CCTCCTGCAACAACAAATCAAAAGCAATCAGATCTAACCTAACCAAAAACAATAAATTTATATAA
261 CCTCCTGCAACAACAAATCAAAAGCAACCACATCTAAACTAACCAAAAACAATAAATTTATATAA
31062391 TATTTCAAATTAAATGACTAAAATAATATTAATATCAATAAATAAAAGTGAATTCATACTTTTCT
326 TATTTCAAATTAAATGACTAAAATAATATTAATATCAATAAATAAAAGTGAATTCATACTTTTCT
31062456 TTACAAAAACGTTAAAAGTTCAAATGATAAAAATATTTATGCAATATACACTATGACGGTGGAAG
391 TTACAAAAACGTTAAAAGTTCAAATGATAAAAATATTTATGCAATATACACTATGACGGTGGAAG
31062521 TTGCGACTGCTGAAACATCTTCATCATAATCTGAAGCTGCAGTTGAAGTTCGTCGTACTTTTTTC
456 TTGCGACTGCTGAAACATCTTCATCATAATCTGAAGCTGCAGTTGAAGTTCGTCGTACTTTTTTC
31062586 TCTGCTCTGCTTCTCTCGATGCCACATCTGCTTGAAGTTGTAGCTGTAGTTGTTCATATTTCTTT
521 TCTGCTCTGCTTCTCTCGATGCCACATCTGCTTGAAGTTGTAGCTGTAGTTGTTCATATTTCTTT
31062651 TGAACCTCTGCTTCTCTCGCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGTTGCCGCCTCTGT
586 TGAACCTCTGCTTCTCTCGCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGTTGCCGCCTCTGT
31062716 TTTAAGTTGTTGCTGAAGTTCTTCATATTTCCTTTGAACCTCA
651 TTTAAGTTGTTGCTGAAGTTCTTCATATTTCCTTTGAACCTCA
31062759 TTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCG
1 TTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCG
31062824 ACGCTTGGTAAAAAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTACAAACGTCGCT
66 ACGCTTGGTAAAAAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTACAAACGTCGCT
31062889 AAAAGTAGTGTTCTTTCGCGGCGCTTATTTCACAAACGCCACTATATGATATGACTTTTAGCGGC
131 AAAAGTAGTGTTCTTTCGCGGCGCTTATTTCACAAACGCCACTATATGATATGACTTTTAGCGGC
* **
31062954 GCTTTTTTAAAAAACGCCACTAATTTTGGGATTTTTT-AAAATAAAATTTTCTGTTTTTTTCTGC
196 GCTTTTTTAAAAAACGCCACTAATTTTGGGATTTTTTAAAAATAAAATTGTCTGTTTTTTTCAAC
31063018 CCTCCTGCAACAACAAATCAAAAGCAACCACATCTAAACTAACCAAAAACAATAAATTTATATAA
261 CCTCCTGCAACAACAAATCAAAAGCAACCACATCTAAACTAACCAAAAACAATAAATTTATATAA
31063083 TATTTCAAATTAAATGACTAAAATAATATTAATATCAATAAATAAAAGTGAATTCATACTTTTCT
326 TATTTCAAATTAAATGACTAAAATAATATTAATATCAATAAATAAAAGTGAATTCATACTTTTCT
31063148 TTACAAAAACGTTAAAAGTTCAAATGATAAAAATATTTATGCAATATACACTATGACGGTGGAAG
391 TTACAAAAACGTTAAAAGTTCAAATGATAAAAATATTTATGCAATATACACTATGACGGTGGAAG
31063213 TTGCGACTGCTGAAACATCTTCATCATAATCTGAAGCTGCAGTTGAAGTTCGTCGTACTTTTTTC
456 TTGCGACTGCTGAAACATCTTCATCATAATCTGAAGCTGCAGTTGAAGTTCGTCGTACTTTTTTC
31063278 TCTGCTCTGCTTCTCTCGATGCCACATCTGCTTGAAGTTGTAGCTGTAGTTGTTCATATTTCTTT
521 TCTGCTCTGCTTCTCTCGATGCCACATCTGCTTGAAGTTGTAGCTGTAGTTGTTCATATTTCTTT
31063343 TGAACCTCTGCTTCTCTCGCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGTTGCCGCCTCTGT
586 TGAACCTCTGCTTCTCTCGCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGTTGCCGCCTCTGT
31063408 TTTAAGTTGTTGCTGAAGTTCTTCATATTTCCTTTGAACCTCA
651 TTTAAGTTGTTGCTGAAGTTCTTCATATTTCCTTTGAACCTCA
31063451 AATGTGGTCG
Statistics
Matches: 686, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
692 454 0.66
693 232 0.34
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (693 bp):
TTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCG
ACGCTTGGTAAAAAACGCCGCTAAAAGTAATGTTCTTTAACGGTGCTTCATCTACAAACGTCGCT
AAAAGTAGTGTTCTTTCGCGGCGCTTATTTCACAAACGCCACTATATGATATGACTTTTAGCGGC
GCTTTTTTAAAAAACGCCACTAATTTTGGGATTTTTTAAAAATAAAATTGTCTGTTTTTTTCAAC
CCTCCTGCAACAACAAATCAAAAGCAACCACATCTAAACTAACCAAAAACAATAAATTTATATAA
TATTTCAAATTAAATGACTAAAATAATATTAATATCAATAAATAAAAGTGAATTCATACTTTTCT
TTACAAAAACGTTAAAAGTTCAAATGATAAAAATATTTATGCAATATACACTATGACGGTGGAAG
TTGCGACTGCTGAAACATCTTCATCATAATCTGAAGCTGCAGTTGAAGTTCGTCGTACTTTTTTC
TCTGCTCTGCTTCTCTCGATGCCACATCTGCTTGAAGTTGTAGCTGTAGTTGTTCATATTTCTTT
TGAACCTCTGCTTCTCTCGCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGTTGCCGCCTCTGT
TTTAAGTTGTTGCTGAAGTTCTTCATATTTCCTTTGAACCTCA
Found at i:31063367 original size:12 final size:12
Alignment explanation
Indices: 31063350--31063377 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31063340 TTTTGAACCT
31063350 CTGCTTCTCTCG
1 CTGCTTCTCTCG
31063362 CTGCTTCTCTCG
1 CTGCTTCTCTCG
31063374 CTGC
1 CTGC
31063378 AGCCTCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:31063386 original size:21 final size:21
Alignment explanation
Indices: 31063362--31063406 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31063352 GCTTCTCTCG
*
31063362 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* *
31063383 CTGCTTCCCTCGTTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
31063404 CTG
1 CTG
31063407 TTTTAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.44, G:0.20, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:31064253 original size:41 final size:41
Alignment explanation
Indices: 31064208--31064347 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
31064198 GCGCTTCGGC
* *
31064208 AAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGAT
1 AAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTTAGAT
* *
31064249 AAAAACGCCGCTAAAGATCC-GAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAG-GCCAGAGAATTAGCGGCGCTTAGAT
*
31064290 AAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCTTAGAT
1 AAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTTAGAT
31064331 AAAAACGCCGCTAAAGG
1 AAAAACGCCGCTAAAGG
31064348 TTTAAAAAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 2 0.02
41 86 0.96
42 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTTAGAT
Found at i:31064456 original size:20 final size:20
Alignment explanation
Indices: 31064431--31064472 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31064421 CTATTTTTAG
31064431 CGGCGCTTCTGG-GAAATCGC
1 CGGCGCTT-TGGCGAAATCGC
*
31064451 CGGCGCTTTGGCTAAATCGC
1 CGGCGCTTTGGCGAAATCGC
31064471 CG
1 CG
31064473 CTAATGCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.21
Consensus pattern (20 bp):
CGGCGCTTTGGCGAAATCGC
Found at i:31065060 original size:34 final size:34
Alignment explanation
Indices: 31065022--31065091 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
31065012 AATCTCAAAA
*
31065022 AACCCTAAA-CCTTACTTTAAATAAACAAAACACT
1 AACCCTAAATCC-TAATTTAAATAAACAAAACACT
*
31065056 AACCCTAAATCCTAATTTAAATAAACAAAACCCT
1 AACCCTAAATCCTAATTTAAATAAACAAAACACT
31065090 AA
1 AA
31065092 TGCGCTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (34 bp):
AACCCTAAATCCTAATTTAAATAAACAAAACACT
Found at i:31065859 original size:154 final size:149
Alignment explanation
Indices: 31065678--31065958 Score: 409
Period size: 149 Copynumber: 1.9 Consensus size: 149
31065668 TTGATCTTCT
* *
31065678 TAATGGTTAAAATTCAGTTTTAGTCCTTATCTTATATTCAATTTAAAATTTATTCTTAATTTTTT
1 TAATCGTTAAAATTCAGTTTTAGTCCTTATCTTATATTCAATTTAAAATTTATTC-----TTTAT
* * **
31065743 TATAATGTCATTAATTAGTCTAAATATTTTATTTTGATTAAAATGTTAACATAAATTTTTTAAAT
61 TACAATATCATTAATTAGTCTAAATATTTTATTTTGATTAAAATACTAACATAAATTTTTTAAAT
31065808 TTGCATCTTCTTAGGTTTATACAG
126 TTGCATCTTCTTAGGTTTATACAG
* * *
31065832 TAATCGTTACAATTCAGTTTTAGTCCTTATCTTATATTCAATTTGAATTTTATTCTTTATTACAA
1 TAATCGTTAAAATTCAGTTTTAGTCCTTATCTTATATTCAATTTAAAATTTATTCTTTATTACAA
* * *
31065897 TATCATTAATTAGTTTAAATATTTTATTTTGATTAAAATACTAACATGAATTTTTTAGATTT
66 TATCATTAATTAGTCTAAATATTTTATTTTGATTAAAATACTAACATAAATTTTTTAAATTT
31065959 ATTTATATCA
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
149 64 0.56
154 51 0.44
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (149 bp):
TAATCGTTAAAATTCAGTTTTAGTCCTTATCTTATATTCAATTTAAAATTTATTCTTTATTACAA
TATCATTAATTAGTCTAAATATTTTATTTTGATTAAAATACTAACATAAATTTTTTAAATTTGCA
TCTTCTTAGGTTTATACAG
Found at i:31079728 original size:13 final size:14
Alignment explanation
Indices: 31079710--31079739 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
31079700 TTTCAAACTT
31079710 TACTTATATAT-TA
1 TACTTATATATATA
31079723 TACTTATATATATA
1 TACTTATATATATA
31079737 TAC
1 TAC
31079740 ATATTTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (14 bp):
TACTTATATATATA
Found at i:31084149 original size:13 final size:13
Alignment explanation
Indices: 31084131--31084167 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
31084121 GAAAAATCTG
31084131 AAAAAATAAAATC
1 AAAAAATAAAATC
31084144 AAAAAATAAAATC
1 AAAAAATAAAATC
31084157 AAAAAATAAAA
1 AAAAAATAAAA
31084168 AATCAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAATC
Found at i:31084204 original size:43 final size:43
Alignment explanation
Indices: 31084122--31084218 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
31084112 TCAATCAAAG
* *
31084122 AAAAATCTGAAAAAATAAAATCAAAAAATAAAATCAAAAAATA
1 AAAAATCAGAAAAAATAAAATCAAAAAAAAAAATCAAAAAATA
* * *
31084165 AAAAATCAGGAAAAATCAAAAT-AAAAATAAAAAAT-AAAAATTG
1 AAAAATCAGAAAAAAT-AAAATCAAAAA-AAAAAATCAAAAAATA
*
31084208 AAAAATAAGAA
1 AAAAATCAGAA
31084219 TGATGAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
43 34 0.76
44 11 0.24
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.15
Consensus pattern (43 bp):
AAAAATCAGAAAAAATAAAATCAAAAAAAAAAATCAAAAAATA
Found at i:31084205 original size:13 final size:15
Alignment explanation
Indices: 31084138--31084204 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 15
31084128 CTGAAAAAAT
31084138 AAAATCAAAAAAT--
1 AAAATCAAAAAATAA
31084151 AAAATCAAAAAATAA
1 AAAATCAAAAAATAA
*
31084166 AAAATCAGGAAAAAT-C
1 AAAATCA--AAAAATAA
31084182 AAAAT--AAAAATAA
1 AAAATCAAAAAATAA
31084195 AAAAT-AAAAA
1 AAAATCAAAAA
31084205 TTGAAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.13
13 18 0.39
14 4 0.09
15 7 0.15
16 5 0.11
17 6 0.13
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATCAAAAAATAA
Found at i:31084211 original size:13 final size:13
Alignment explanation
Indices: 31084131--31084215 Score: 59
Period size: 13 Copynumber: 6.2 Consensus size: 13
31084121 GAAAAATCTG
31084131 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
31084143 CAAAAAAT-AAAAT
1 -AAAAAATAAAAAT
31084156 CAAAAAATAAAAAAT
1 -AAAAAAT-AAAAAT
*
31084171 CAGGAAAAATCAAAAT
1 -A--AAAAATAAAAAT
31084187 -AAAAATAAAAAAT
1 AAAAAAT-AAAAAT
*
31084200 AAAAATTGAAAAAT
1 AAAAAAT-AAAAAT
31084214 AA
1 AA
31084216 GAATGATGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
12 6 0.10
13 25 0.40
14 13 0.21
15 7 0.11
16 5 0.08
17 6 0.10
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:31084388 original size:42 final size:42
Alignment explanation
Indices: 31084328--31084449 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
31084318 CCAAAAAGGG
* *
31084328 CGGCTCAAATATTGATCAAAATGGGGTATGATGTGATCAGAA
1 CGGCTCAAATATTGATCAAAATGGGGCATGAGGTGATCAGAA
* *
31084370 TGGCTCAAATATTGATCAAAATGGGGCATGAGGTGATCAGAG
1 CGGCTCAAATATTGATCAAAATGGGGCATGAGGTGATCAGAA
* * *
31084412 CAGCTCAAATATTGATTAAAATGAGGCATGCA-GTGATC
1 CGGCTCAAATATTGATCAAAATGGGGCATG-AGGTGATC
31084450 TTGCTATACC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 70 0.99
43 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (42 bp):
CGGCTCAAATATTGATCAAAATGGGGCATGAGGTGATCAGAA
Found at i:31085742 original size:50 final size:50
Alignment explanation
Indices: 31085667--31086024 Score: 222
Period size: 50 Copynumber: 7.2 Consensus size: 50
31085657 ACAGTGGAAC
*
31085667 AGATTGAAGCCACGACGGC-AGATCTTGTTTCCCCGACATTGCAGTTAAAA
1 AGATTGAAGCCACGACGGCGA-ATCTTGTTTCCCTGACATTGCAGTTAAAA
* * ** * **** * ** *
31085717 AGATTAAAGCCACAACGGCGAATCTTACTTCCTTGGTGGTGTAGTGGAAC
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTAAAA
* * * *
31085767 AGATTGAAGCTACGATGGCGTATCTTGTTTCCC-GACATTGCAATTAAAA
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTAAAA
* ** * ** * *** *
31085816 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGGGGAAT
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTAAAA
* * * * * *
31085866 AGATTGAAGTCACGATGGCGAACCTTGTTTCCCTAACATTGTAGTTAAAT
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTAAAA
* * * ** * * ** *
31085916 ATATTGAAGTCACAACGGCGAATCTTACCTT-CCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCCACGACGGCGAATCTT-GTTTCCCTGACATTGCAGTTAAAA
* *
31085966 AGATTGAAGTCACGACGGCAAATCTTGTTTCTCC-GACATTGCAGTTAAACA
1 AGATTGAAGCCACGACGGCGAATCTTGTTTC-CCTGACATTGCAGTTAAA-A
31086017 A-ATTGAAG
1 AGATTGAAG
31086025 AAAATAATCC
Statistics
Matches: 220, Mismatches: 82, Indels: 12
0.70 0.26 0.04
Matches are distributed among these distances:
49 36 0.16
50 178 0.81
51 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTAAAA
Found at i:31085951 original size:100 final size:98
Alignment explanation
Indices: 31085659--31086024 Score: 468
Period size: 100 Copynumber: 3.7 Consensus size: 98
31085649 TTGGCATTAC
* *
31085659 AGTGGAACAGATTGAAGCCACGACGGC-AGATCTTGTTTCCCCGACATTGCAGTTAAAAAGATTA
1 AGTGGAACAGATTGAAGTCACGACGGCGA-ATCTTGTTT-CCCGACATTGCAGTTAAAAAGATTG
*
31085723 AAGCCACAACGGCGAATCTTACTTCCTTGGTGGTGT
64 AAGCCACAACGGCGAATCTTACTTCC-TGGCGGTGT
* * *
31085759 AGTGGAACAGATTGAAG-CTACGATGGCGTATCTTGTTTCCCGACATTGCAATTAAAAAGATTGA
1 AGTGGAACAGATTGAAGTC-ACGACGGCGAATCTTGTTTCCCGACATTGCAGTTAAAAAGATTGA
31085823 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
65 AGCCACAACGGCGAATCTTACTT-CCTGGCGGTGT
* * * * * * * *
31085858 AGGGGAATAGATTGAAGTCACGATGGCGAACCTTGTTTCCCTAACATTGTAGTTAAATATATTGA
1 AGTGGAACAGATTGAAGTCACGACGGCGAATCTTGTTTCCC-GACATTGCAGTTAAAAAGATTGA
* * *
31085923 AGTCACAACGGCGAATCTTACCTTCCTGGCAGTGC
65 AGCCACAACGGCGAATCTTA-CTTCCTGGCGGTGT
*
31085958 AGTGGAACAGATTGAAGTCACGACGGCAAATCTTGTTTCTCCGACATTGCAGTTAAACAA-ATTG
1 AGTGGAACAGATTGAAGTCACGACGGCGAATCTTGTTTC-CCGACATTGCAGTTAAA-AAGATTG
31086022 AAG
64 AAG
31086025 AAAATAATCC
Statistics
Matches: 233, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
99 91 0.39
100 136 0.58
101 6 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (98 bp):
AGTGGAACAGATTGAAGTCACGACGGCGAATCTTGTTTCCCGACATTGCAGTTAAAAAGATTGAA
GCCACAACGGCGAATCTTACTTCCTGGCGGTGT
Found at i:31085974 original size:199 final size:200
Alignment explanation
Indices: 31085662--31086024 Score: 493
Period size: 199 Copynumber: 1.8 Consensus size: 200
31085652 GCATTACAGT
* *
31085662 GGAACAGATTGAAGCCACGACGGCAGATCTTGTTTCCCCGACATTGCAGTTAAAAAGATTAAAGC
1 GGAACAGATTGAAGCCACGACGGCAGACCTTGTTTCCCCAACATTGCAGTTAAAAAGATTAAAGC
** * * **
31085727 CACAACGGCGAATCTTACTTCCTTGGTGGTGTAGTGGAACAGATTGAAG-CTACGATGGCGTATC
66 CACAACGGCGAATCTTACTTCCTTGGCAGTGCAGTGGAACAGATTGAAGTC-ACGACGGCAAATC
31085791 TTGTTTC-CCGACATTGCAATTAAA-AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCG
130 TTGTTTCTCCGACATTGCAATTAAACAA-ATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCG
31085854 GTGTAGG
194 GTGTAGG
* * * * * * * *
31085861 GGAATAGATTGAAGTCACGATGGC-GAACCTTGTTTCCCTAACATTGTAGTTAAATATATTGAAG
1 GGAACAGATTGAAGCCACGACGGCAG-ACCTTGTTTCCCCAACATTGCAGTTAAAAAGATTAAAG
*
31085925 TCACAACGGCGAATCTTACCTTCC-TGGCAGTGCAGTGGAACAGATTGAAGTCACGACGGCAAAT
65 CCACAACGGCGAATCTTA-CTTCCTTGGCAGTGCAGTGGAACAGATTGAAGTCACGACGGCAAAT
*
31085989 CTTGTTTCTCCGACATTGCAGTTAAACAAATTGAAG
129 CTTGTTTCTCCGACATTGCAATTAAACAAATTGAAG
31086025 AAAATAATCC
Statistics
Matches: 141, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
198 1 0.01
199 109 0.77
200 29 0.21
201 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (200 bp):
GGAACAGATTGAAGCCACGACGGCAGACCTTGTTTCCCCAACATTGCAGTTAAAAAGATTAAAGC
CACAACGGCGAATCTTACTTCCTTGGCAGTGCAGTGGAACAGATTGAAGTCACGACGGCAAATCT
TGTTTCTCCGACATTGCAATTAAACAAATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGT
GTAGG
Found at i:31086147 original size:41 final size:41
Alignment explanation
Indices: 31086035--31086265 Score: 130
Period size: 41 Copynumber: 5.5 Consensus size: 41
31086025 AAAATAATCC
* * * *
31086035 TATCTCCCTGAAA-TTGCAGTGGAGCGGATTAAAATCGGATCT
1 TATCTCCCT-AAAGTTGCAGTAGAGCAGATTAGAATCAG-TCT
* * * * *
31086077 TATCTCTCTAAAGTTGTAGAAGAGTAGATT-GCATCCAGTCT
1 TATCTCCCTAAAGTTGCAGTAGAGCAGATTAGAAT-CAGTCT
* * *
31086118 TATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAAAAT-AATCC
1 TATCTCCCTAAAGTTGCAGTAGAGCAGATT--AG--AATCAGTCT
* *
31086162 TATCTTCCTGAAGTTGCAGTAGAGCAGATTA-ACATCAGATCT
1 TATCTCCCTAAAGTTGCAGTAGAGCAGATTAGA-ATCAG-TCT
* * * * * * *
31086204 TAGCTTCTCTGAAGTTACAGAAGAGCAGATT-GTATCCAATCT
1 TATC-TCCCTAAAGTTGCAGTAGAGCAGATTAGAAT-CAGTCT
*
31086246 TATCTCCCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGCAGT
31086266 GGAGTAAATT
Statistics
Matches: 143, Mismatches: 33, Indels: 27
0.70 0.16 0.13
Matches are distributed among these distances:
39 1 0.01
40 2 0.01
41 47 0.33
42 36 0.25
43 24 0.17
44 31 0.22
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (41 bp):
TATCTCCCTAAAGTTGCAGTAGAGCAGATTAGAATCAGTCT
Found at i:31086176 original size:44 final size:43
Alignment explanation
Indices: 31086022--31086321 Score: 162
Period size: 44 Copynumber: 7.0 Consensus size: 43
31086012 AAACAAATTG
* *
31086022 AAGAAAATAATCCTATCTCCCTGAAATTGCAGTGGAGCGGATT
1 AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
**** * * * * ** *
31086065 AA-AATCGGATCTTATCTCTCTAAAGTTGTAGAAGAGTAGATT
1 AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *** * * *
31086107 --GCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT
1 AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *
31086148 GAAGAAAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCAGATT
1 -AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* ** * * * * * **
31086192 AACATCA-GATCTTAGCTTCTCTGAAGTTACAGAAGAGCAGATT
1 AAGAAAATAATCCTATC-TCCCTGAAGTTGCAGTGGAGCAGATT
* *** * * *
31086235 --GTATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAATT
1 AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *
31086276 GAAGAAAATAATCCTATCTCCCTGAAGATGCAGTGGAGCGGATT
1 -AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
31086320 AA
1 AA
31086322 AAACGGATCT
Statistics
Matches: 185, Mismatches: 63, Indels: 18
0.70 0.24 0.07
Matches are distributed among these distances:
41 51 0.28
42 40 0.22
43 30 0.16
44 64 0.35
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
AAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
Found at i:31086264 original size:128 final size:127
Alignment explanation
Indices: 31086015--31086365 Score: 463
Period size: 128 Copynumber: 2.8 Consensus size: 127
31086005 TGCAGTTAAA
* * *
31086015 CAAATTGAAGAAAATAATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAATCGGATCTTAT
1 CAAATTGAAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTAG
** * *
31086080 CTCTCTAAAGTTGTAGAAGAGTAGATTGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAG
66 CTCTCTAAAGTTACAGAAGAGCAGATTGCATCCAATCTTATCTCCCTAAAGTTGCAGTGGAG
* * * * *
31086142 CAGATTGAAGAAAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCAGATTAACATCAGATCTTAG
1 CAAATTGAAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTAG
* * *
31086207 CTTCTCTGAAGTTACAGAAGAGCAGATTGTATCCAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 C-TCTCTAAAGTTACAGAAGAGCAGATTGCATCCAATCTTATCTCCCTAAAGTTGCAGTGGAG
* * * *
31086270 TAAATTGAAGAAAATAATCCTATCTCCCTGAAGATGCAGTGGAGCGGATTAAAAACGGATCTTA-
1 CAAATTGAAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTAG
* * * *
31086334 -TCTCTATGAGTTGCAGTAGAGCAGATCGCATC
66 CTCTCTA-AAGTTACAGAAGAGCAGATTGCATC
31086366 GGACTTAACT
Statistics
Matches: 192, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
125 5 0.03
126 20 0.10
127 58 0.30
128 109 0.57
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (127 bp):
CAAATTGAAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTAG
CTCTCTAAAGTTACAGAAGAGCAGATTGCATCCAATCTTATCTCCCTAAAGTTGCAGTGGAG
Found at i:31086877 original size:18 final size:18
Alignment explanation
Indices: 31086854--31086893 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
31086844 GCCGCATACT
31086854 CCACGTCACAGCAACCGC
1 CCACGTCACAGCAACCGC
*
31086872 CCACGTCGCAGCAACCGC
1 CCACGTCACAGCAACCGC
31086890 CCAC
1 CCAC
31086894 ATTCAGCAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.53, G:0.17, T:0.05
Consensus pattern (18 bp):
CCACGTCACAGCAACCGC
Found at i:31087796 original size:3 final size:3
Alignment explanation
Indices: 31087776--31087860 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
31087766 CCTCTATTTG
* * * * * *
31087776 TTA TTAA TTA TT- TTA TTA TTA -AA TTAA TTA TTT TTA CTA TTG CTC
1 TTA TT-A TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
31087821 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31087861 TCTATATTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.08
3 55 0.83
4 6 0.09
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:31087844 original size:17 final size:17
Alignment explanation
Indices: 31087822--31087856 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31087812 CTATTGCTCT
31087822 TATTATTATTATTATTA
1 TATTATTATTATTATTA
31087839 TATTATTATTATTATTA
1 TATTATTATTATTATTA
31087856 T
1 T
31087857 TATTTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:31087859 original size:20 final size:21
Alignment explanation
Indices: 31087777--31087859 Score: 91
Period size: 20 Copynumber: 4.0 Consensus size: 21
31087767 CTCTATTTGT
31087777 TATTAATTATT-TTATTATTA
1 TATTAATTATTATTATTATTA
* * * *
31087797 AATTAATTATTTTTACTATTGC
1 TATTAATTATTATTATTATT-A
*
31087819 TCTT-ATTATTATTATTATTA
1 TATTAATTATTATTATTATTA
31087839 TATT-ATTATTATTATTATTA
1 TATTAATTATTATTATTATTA
31087859 T
1 T
31087860 TTCTATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 30 0.58
21 20 0.38
22 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (21 bp):
TATTAATTATTATTATTATTA
Found at i:31088264 original size:25 final size:25
Alignment explanation
Indices: 31088226--31088273 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
31088216 TATTATACTT
*
31088226 ATATATATACATATT-TTGTAAATAC
1 ATATACATACATATTATT-TAAATAC
*
31088251 ATATACATATATATTATTTAAAT
1 ATATACATACATATTATTTAAAT
31088274 TAAAGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (25 bp):
ATATACATACATATTATTTAAATAC
Found at i:31097327 original size:227 final size:227
Alignment explanation
Indices: 31096932--31097383 Score: 859
Period size: 227 Copynumber: 2.0 Consensus size: 227
31096922 CAGCATTGTT
*
31096932 GATTCTTGACAAATAGGGCCGAAGGTGGTTAGATCCTCCATCATCCATGTTTTTCTTTGTTTCAT
1 GATTCTTGACAAATAAGGCCGAAGGTGGTTAGATCCTCCATCATCCATGTTTTTCTTTGTTTCAT
*
31096997 TAGTTATAATGTCTCAGCCCTTCTTCCCCTTGGGATTGGCTCCCACCACCCATAGTAGCCTCCTA
66 TAGTTATAATGTCTCAGCCCTTCTTCCCCTTGGGATTGGCCCCCACCACCCATAGTAGCCTCCTA
* *
31097062 TAGCTGTTAGTGTACGGCTACTCAATCATCTTCACACTGAGTTATGGGGGGTAACTTTAGAGTAT
131 TAGCTGTTAGTGTACGGCTACTCAATCATCTTCACACTGAGTAATAGGGGGTAACTTTAGAGTAT
31097127 CTCTTTTCAGAACAGACAGCAAAGGATCCATC
196 CTCTTTTCAGAACAGACAGCAAAGGATCCATC
31097159 GATTCTTGACAAATAAGGCCGAAGGTGGTTAGATCCTCCATCATCCATGTTTTTCTTTGTTTCAT
1 GATTCTTGACAAATAAGGCCGAAGGTGGTTAGATCCTCCATCATCCATGTTTTTCTTTGTTTCAT
*
31097224 TAGTTATAATGTCTGAGCCCTTCTTCCCCTTGGGATTGGCCCCCACCACCCATAGTAGCCTCCTA
66 TAGTTATAATGTCTCAGCCCTTCTTCCCCTTGGGATTGGCCCCCACCACCCATAGTAGCCTCCTA
31097289 TAGCTGTTAGTGTACGGCTACTCAATCATCTTCACACTGAGTAATAGGGGGTAACTTTAGAGTAT
131 TAGCTGTTAGTGTACGGCTACTCAATCATCTTCACACTGAGTAATAGGGGGTAACTTTAGAGTAT
31097354 CTCTTTTCAGAACAGACAGCAAAGGATCCA
196 CTCTTTTCAGAACAGACAGCAAAGGATCCA
31097384 ATCGTCTATC
Statistics
Matches: 220, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 220 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (227 bp):
GATTCTTGACAAATAAGGCCGAAGGTGGTTAGATCCTCCATCATCCATGTTTTTCTTTGTTTCAT
TAGTTATAATGTCTCAGCCCTTCTTCCCCTTGGGATTGGCCCCCACCACCCATAGTAGCCTCCTA
TAGCTGTTAGTGTACGGCTACTCAATCATCTTCACACTGAGTAATAGGGGGTAACTTTAGAGTAT
CTCTTTTCAGAACAGACAGCAAAGGATCCATC
Found at i:31097721 original size:51 final size:50
Alignment explanation
Indices: 31097639--31097743 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 50
31097629 GTAGCTATAA
* * *
31097639 ATCATTTGTTTATATTAAGTGTCCATGTGTTGTATGTATCAAGATAGGGG
1 ATCATTGGTTTATATTAAGTGTCCATGTGTTGCACGTATCAAGATAGGGG
* *
31097689 ATCATTGGTTTATATGTAAGTGTCCATTTGTTGCACGTATCAAGATAGGGT
1 ATCATTGGTTTATAT-TAAGTGTCCATGTGTTGCACGTATCAAGATAGGGG
31097740 ATCA
1 ATCA
31097744 AAACCAGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 14 0.29
51 35 0.71
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (50 bp):
ATCATTGGTTTATATTAAGTGTCCATGTGTTGCACGTATCAAGATAGGGG
Found at i:31100028 original size:61 final size:60
Alignment explanation
Indices: 31099961--31100151 Score: 167
Period size: 61 Copynumber: 3.2 Consensus size: 60
31099951 ATTTTATAGT
**
31099961 ATTATATATTATGATTTTAGTAAATTCATATAAGAATGCTTAATACTAAGAATTTTAACAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAA-AA
* ** * * * * * * **
31100022 ATTATATATT-TCTATTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-TATTTTATAGT
1 ATTATATATTAT-GATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGAATTTTA-AAA
*
31100081 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTA-AAA
31100142 ATTATATATT
1 ATTATATATT
31100152 TTTATTAAAT
Statistics
Matches: 96, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
58 5 0.05
59 29 0.30
60 19 0.20
61 39 0.41
62 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (60 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAAAA
Found at i:31100107 original size:120 final size:120
Alignment explanation
Indices: 31099917--31100182 Score: 478
Period size: 120 Copynumber: 2.2 Consensus size: 120
31099907 AAGTAAATTA
*
31099917 TAAATTATGTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
31099982 AAATTCATATAAGAATGCTTAATACTAAGAATTTTAACAAATTATATATTTCTAT
66 AAATTCATATAAGAATACTTAATACTAAGAATTTTAACAAATTATATATTTCTAT
31100037 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* ** *
31100102 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATACTTAATACTAAGAATTTTAACAAATTATATATTTCTAT
31100157 TAAATTATATTTAATAATAATTATTT
1 TAAATTATATTTAATAATAATTATTT
31100183 ATTATTTATA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 140 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATACTTAATACTAAGAATTTTAACAAATTATATATTTCTAT
Found at i:31100205 original size:21 final size:21
Alignment explanation
Indices: 31100164--31100207 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31100154 TATTAAATTA
*
31100164 TATTTAATAATAATTATTTAT
1 TATTTAATAATAATAATTTAT
*
31100185 TATTT-ATATTAATAATCTTAT
1 TATTTAATAATAATAAT-TTAT
31100206 TA
1 TA
31100208 AAATTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTAATAATAATAATTTAT
Found at i:31100397 original size:46 final size:44
Alignment explanation
Indices: 31100304--31100397 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
31100294 ATTACAACAT
*
31100304 CATTCCATTCAACCAAATACAAGAATACCATTACGCCTCTATTC
1 CATTCCATTCAACCAAATAAAAGAATACCATTACGCCTCTATTC
*
31100348 CATTCCATTCAACCAAATAAAAGGATTACCTATTACGCCTCTATTC
1 CATTCCATTCAACCAAATAAAA-GAATACC-ATTACGCCTCTATTC
31100394 CATT
1 CATT
31100398 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 21 0.46
45 6 0.13
46 19 0.41
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCCATTCAACCAAATAAAAGAATACCATTACGCCTCTATTC
Found at i:31100404 original size:16 final size:16
Alignment explanation
Indices: 31100379--31100416 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
31100369 AGGATTACCT
*
31100379 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
31100395 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
31100411 ATTACA
1 ATTACA
31100417 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:31101507 original size:20 final size:21
Alignment explanation
Indices: 31101470--31101508 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31101460 TATATGCAGT
*
31101470 ACAAATTTATATTAATTTAAA
1 ACAAACTTATATTAATTTAAA
31101491 ACAAACTTATA-TAATTTA
1 ACAAACTTATATTAATTTA
31101509 TTCAACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (21 bp):
ACAAACTTATATTAATTTAAA
Found at i:31105486 original size:5 final size:5
Alignment explanation
Indices: 31105476--31105514 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
31105466 TCCTAATATG
* *
31105476 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
31105515 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:31105982 original size:25 final size:26
Alignment explanation
Indices: 31105954--31106009 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
31105944 ACACACCGCA
31105954 GCTCTT-ATGAGCGTCCTGA-TATATG
1 GCTCTTCATGAGCGTCCTGATTA-ATG
*
31105979 GCTCTTCATGAGCTTCCTGATTAATG
1 GCTCTTCATGAGCGTCCTGATTAATG
31106005 GCTCT
1 GCTCT
31106010 CCGGAGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 20 0.71
27 2 0.07
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GCTCTTCATGAGCGTCCTGATTAATG
Found at i:31106114 original size:24 final size:24
Alignment explanation
Indices: 31106087--31106147 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
31106077 GGCTCTTTGA
*
31106087 AGCTACCTGTTATTGGCTCGCATG
1 AGCTTCCTGTTATTGGCTCGCATG
* **
31106111 AGCTTCCTGACTA-TGGCTCTTATG
1 AGCTTCCTG-TTATTGGCTCGCATG
31106135 AGCTTCCTGTTAT
1 AGCTTCCTGTTAT
31106148 ACAGTCCGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
AGCTTCCTGTTATTGGCTCGCATG
Found at i:31106232 original size:27 final size:27
Alignment explanation
Indices: 31106160--31106238 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
31106150 AGTCCGGATA
*
31106160 AGCTTCCCATTATATGGCTC-ACA-AG
1 AGCTTCCCATTATATGGCTCGAAAGAG
* *
31106185 AGCTTCCTATTATATGACTCGAAAGAG
1 AGCTTCCCATTATATGGCTCGAAAGAG
*
31106212 AGCTTCCCATT-TATGTGCTCGTAAGAG
1 AGCTTCCCATTATATG-GCTCGAAAGAG
31106239 CATTCTTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 18 0.40
26 6 0.13
27 21 0.47
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
AGCTTCCCATTATATGGCTCGAAAGAG
Found at i:31109217 original size:16 final size:14
Alignment explanation
Indices: 31109181--31109238 Score: 98
Period size: 14 Copynumber: 4.0 Consensus size: 14
31109171 ATTACTATAC
31109181 TAAAAAATGTCTCG
1 TAAAAAATGTCTCG
31109195 TAAAAAATGTCTCG
1 TAAAAAATGTCTCG
31109209 TAAATAAAATGTCTCG
1 T-AA-AAAATGTCTCG
31109225 TAAAAAATGTCTCG
1 TAAAAAATGTCTCG
31109239 GGACTTCCTG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 26 0.62
15 4 0.10
16 12 0.29
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TAAAAAATGTCTCG
Found at i:31113537 original size:21 final size:22
Alignment explanation
Indices: 31113513--31113557 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
31113503 AGAAAAAGAG
31113513 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
31113534 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
31113556 AA
1 AA
31113558 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:31116466 original size:67 final size:67
Alignment explanation
Indices: 31116358--31116595 Score: 386
Period size: 67 Copynumber: 3.6 Consensus size: 67
31116348 GTCCAAAAAG
*
31116358 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGGTTCCTTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGGTTCCTTGCAA
31116423 CA
66 CA
*
31116425 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGGTTCCTTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGGTTCCTTGCAA
31116490 CA
66 CA
* * * *
31116492 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGGTTCCTTGCAA
*
31116557 TA
66 CA
* * *
31116559 GAATAATACGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAA
31116596 AGACAAGTGA
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 161 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19
Consensus pattern (67 bp):
AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGGTTCCTTGCAA
CA
Found at i:31116579 original size:35 final size:33
Alignment explanation
Indices: 31116355--31116595 Score: 272
Period size: 35 Copynumber: 7.2 Consensus size: 33
31116345 CAGGTCCAAA
*
31116355 AAGAAATAATACATGAACAGGAGAGATTCCCTGC
1 AAGAAATAAT-CGTGAACAGGAGAGATTCCCTGC
* * *
31116389 AAGAAATGAT-GTGAACAGGAGAGGTTCCTTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
*
31116421 AACAAAATAATGCGTGAACAGGAGAGATTCCCTGC
1 AA-GAAATAAT-CGTGAACAGGAGAGATTCCCTGC
* * *
31116456 AAGAAATGAT-GTGAACAGGAGAGGTTCCTTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
*
31116488 AACAAAATAATGCGTGAACAGGAGAGATTCCCTGC
1 AA-GAAATAAT-CGTGAACAGGAGAGATTCCCTGC
* *
31116523 AAGAAATGAT-GTGAACAGGAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
* * *
31116555 AATAGAATAATACGTGAACAGGAAATATTCCCTGC
1 AAGA-AATAAT-CGTGAACAGGAGAGATTCCCTGC
31116590 AAGAAA
1 AAGAAA
31116596 AGACAAGTGA
Statistics
Matches: 175, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
32 67 0.38
33 17 0.10
34 23 0.13
35 68 0.39
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (33 bp):
AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
Found at i:31118436 original size:18 final size:18
Alignment explanation
Indices: 31118401--31118448 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
31118391 ATAATTTATT
* *
31118401 TGATCGAACCAGAGGAAC
1 TGATCAAACCAGAAGAAC
*
31118419 TGATCAAACTAGAAGAAC
1 TGATCAAACCAGAAGAAC
*
31118437 TGATCAAGCCAG
1 TGATCAAACCAG
31118449 GAACGGGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (18 bp):
TGATCAAACCAGAAGAAC
Found at i:31119902 original size:3 final size:3
Alignment explanation
Indices: 31119894--31119931 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
31119884 TAGTGCAAAG
* *
31119894 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31119932 AAAAATACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:31119909 original size:12 final size:12
Alignment explanation
Indices: 31119894--31119931 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
31119884 TAGTGCAAAG
*
31119894 AATAATAATAAT
1 AATAACAATAAT
31119906 AATAACAATAAT
1 AATAACAATAAT
31119918 AATAACAATAAT
1 AATAACAATAAT
31119930 AA
1 AA
31119932 AAAAATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAACAATAAT
Found at i:31123387 original size:15 final size:16
Alignment explanation
Indices: 31123355--31123393 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
31123345 TTACTTGAAA
*
31123355 ATTCATTT-ATATATT
1 ATTCATTTCATATAGT
31123370 ATT-ATTTCATATAGT
1 ATTCATTTCATATAGT
31123385 ATTCATTTC
1 ATTCATTTC
31123394 TAACTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTCATTTCATATAGT
Found at i:31126385 original size:47 final size:47
Alignment explanation
Indices: 31126252--31126458 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
31126242 ATAGTAAAAT
** * *
31126252 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
31126301 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
31126347 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
31126394 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
31126446 TATGGTCTTATAC
1 TATGGTCTTATAC
31126459 GGAAATCACA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 27 0.21
47 55 0.42
48 10 0.08
49 11 0.08
52 27 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:31128129 original size:50 final size:50
Alignment explanation
Indices: 31128022--31128310 Score: 339
Period size: 50 Copynumber: 5.7 Consensus size: 50
31128012 ATTTGGGTAA
*
31128022 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
31128078 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
31128128 AGAGGTCCCATGTGATACCAAGTTTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
31128178 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
31128228 AGAACTCCCATGTAAGACCATATCTGGGATATGTCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* **
31128277 AAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG
31128311 TTTTGGCATG
Statistics
Matches: 204, Mismatches: 28, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
49 32 0.16
50 125 0.61
53 3 0.01
55 2 0.01
56 41 0.20
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:31129821 original size:24 final size:24
Alignment explanation
Indices: 31129772--31129840 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
31129762 CTTTATATCG
* *
31129772 GGAAGCTCATAAGAGCCATATTCA
1 GGAAGCTCATAAGAGCAATATACA
*
31129796 GGAAGCTCATATGAGCTAATA-ACA
1 GGAAGCTCATAAGAGC-AATATACA
*
31129820 GGTAGCTCCA-AAGAGCCAATA
1 GGAAGCT-CATAAGAG-CAATA
31129841 ATGGGAAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
24 31 0.84
25 6 0.16
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCAATATACA
Found at i:31138787 original size:11 final size:11
Alignment explanation
Indices: 31138771--31138846 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
31138761 GATAATCACT
31138771 TTAATATTAAA
1 TTAATATTAAA
31138782 TTAATA--AAA
1 TTAATATTAAA
*
31138791 -TACTATTAAGA
1 TTAATATTAA-A
*
31138802 TAAATATTAAA
1 TTAATATTAAA
31138813 TATAAT-TTAATA
1 T-TAATATTAA-A
31138825 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
31138838 ATAATATTA
1 TTAATATTA
31138847 TTTTTCCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 19 0.37
12 16 0.31
13 3 0.06
14 4 0.08
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:31138826 original size:48 final size:51
Alignment explanation
Indices: 31138751--31138846 Score: 135
Period size: 48 Copynumber: 1.9 Consensus size: 51
31138741 TAAATTAAAT
* * *
31138751 TAAATATTAAGATAATCACTTTAATATTAAATTAATAAAATACTATTAAGA
1 TAAATATTAAGATAATCAATTTAATATTAAACTAATAAAATAATATTAAGA
*
31138802 TAAATATTAA-AT-AT-AATTTAATATTAAACTATTAAAATAATATTA
1 TAAATATTAAGATAATCAATTTAATATTAAACTAATAAAATAATATTA
31138847 TTTTTCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 27 0.66
49 2 0.05
50 2 0.05
51 10 0.24
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (51 bp):
TAAATATTAAGATAATCAATTTAATATTAAACTAATAAAATAATATTAAGA
Found at i:31140468 original size:15 final size:15
Alignment explanation
Indices: 31140444--31140475 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31140434 TATGCATGCA
*
31140444 AAATATAAAAGACAT
1 AAATAAAAAAGACAT
31140459 AAATAAAAAAGACAT
1 AAATAAAAAAGACAT
31140474 AA
1 AA
31140476 CAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAGACAT
Found at i:31141981 original size:13 final size:13
Alignment explanation
Indices: 31141963--31141987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31141953 GAATTTACTT
31141963 GTGTGAAAATTTC
1 GTGTGAAAATTTC
31141976 GTGTGAAAATTT
1 GTGTGAAAATTT
31141988 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:31143033 original size:25 final size:25
Alignment explanation
Indices: 31142999--31143061 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
31142989 GAATGATATG
31142999 TATATATATGTATCATGTTCGAAAA
1 TATATATATGTATCATGTTCGAAAA
*
31143024 TATATCTATGTATCATGTTCGAAAA
1 TATATATATGTATCATGTTCGAAAA
31143049 TATATATATGTAT
1 TATATATATGTAT
31143062 AAATTCTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (25 bp):
TATATATATGTATCATGTTCGAAAA
Found at i:31143806 original size:41 final size:41
Alignment explanation
Indices: 31143745--31143885 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
31143735 GACTTTAAGT
*
31143745 CTAGCAGGCTAAGTGCCGGTGATCTGAATCATGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
31143786 CTAGCATGCTAAGTGTCGGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
31143827 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
31143868 CTAGCAGGCTAAGTGCCG
1 CTAGCAGGCTAAGTGCCG
31143886 ATGAATATGT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:31158296 original size:18 final size:19
Alignment explanation
Indices: 31158263--31158302 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31158253 TTTTTACACC
* *
31158263 AATTTTAATTAGTAATTGT
1 AATTTAAATTAGTAATTAT
31158282 AATTTAAATTA-TAATTAT
1 AATTTAAATTAGTAATTAT
31158300 AAT
1 AAT
31158303 AGCTTTTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
AATTTAAATTAGTAATTAT
Found at i:31158442 original size:44 final size:44
Alignment explanation
Indices: 31158391--31158479 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
31158381 ATAATTATAA
* **
31158391 ATTAAATTATAA-TTATTTTAAAATATTTAATTATCACAACTTCT
1 ATTAAATTAAAATTTA-TTTAAAATACATAATTATCACAACTTCT
* *
31158435 ATTAAATTAAAATTTATTTAAAATGCATAATTATCACAATTTCT
1 ATTAAATTAAAATTTATTTAAAATACATAATTATCACAACTTCT
31158479 A
1 A
31158480 CTTTATTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (44 bp):
ATTAAATTAAAATTTATTTAAAATACATAATTATCACAACTTCT
Found at i:31160021 original size:20 final size:21
Alignment explanation
Indices: 31159998--31160044 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
31159988 TTTCACATCA
*
31159998 ATTTAATAT-TAAAGAATAAT
1 ATTTAATATCAAAAGAATAAT
*
31160018 ATTTTATATCAAAAGAATAAT
1 ATTTAATATCAAAAGAATAAT
31160039 ATTTAA
1 ATTTAA
31160045 ATATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTTAATATCAAAAGAATAAT
Found at i:31160095 original size:30 final size:31
Alignment explanation
Indices: 31160041--31160160 Score: 108
Period size: 30 Copynumber: 3.9 Consensus size: 31
31160031 AGAATAATAT
31160041 TTAAATATATATTAAAATATTTTTATTTTTATA
1 TTAAA-ATATATTAAAATA-TTTTATTTTTATA
31160074 TTAAAATAT-TTAAAATATTTTATTTTTATA
1 TTAAAATATATTAAAATATTTTATTTTTATA
* ** *
31160104 TTTCATGAA-AT-TTAAAA-ATAATA-TTTGATA
1 -TT-A-AAATATATTAAAATATTTTATTTTTATA
*
31160134 TTAAATTATATTAAAATATTTT-TTTTT
1 TTAAAATATATTAAAATATTTTATTTTT
31160161 GTTATTCAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
27 1 0.01
28 3 0.04
29 8 0.11
30 25 0.35
31 14 0.20
32 13 0.18
33 7 0.10
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (31 bp):
TTAAAATATATTAAAATATTTTATTTTTATA
Found at i:31160097 original size:22 final size:21
Alignment explanation
Indices: 31160036--31160097 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
31160026 TCAAAAGAAT
*
31160036 AATATTTAAATA-TATATTAA
1 AATATTTAAATATTTTATTAA
** *
31160056 AATATTTTTATTTTTATATTAA
1 AATATTTAAATATTT-TATTAA
31160078 AATATTTAAAATATTTTATT
1 AATATTT-AAATATTTTATT
31160098 TTTATATTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 9 0.28
21 1 0.03
22 17 0.53
23 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTTAAATATTTTATTAA
Found at i:31170244 original size:14 final size:14
Alignment explanation
Indices: 31170225--31170253 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31170215 AACAAGCGAT
31170225 CCTTCTCATAAGAC
1 CCTTCTCATAAGAC
31170239 CCTTCTCATAAGAC
1 CCTTCTCATAAGAC
31170253 C
1 C
31170254 ATTAGATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.07, T:0.28
Consensus pattern (14 bp):
CCTTCTCATAAGAC
Found at i:31171036 original size:16 final size:16
Alignment explanation
Indices: 31171015--31171051 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
31171005 ACTAATATTT
31171015 TATAAATAAATTTAAA
1 TATAAATAAATTTAAA
*
31171031 TATAAATAAATTTATA
1 TATAAATAAATTTAAA
31171047 TATAA
1 TATAA
31171052 TTTATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAATAAATTTAAA
Found at i:31171329 original size:14 final size:13
Alignment explanation
Indices: 31171303--31171333 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31171293 AACATGAAAC
31171303 TTTTTAAAATTTT
1 TTTTTAAAATTTT
*
31171316 TTTTTAGAATTTT
1 TTTTTAAAATTTT
31171329 TTTTT
1 TTTTT
31171334 GTTTTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTTAAAATTTT
Found at i:31183062 original size:6 final size:6
Alignment explanation
Indices: 31183051--31183089 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
31183041 TGTGTGTGCA
*
31183051 TGTATG TGTATG TGTGTG TGTATG TGTATG TGTATG TGT
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGT
31183090 CTTTATTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (6 bp):
TGTATG
Found at i:31183064 original size:18 final size:18
Alignment explanation
Indices: 31183043--31183083 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
31183033 CACGCGTATG
31183043 TGTGTGCATGTATGTGTA
1 TGTGTGCATGTATGTGTA
**
31183061 TGTGTGTGTGTATGTGTA
1 TGTGTGCATGTATGTGTA
31183079 TGTGT
1 TGTGT
31183084 ATGTGTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.02, G:0.37, T:0.49
Consensus pattern (18 bp):
TGTGTGCATGTATGTGTA
Found at i:31192930 original size:188 final size:188
Alignment explanation
Indices: 31192613--31192990 Score: 756
Period size: 188 Copynumber: 2.0 Consensus size: 188
31192603 AACATAGTTT
31192613 TCCCTTTTAACTTAATGGTTTTGACTTTTGACTTTAGAAAAAGGTAAAGTTTTATCAAAATGGCA
1 TCCCTTTTAACTTAATGGTTTTGACTTTTGACTTTAGAAAAAGGTAAAGTTTTATCAAAATGGCA
31192678 TAGTTTTGCCTTTTCTTATTCAAATTTTCGGATAACTCGAATTGTGTAATTCATATTCGAGTTAA
66 TAGTTTTGCCTTTTCTTATTCAAATTTTCGGATAACTCGAATTGTGTAATTCATATTCGAGTTAA
31192743 ATCGAAAACTTAATTTTTTATTCGAGTTGATCCGAATAACTTGATTAACTCAAATAAA
131 ATCGAAAACTTAATTTTTTATTCGAGTTGATCCGAATAACTTGATTAACTCAAATAAA
31192801 TCCCTTTTAACTTAATGGTTTTGACTTTTGACTTTAGAAAAAGGTAAAGTTTTATCAAAATGGCA
1 TCCCTTTTAACTTAATGGTTTTGACTTTTGACTTTAGAAAAAGGTAAAGTTTTATCAAAATGGCA
31192866 TAGTTTTGCCTTTTCTTATTCAAATTTTCGGATAACTCGAATTGTGTAATTCATATTCGAGTTAA
66 TAGTTTTGCCTTTTCTTATTCAAATTTTCGGATAACTCGAATTGTGTAATTCATATTCGAGTTAA
31192931 ATCGAAAACTTAATTTTTTATTCGAGTTGATCCGAATAACTTGATTAACTCAAATAAA
131 ATCGAAAACTTAATTTTTTATTCGAGTTGATCCGAATAACTTGATTAACTCAAATAAA
31192989 TC
1 TC
31192991 GAACTATTTA
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (188 bp):
TCCCTTTTAACTTAATGGTTTTGACTTTTGACTTTAGAAAAAGGTAAAGTTTTATCAAAATGGCA
TAGTTTTGCCTTTTCTTATTCAAATTTTCGGATAACTCGAATTGTGTAATTCATATTCGAGTTAA
ATCGAAAACTTAATTTTTTATTCGAGTTGATCCGAATAACTTGATTAACTCAAATAAA
Found at i:31197157 original size:27 final size:27
Alignment explanation
Indices: 31197127--31197179 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
31197117 TTGGTTAAAG
31197127 AATTCCAAGTTTAAACTTGGACAATCA
1 AATTCCAAGTTTAAACTTGGACAATCA
**
31197154 AATTCTGAGTTTAAACTTGGACAATC
1 AATTCCAAGTTTAAACTTGGACAATC
31197180 CCTTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (27 bp):
AATTCCAAGTTTAAACTTGGACAATCA
Found at i:31202032 original size:40 final size:40
Alignment explanation
Indices: 31201988--31202251 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
31201978 GCTCCTCGTT
* *
31201988 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
31202028 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
31202068 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
31202108 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
31202148 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
31202187 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
31202228 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31202252 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31210079 original size:27 final size:27
Alignment explanation
Indices: 31210049--31210226 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31210039 ATATTGAGTC
* * * *
31210049 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31210076 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31210103 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31210131 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31210158 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31210185 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31210212 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31210227 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31210188 original size:82 final size:81
Alignment explanation
Indices: 31210070--31210225 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31210060 TGCTATATAA
* *
31210070 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31210135 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31210152 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31210216 CACTTAGTGC
65 CACTTAGTGC
31210226 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31210725 original size:12 final size:12
Alignment explanation
Indices: 31210708--31210734 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31210698 ATGGCATACT
31210708 TATGTATATATA
1 TATGTATATATA
31210720 TATGTATATATA
1 TATGTATATATA
31210732 TAT
1 TAT
31210735 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:31215104 original size:13 final size:15
Alignment explanation
Indices: 31215075--31215108 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
31215065 TTTAAATGAC
31215075 AATAAAAATGCTAAA
1 AATAAAAATGCTAAA
31215090 AATAAAAA-G-TAAA
1 AATAAAAATGCTAAA
31215103 AATAAA
1 AATAAA
31215109 GAAAGTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 1 0.05
15 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (15 bp):
AATAAAAATGCTAAA
Found at i:31220035 original size:20 final size:19
Alignment explanation
Indices: 31220006--31220093 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 19
31219996 TTTTATAGAA
*
31220006 TTTATTATATTTGTTATATT
1 TTTATAATATTT-TTATATT
*
31220026 TTTATAATATTTATA-AGTT
1 TTTATAATATTTTTATA-TT
* * *
31220045 TATATCA-ATTTTAATATT
1 TTTATAATATTTTTATATT
*
31220063 GTTA-AATATTTATTA-ATT
1 TTTATAATATTT-TTATATT
31220081 TTTATTAATATTT
1 TTTA-TAATATTT
31220094 GATTATTTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
17 1 0.02
18 20 0.39
19 12 0.24
20 18 0.35
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTATAATATTTTTATATT
Found at i:31220047 original size:37 final size:37
Alignment explanation
Indices: 31219982--31220085 Score: 92
Period size: 36 Copynumber: 2.8 Consensus size: 37
31219972 AAAAAATTAA
31219982 ATATATTTTATTAAT-TTTATAGAATTTATTATATTTGTT
1 ATAT-TTTTA-TAATATTTATA-AATTTATTATATTTGTT
* *
31220021 ATATTTTTATAATATTTATAAGTTTA-TATCAATTT-TA
1 ATATTTTTATAATATTTATAAATTTATTAT--ATTTGTT
* *
31220058 ATATTGTTA-AATATTTATTAATTT-TTAT
1 ATATTTTTATAATATTTATAAATTTATTAT
31220086 TAATATTTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
36 19 0.34
37 18 0.32
38 15 0.27
39 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.60
Consensus pattern (37 bp):
ATATTTTTATAATATTTATAAATTTATTATATTTGTT
Found at i:31220101 original size:20 final size:19
Alignment explanation
Indices: 31220022--31220101 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 19
31220012 ATATTTGTTA
31220022 TATTTTTA-TAATATTTAT
1 TATTTTTATTAATATTTAT
* * * *
31220040 AAGTTTATATCAAT-TTTAA
1 TA-TTTTTATTAATATTTAT
*
31220059 TATTGTTA--AATATTTAT
1 TATTTTTATTAATATTTAT
31220076 TAATTTTTATTAATATTTGAT
1 T-ATTTTTATTAATATTT-AT
31220097 TATTT
1 TATTT
31220102 AATCATTTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
16 3 0.07
17 5 0.11
18 11 0.24
19 10 0.22
20 14 0.30
21 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (19 bp):
TATTTTTATTAATATTTAT
Found at i:31223779 original size:5 final size:5
Alignment explanation
Indices: 31223769--31223793 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31223759 AAAACTTTTA
31223769 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
31223794 AACCCCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:31223927 original size:30 final size:31
Alignment explanation
Indices: 31223893--31223952 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
31223883 AAACCTTTTA
*
31223893 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
31223923 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
31223953 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:31226814 original size:30 final size:30
Alignment explanation
Indices: 31226778--31226842 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
31226768 CAACTTAACA
31226778 AACAAATGCCTATAAAATAATAACAAAATT
1 AACAAATGCCTATAAAATAATAACAAAATT
** *
31226808 AACAAATTTCTTTAAAATAATAACAAAATT
1 AACAAATGCCTATAAAATAATAACAAAATT
31226838 AACAA
1 AACAA
31226843 TAAAACAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (30 bp):
AACAAATGCCTATAAAATAATAACAAAATT
Found at i:31228503 original size:17 final size:17
Alignment explanation
Indices: 31228481--31228544 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
31228471 AATCTTAGAG
31228481 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
31228498 TTCTAATTATGTCTTAGAG-
1 TTCTAA-T-TGT-ATACAGC
31228517 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
31228534 TTTTAATTGTA
1 TTCTAATTGTA
31228545 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:31228520 original size:36 final size:36
Alignment explanation
Indices: 31228473--31228541 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
31228463 TGATTTTTAA
31228473 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
31228509 TCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATT
31228542 GTAGCCTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:31228522 original size:19 final size:18
Alignment explanation
Indices: 31228473--31228524 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
31228463 TGATTTTTAA
31228473 TCTTAGAGTTCTAA-TTG
1 TCTTAGAGTTCTAATTTG
* *
31228490 T-ATACAGCTTCTAATTATG
1 TCTTAGAG-TTCTAATT-TG
31228509 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
31228525 GTATACAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 1 0.04
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTTG
Found at i:31232579 original size:314 final size:314
Alignment explanation
Indices: 31232010--31232632 Score: 1084
Period size: 314 Copynumber: 2.0 Consensus size: 314
31232000 ATTGAGCTTG
* *
31232010 CCAAGGAGGGAAAAACAAGAAGGTTTTGGCTTGATGGGGAGCTAGTATACACTCATGGACACCGC
1 CCAAGGAGGGAAAAACAAGAAGATTTTGGCTTGATGAGGAGCTAGTATACACTCATGGACACCGC
31232075 CTCTATGTGCCCCATTATGGGAAACTCCGTAAGGAAGTAATGAAGGAATGTCATGACTCGAAATG
66 CTCTATGTGCCCCATTATGGGAAACTCCGTAAGGAAGTAATGAAGGAATGTCATGACTCGAAATG
* * * *
31232140 GGCAGGCCATCCAGGGATGCATCGCACTTTGGCCCTTTTGGAGGATCGCTATTATTGGCCTCACA
131 GGCAGGCCACCCAGGGATGCATCGCACTTTGGCCCTTTTGGAGGAACGCTATTACTGGCCTAACA
* * *
31232205 TGGGTGCTGATGTGGAAACCTATGTGAAAACTTGTCTAGTGTGCCAACAAGACAAGGTTGAGTTA
196 TGAGTGCTGATGTGGAAACCTATGTAAAAACTTGTCTAGTATGCCAACAAGACAAGGTTGAGTTA
*
31232270 AAGACTCCAGCCGGCTTGCTTCAACCCCTGCCAGTCCCAGAAAGGCCATGGGAA
261 AAGACTCCAGCCGGCTTGCTTCAACCCCTGCCAATCCCAGAAAGGCCATGGGAA
31232324 CCAAGGAGGGAAAAACAAGAAGATTTTGGCTTGATGAGGAGCTAGTATACACTCATGGACACCGC
1 CCAAGGAGGGAAAAACAAGAAGATTTTGGCTTGATGAGGAGCTAGTATACACTCATGGACACCGC
* *
31232389 CTCTATGTGCCCCATTATGGGAAACTCCGTAAGGAAGTCATGAAGGAGTGTCATGACTCGAAATG
66 CTCTATGTGCCCCATTATGGGAAACTCCGTAAGGAAGTAATGAAGGAATGTCATGACTCGAAATG
* *
31232454 GGCAGGCCACCCAGGGATGCATCGCACTTTGGCCTTTTTGGAGGAACGTTATTACTGGCCTAACA
131 GGCAGGCCACCCAGGGATGCATCGCACTTTGGCCCTTTTGGAGGAACGCTATTACTGGCCTAACA
31232519 TGAGTGCTGATGTGGAAACCTATGTAAAAACTTGTCTAGTATGCCAACAAGACAAGGTTGAGTTA
196 TGAGTGCTGATGTGGAAACCTATGTAAAAACTTGTCTAGTATGCCAACAAGACAAGGTTGAGTTA
* * * *
31232584 AAGACTCCAGCCGGTTTGCTTCAACCCTTGCCAATTCCGGAAAGGCCAT
261 AAGACTCCAGCCGGCTTGCTTCAACCCCTGCCAATCCCAGAAAGGCCAT
31232633 AGGAGAGTTT
Statistics
Matches: 291, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
314 291 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (314 bp):
CCAAGGAGGGAAAAACAAGAAGATTTTGGCTTGATGAGGAGCTAGTATACACTCATGGACACCGC
CTCTATGTGCCCCATTATGGGAAACTCCGTAAGGAAGTAATGAAGGAATGTCATGACTCGAAATG
GGCAGGCCACCCAGGGATGCATCGCACTTTGGCCCTTTTGGAGGAACGCTATTACTGGCCTAACA
TGAGTGCTGATGTGGAAACCTATGTAAAAACTTGTCTAGTATGCCAACAAGACAAGGTTGAGTTA
AAGACTCCAGCCGGCTTGCTTCAACCCCTGCCAATCCCAGAAAGGCCATGGGAA
Found at i:31233923 original size:17 final size:17
Alignment explanation
Indices: 31233901--31233964 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
31233891 AATCTTAGAG
31233901 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
31233918 TTCTAATTATGTCTTAGAG-
1 TTCTAA-T-TGT-ATACAGC
*
31233937 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAGC
*
31233954 TTTTAATTGTA
1 TTCTAATTGTA
31233965 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 3 0.08
17 19 0.51
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:31233934 original size:36 final size:36
Alignment explanation
Indices: 31233893--31233961 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
31233883 GATTATTTAA
*
31233893 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTATG
*
31233929 TCTTAGAGTTCTAATTGTATACAACTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATT
31233962 GTAGCCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTATG
Found at i:31233942 original size:19 final size:18
Alignment explanation
Indices: 31233893--31233944 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
31233883 GATTATTTAA
31233893 TCTTAGAGTTCTAA-TTG
1 TCTTAGAGTTCTAATTTG
* *
31233910 T-ATACAGCTTCTAATTATG
1 TCTTAGAG-TTCTAATT-TG
31233929 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
31233945 GTATACAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 1 0.04
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTTG
Done.