Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 80 of 322
Found at i:25506805 original size:27 final size:27
Alignment explanation
Indices: 25506734--25506823 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
25506724 TTAATTTCAC
* * *
25506734 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
25506761 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*** *
25506788 AATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
25506815 AGTCGAGGG
1 AATCGAGGG
25506824 CATTTCAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:25511994 original size:37 final size:37
Alignment explanation
Indices: 25511952--25512022 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
25511942 GGGACATGGC
**
25511952 GTCGGCATTGAGATG-AGAGTTAGTGTAAGACATGCAT
1 GTCGGCATTGAGATGTA-AGCCAGTGTAAGACATGCAT
*
25511989 GTCGGCCTTGAGATGTAAGCCAGTGTAAGACATG
1 GTCGGCATTGAGATGTAAGCCAGTGTAAGACATG
25512023 TCTGGGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (37 bp):
GTCGGCATTGAGATGTAAGCCAGTGTAAGACATGCAT
Found at i:25512170 original size:96 final size:94
Alignment explanation
Indices: 25512005--25512183 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 94
25511995 CTTGAGATGT
* *
25512005 AAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACATGATGTGTCAGTGTAAGACCATGTC
1 AAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGAGTCAGTGTAAGACCATGTC
25512070 TAGGACATGGCAT-GGCACGGATAAGTGA
66 TAGGACATGGCATCGGCACGGATAAGTGA
*
25512098 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTAACATGA-GAG-CTAGTGTAAGACC
1 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-T-ACATGATGAGTC-AGTGTAAGACC
25512161 ATGTCTAGGACATGGCATCGGCA
61 ATGTCTAGGACATGGCATCGGCA
25512184 TTATACCCTA
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
93 14 0.18
94 14 0.18
95 7 0.09
96 32 0.42
97 10 0.13
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (94 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGAGTCAGTGTAAGACCATGTC
TAGGACATGGCATCGGCACGGATAAGTGA
Found at i:25512172 original size:47 final size:48
Alignment explanation
Indices: 25512005--25512183 Score: 167
Period size: 47 Copynumber: 3.8 Consensus size: 48
25511995 CTTGAGATGT
* *
25512005 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AT-GATG-
1 AAGCCAGTGTAAGACCATGTCTAGGACATGGCAT-GGC-ACGATAAATGA
* * *
25512050 -TGTCAGTGTAAGACCATGTCTAGGACATGGCATGGCACGGATAAGTGA
1 AAGCCAGTGTAAGACCATGTCTAGGACATGGCATGGCAC-GATAAATGA
* * *
25512098 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATTG-AC-TTAACATGA
1 AAGCCAGTGTAAGACCATGTCTAGGACATGGCATGGCACGATAA-ATGA
* *
25512145 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 AAGCCAGTGTAAGACCATGTCTAGGACATGGCAT-GGCA
25512184 TTATACCCTA
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
44 13 0.12
45 16 0.15
46 9 0.08
47 36 0.33
48 3 0.03
49 32 0.29
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (48 bp):
AAGCCAGTGTAAGACCATGTCTAGGACATGGCATGGCACGATAAATGA
Found at i:25523496 original size:41 final size:42
Alignment explanation
Indices: 25523432--25523515 Score: 161
Period size: 41 Copynumber: 2.0 Consensus size: 42
25523422 TATTAAACCA
25523432 TGCAATTGTTCAAGTAATTGCACTGCAAAATCAAATGGGTTT
1 TGCAATTGTTCAAGTAATTGCACTGCAAAATCAAATGGGTTT
25523474 TGCAATTGTTC-AGTAATTGCACTGCAAAATCAAATGGGTTT
1 TGCAATTGTTCAAGTAATTGCACTGCAAAATCAAATGGGTTT
25523515 T
1 T
25523516 AGTATGGGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 31 0.74
42 11 0.26
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (42 bp):
TGCAATTGTTCAAGTAATTGCACTGCAAAATCAAATGGGTTT
Found at i:25526658 original size:11 final size:10
Alignment explanation
Indices: 25526638--25526670 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
25526628 ATATTTTTTC
25526638 AAACTTAATT
1 AAACTTAATT
25526648 AAACTTTAATT
1 AAAC-TTAATT
25526659 AAA-TTAATT
1 AAACTTAATT
25526668 AAA
1 AAA
25526671 ATAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 4 0.18
11 9 0.41
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (10 bp):
AAACTTAATT
Found at i:25533099 original size:17 final size:18
Alignment explanation
Indices: 25533039--25533109 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
25533029 TAAATATTAG
*
25533039 TAAAAGTTATAAAAA-AT
1 TAAAATTTATAAAAATAT
* *
25533056 TAAATATGTAAAAAAATAT
1 TAAA-ATTTATAAAAATAT
25533075 TAAAAATTTATAAAAATA-
1 T-AAAATTTATAAAAATAT
*
25533093 TAAAATTAATAAAAATA
1 TAAAATTTATAAAAATA
25533110 GACATTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
17 19 0.42
18 9 0.20
19 14 0.31
20 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATTTATAAAAATAT
Found at i:25533281 original size:19 final size:20
Alignment explanation
Indices: 25533259--25533297 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
25533249 GGTGTTCTAG
*
25533259 AATTATTAAAAAT-ATTAAT
1 AATTATAAAAAATCATTAAT
25533278 AATTATAAAAAATCATTAAT
1 AATTATAAAAAATCATTAAT
25533298 GTCGCATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTATAAAAAATCATTAAT
Found at i:25539414 original size:39 final size:39
Alignment explanation
Indices: 25539347--25539603 Score: 453
Period size: 39 Copynumber: 6.5 Consensus size: 39
25539337 ACAAAGCATG
* * *
25539347 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
25539387 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
25539427 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25539466 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25539505 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25539544 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25539583 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
25539604 TTCTCCATTA
Statistics
Matches: 213, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
39 192 0.90
40 21 0.10
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:25546226 original size:29 final size:30
Alignment explanation
Indices: 25546193--25546250 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
25546183 AAATAGATTT
*
25546193 TCAA-GCCTAGGGGTAAAATGATCATTTTG
1 TCAAGGCCTAGGGGCAAAATGATCATTTTG
* *
25546222 TCAAGGTCTAGGGGCAAAATGGTCATTTT
1 TCAAGGCCTAGGGGCAAAATGATCATTTT
25546251 ACCAAAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (30 bp):
TCAAGGCCTAGGGGCAAAATGATCATTTTG
Found at i:25546711 original size:47 final size:47
Alignment explanation
Indices: 25546642--25546860 Score: 186
Period size: 47 Copynumber: 4.7 Consensus size: 47
25546632 TGTGAGAGAC
* * *
25546642 AGTGCAAGACCA-GTTTGAGACATGGCATCGACATCGAGACGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGACGA-TAGCT
* *
25546689 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGAC-ATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGACGAT-AGCT
* *
25546735 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACGATAGCT
* *
25546780 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGAT-AGCT
* * * * *
25546828 TGTGTAAGAGCATGTTTAGGACATGACATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
25546861 ACCTTACCCC
Statistics
Matches: 145, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 62 0.43
47 69 0.48
48 9 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATAGCT
Found at i:25546726 original size:46 final size:45
Alignment explanation
Indices: 25546660--25546858 Score: 172
Period size: 46 Copynumber: 4.2 Consensus size: 45
25546650 ACCAGTTTGA
*
25546660 GACATGGCATCGACATCGAGACGAGT-GCTAGTGTAAGACATGTCTGG
1 GACAT-GCATCG-CCTCGAGACGA-TAGCTAGTGTAAGACATGTCTGG
*
25546707 GACATGCATCAGCCTCGAGAC-ATAAGCCAGTGTAAGACATGTCTGG
1 GACATGCATC-GCCTCGAGACGAT-AGCTAGTGTAAGACATGTCTGG
* *
25546753 GACATGCATCGGCTACGAGATGATAG-TCAGTGTAAGACCATGTCTGG
1 GACATGCATCGCCT-CGAGACGATAGCT-AGTGTAAGA-CATGTCTGG
* * * * * *
25546800 GACATGGCATCGACTTGAGA-TATGAGCTTGTGTAAGAGCATGTTTAG
1 GACAT-GCATCGCCTCGAGACGAT-AGCTAGTGTAAGA-CATGTCTGG
25546847 GACATGACATCG
1 GACATG-CATCG
25546859 ACACCTTACC
Statistics
Matches: 129, Mismatches: 12, Indels: 22
0.79 0.07 0.13
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 62 0.48
47 53 0.41
48 9 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GACATGCATCGCCTCGAGACGATAGCTAGTGTAAGACATGTCTGG
Found at i:25546757 original size:93 final size:96
Alignment explanation
Indices: 25546660--25546861 Score: 222
Period size: 93 Copynumber: 2.2 Consensus size: 96
25546650 ACCAGTTTGA
*
25546660 GACATGGCATCGACAT-CGAGACG--AGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
1 GACATGGCATCGACATACGAGACGATAGT-C-AGTGTAAGACCATGTCTGGGACATGGCATC-GA
*
25546720 CTCGAGACATAAGCCAGTGTAAGA-CATGTCTGG
63 CTCGAGACATAAGCCAGTGTAAGAGCATGTCTAG
* * *
25546753 GACAT-GCATCGGC-TACGAGATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTT
1 GACATGGCATCGACATACGAGACGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTC
* * ** *
25546816 GAGATATGAGCTTGTGTAAGAGCATGTTTAG
66 GAGACATAAGCCAGTGTAAGAGCATGTCTAG
*
25546847 GACATGACATCGACA
1 GACATGGCATCGACA
25546862 CCTTACCCCA
Statistics
Matches: 89, Mismatches: 12, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
91 1 0.01
92 22 0.25
93 40 0.45
94 20 0.22
95 6 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (96 bp):
GACATGGCATCGACATACGAGACGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTC
GAGACATAAGCCAGTGTAAGAGCATGTCTAG
Found at i:25550987 original size:30 final size:30
Alignment explanation
Indices: 25550943--25551031 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
25550933 CAAAGATAAC
*
25550943 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
25550972 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
25551002 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
25551032 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:25550991 original size:15 final size:14
Alignment explanation
Indices: 25550943--25551025 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
25550933 CAAAGATAAC
*
25550943 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
25550957 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
25550972 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
25550987 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
25551002 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
25551017 AAGAAACCC
1 AAGAAACCC
25551026 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:25551031 original size:15 final size:15
Alignment explanation
Indices: 25550954--25551031 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
25550944 AGAAAACCGA
25550954 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
25550969 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
25550983 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
25550998 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
25551014 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25551029 ATA
1 ATA
25551032 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25554087 original size:93 final size:93
Alignment explanation
Indices: 25553975--25554146 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25553965 GCCCATAAGT
* *
25553975 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25554040 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25554068 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25554133 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25554147 CAAACATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25554142 original size:46 final size:46
Alignment explanation
Indices: 25553967--25554142 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
25553957 TGTAACCCGC
* * *
25553967 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
25554013 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
25554063 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
25554106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25554143 TGCCCAAACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25562836 original size:46 final size:46
Alignment explanation
Indices: 25562783--25562905 Score: 169
Period size: 46 Copynumber: 2.6 Consensus size: 46
25562773 ATTGTGAGCT
25562783 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGAT-AGCC
* * *
25562829 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGATAGCC
25562875 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
25562906 ACTTGAGATA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
45 2 0.03
46 47 0.68
47 15 0.22
48 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGATAGCC
Found at i:25562914 original size:47 final size:45
Alignment explanation
Indices: 25562783--25562952 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 45
25562773 ATTGTGAGCT
* *
25562783 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATGATAAG-C
* *
25562829 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGATGATAAG-C
* *
25562875 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATGATAAGC
* * *
25562921 TTGTGTAAAACCTTGTCTGGGACATGGCATCG
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATCG
25562953 GCACCTTACC
Statistics
Matches: 108, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
45 3 0.03
46 48 0.44
47 50 0.46
48 7 0.06
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGATAAGC
Found at i:25566050 original size:13 final size:13
Alignment explanation
Indices: 25566032--25566056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25566022 TTTTAAAATC
25566032 ATTTTCATTTTTT
1 ATTTTCATTTTTT
25566045 ATTTTCATTTTT
1 ATTTTCATTTTT
25566057 GAGAAAACGA
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTCATTTTTT
Found at i:25571690 original size:14 final size:14
Alignment explanation
Indices: 25571668--25571701 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25571658 AATCTTAATC
*
25571668 TGTATTTATGTGTG
1 TGTAATTATGTGTG
25571682 TGTAATTATGTGTG
1 TGTAATTATGTGTG
25571696 TGTAAT
1 TGTAAT
25571702 CCTAATGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (14 bp):
TGTAATTATGTGTG
Found at i:25572575 original size:19 final size:19
Alignment explanation
Indices: 25572539--25572577 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25572529 TTTTCATCAT
* *
25572539 AGTAAAATAAAATAATAAA
1 AGTAAAAAAAAACAATAAA
*
25572558 AGTAAAAAAAAACCATAAA
1 AGTAAAAAAAAACAATAAA
25572577 A
1 A
25572578 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAAAAAAACAATAAA
Found at i:25573081 original size:55 final size:56
Alignment explanation
Indices: 25573016--25573130 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
25573006 AGCATGGCTG
* * *
25573016 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
25573072 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
25573127 CCAG
1 CCAG
25573131 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:25573127 original size:28 final size:27
Alignment explanation
Indices: 25573041--25573130 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
25573031 GTGACAGAGT
*
25573041 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
25573070 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
25573097 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
25573125 CACCAG
1 CACCAG
25573131 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:25573283 original size:28 final size:28
Alignment explanation
Indices: 25573236--25573300 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
25573226 AAATTAACCC
*
25573236 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
25573264 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
25573292 TAGGGGTAT
1 TAGGGGTAT
25573301 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:25575970 original size:26 final size:26
Alignment explanation
Indices: 25575941--25575993 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25575931 TTTCCTCAAC
25575941 TCCAAATGTCCAAAAACAGTTTCGCA
1 TCCAAATGTCCAAAAACAGTTTCGCA
25575967 TCCAAATGTCCAAAAACAGTTTCGCA
1 TCCAAATGTCCAAAAACAGTTTCGCA
25575993 T
1 T
25575994 AGTCTTGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (26 bp):
TCCAAATGTCCAAAAACAGTTTCGCA
Found at i:25579521 original size:40 final size:39
Alignment explanation
Indices: 25579472--25579670 Score: 245
Period size: 40 Copynumber: 5.0 Consensus size: 39
25579462 TAACCGGATA
* * * * *
25579472 TAGTTACTCGCTCGAATGCCTTCGGGGCATAGCCCGGTT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
* *
25579511 ATAGTAACTCGTACCAATGCCTTCGGGACTTAGCCCGGATT
1 -TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TT
* * *
25579552 TGGTAACTCGCACAAATGCCTTCAGGACTTAGCCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GGTT
*
25579592 TGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TT
* *
25579632 TAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGGTT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
25579671 ATCATCCGAA
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
Found at i:25588785 original size:218 final size:218
Alignment explanation
Indices: 25588407--25588841 Score: 843
Period size: 218 Copynumber: 2.0 Consensus size: 218
25588397 ATCACATTTC
* *
25588407 AAAAGTGTCACACAAGTCCTGTTGACTAAATTCACATGAAATTTACTAAATCGAAACTTAAAACT
1 AAAAGTGTCACACAAGTCCTATTGACTAAATTCACATGAAATTTACTAAATCAAAACTTAAAACT
25588472 TTCACACATTCATAATCACATATTTTAGACAATAAATATCATATTCAAATAATTCAGTGACTCGG
66 TTCACACATTCATAATCACATATTTTAGACAATAAATATCATATTCAAATAATTCAGTGACTCGG
25588537 TTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACATACTAAGTCTGTC
131 TTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACATACTAAGTCTGTC
25588602 TTAGTTTTGTACATGCCATTGGT
196 TTAGTTTTGTACATGCCATTGGT
25588625 AAAAGTGTCACACAAGTCCTATTGACTAAATTCACATGAAATTTACTAAATCAAAACTTAAAACT
1 AAAAGTGTCACACAAGTCCTATTGACTAAATTCACATGAAATTTACTAAATCAAAACTTAAAACT
*
25588690 TTCACACATTCATAATCACATATTTTAGACAATAAATATCATATTCAAATAATTCGGTGACTCGG
66 TTCACACATTCATAATCACATATTTTAGACAATAAATATCATATTCAAATAATTCAGTGACTCGG
25588755 TTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACATACTAAGTCTGTC
131 TTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACATACTAAGTCTGTC
25588820 TTAGTTTTGTACATGCCATTGG
196 TTAGTTTTGTACATGCCATTGG
25588842 GTGTACTCTG
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 214 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (218 bp):
AAAAGTGTCACACAAGTCCTATTGACTAAATTCACATGAAATTTACTAAATCAAAACTTAAAACT
TTCACACATTCATAATCACATATTTTAGACAATAAATATCATATTCAAATAATTCAGTGACTCGG
TTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACATACTAAGTCTGTC
TTAGTTTTGTACATGCCATTGGT
Found at i:25594627 original size:38 final size:38
Alignment explanation
Indices: 25594569--25594765 Score: 238
Period size: 38 Copynumber: 5.1 Consensus size: 38
25594559 ATTTGATGTG
*
25594569 TATCCGGGCTTAAAGACCCGCAGGCCTACTGCTGGTATTA
1 TATCCGGG-TTAAAGTCCCGCAGG-CTACTGCTGGTATTA
* * * * *
25594609 TAT-CAGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTA-CTGCTGGTATTA
* *
25594647 TATCCGGGTTAAA-TCCCGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTAC-TGCTGGTATTA
*
25594685 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTAC-TGCTGGTATTA
25594723 TATCCGGGTTAAAGTCCCGCAGGCCTACTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGG-CTACTGCTGGTATTA
25594762 TATC
1 TATC
25594766 TGAACTTAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
37 3 0.02
38 97 0.70
39 33 0.24
40 6 0.04
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAAGTCCCGCAGGCTACTGCTGGTATTA
Found at i:25601357 original size:31 final size:31
Alignment explanation
Indices: 25601322--25601385 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
25601312 TATGTTCGGC
25601322 TTTGGTAGTATATATGTATAATTAATCCATT
1 TTTGGTAGTATATATGTATAATTAATCCATT
*
25601353 TTTGGTAGTGTATATGTATAATTAATCCATT
1 TTTGGTAGTATATATGTATAATTAATCCATT
25601384 TT
1 TT
25601386 GCTAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (31 bp):
TTTGGTAGTATATATGTATAATTAATCCATT
Found at i:25602833 original size:38 final size:39
Alignment explanation
Indices: 25602791--25602866 Score: 120
Period size: 38 Copynumber: 1.9 Consensus size: 39
25602781 GCAGGCCTAC
25602791 TGCTGGTATTATATCCGGG-TTAAATCCT-GCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTTAAA-CCTAGCAGGCTTCG
25602829 TGCTGGTATTATATCCGGGTTTTAAACCTAGCAGGCTT
1 TGCTGGTATTATATCCGGG-TTTAAACCTAGCAGGCTT
25602867 AACGCCAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
38 19 0.54
39 3 0.09
40 13 0.37
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (39 bp):
TGCTGGTATTATATCCGGGTTTAAACCTAGCAGGCTTCG
Found at i:25604109 original size:19 final size:19
Alignment explanation
Indices: 25604061--25604111 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
25604051 CGGGCCGCGA
25604061 TGGGCCGAAA-GGGGCTATG
1 TGGGCC-AAATGGGGCTATG
*
25604080 TGGGCCCAATGGGGCTATG
1 TGGGCCAAATGGGGCTATG
25604099 TGGGCCAAATGGG
1 TGGGCCAAATGGG
25604112 CCTACGAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.20, C:0.18, G:0.45, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGGCTATG
Found at i:25604730 original size:27 final size:26
Alignment explanation
Indices: 25604700--25604755 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
25604690 TTTTTTGTAC
*
25604700 TACCGTTTTACCCTCGATTTACAAAAT
1 TACCATTTTACCCTCGATTTA-AAAAT
*
25604727 TACCATTTTACCCTTGATTTAAAAAT
1 TACCATTTTACCCTCGATTTAAAAAT
25604753 TAC
1 TAC
25604756 TGAAATACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.39
Consensus pattern (26 bp):
TACCATTTTACCCTCGATTTAAAAAT
Found at i:25604767 original size:27 final size:26
Alignment explanation
Indices: 25604708--25604905 Score: 114
Period size: 27 Copynumber: 7.3 Consensus size: 26
25604698 ACTACCGTTT
* * ***
25604708 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTTGATTTA-AAAATTACTAAAA
*
25604735 TACCCTTGATTTAAAAATTACTGAAA
1 TACCCTTGATTTAAAAATTACTAAAA
* ** * *
25604761 TACCCCTG-TAGGATAGAATTACCAAAA
1 TACCCTTGAT-TTA-AAAATTACTAAAA
* * *
25604788 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTT-AAAAATTACTAAAA
*
25604815 TACCCCTGATTTAAAAAATTAC-AGAAA
1 TACCCTTGATTT-AAAAATTACTA-AAA
*
25604842 TACTCTTGACCTTCTAAAAATTA-TAGAAA
1 TACCCTTGA--TT-TAAAAATTACTA-AAA
* *
25604871 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGATTTA-AAAATTACTAAAA
25604898 TACCCTTG
1 TACCCTTG
25604906 GTTTGTAGAT
Statistics
Matches: 133, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
25 1 0.01
26 19 0.14
27 88 0.66
28 3 0.02
29 21 0.16
30 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (26 bp):
TACCCTTGATTTAAAAATTACTAAAA
Found at i:25606095 original size:46 final size:46
Alignment explanation
Indices: 25606045--25606403 Score: 718
Period size: 46 Copynumber: 7.8 Consensus size: 46
25606035 TGGTTGAGCA
25606045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606091 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606137 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606229 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606275 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606321 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25606367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25606404 GCGGGTTACA
Statistics
Matches: 313, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 313 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25608826 original size:30 final size:30
Alignment explanation
Indices: 25608790--25608849 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
25608780 GGGTCCTAAA
25608790 TCCCAGACTACTTCGGCAGCCAGTGTAGGG
1 TCCCAGACTACTTCGGCAGCCAGTGTAGGG
25608820 TCCCAGACTACTTCGGCAGCCAGTGTAGGG
1 TCCCAGACTACTTCGGCAGCCAGTGTAGGG
25608850 AACCCGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (30 bp):
TCCCAGACTACTTCGGCAGCCAGTGTAGGG
Found at i:25612657 original size:46 final size:46
Alignment explanation
Indices: 25612607--25613514 Score: 1662
Period size: 46 Copynumber: 19.7 Consensus size: 46
25612597 TGGTTGAGCA
25612607 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612791 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612837 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612883 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612929 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25612975 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613021 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613205 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
25613343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25613389 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
25613434 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25613482 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
25613515 GTGGGCGGGT
Statistics
Matches: 841, Mismatches: 12, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
45 3 0.00
46 795 0.95
47 27 0.03
48 3 0.00
50 4 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25615509 original size:42 final size:42
Alignment explanation
Indices: 25615448--25615582 Score: 207
Period size: 42 Copynumber: 3.2 Consensus size: 42
25615438 TAGTCTCCCC
* *
25615448 AAATGGGCTTGCATTCATTCATTGACATTACATGTGATATTG
1 AAATGGGCCTGCATACATTCATTGACATTACATGTGATATTG
25615490 AAATGGGCCTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCCTGCATACATTCATTGACATTACATGTGATATTG
* * * *
25615532 AAATGGGCTTGCATACATCCATTGACGTTACATGGGATATTG
1 AAATGGGCCTGCATACATTCATTGACATTACATGTGATATTG
*
25615574 AAATTGGCC
1 AAATGGGCC
25615583 CAAGGGCCAT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCCTGCATACATTCATTGACATTACATGTGATATTG
Found at i:25615640 original size:31 final size:31
Alignment explanation
Indices: 25615605--25615688 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
25615595 CGTTTACAGT
*
25615605 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
25615636 AAAGGCTTCGGCCCAATGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25615667 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
25615689 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25616868 original size:42 final size:42
Alignment explanation
Indices: 25616809--25616892 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
25616799 TAAACCCTCA
25616809 ACCATTTATTAATTGAGTATTTTAACTAATAAAAATCAATAT
1 ACCATTTATTAATTGAGTATTTTAACTAATAAAAATCAATAT
25616851 ACCATTTATTAATTGAGTATTTTAACTAATAAAAATCAATAT
1 ACCATTTATTAATTGAGTATTTTAACTAATAAAAATCAATAT
25616893 CGATTAACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (42 bp):
ACCATTTATTAATTGAGTATTTTAACTAATAAAAATCAATAT
Found at i:25618062 original size:70 final size:70
Alignment explanation
Indices: 25617980--25618159 Score: 360
Period size: 70 Copynumber: 2.6 Consensus size: 70
25617970 CTTGACTCCA
25617980 CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCTAAGTTCAGCCAAGAATTGCTGTGTA
1 CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCTAAGTTCAGCCAAGAATTGCTGTGTA
25618045 ACGCC
66 ACGCC
25618050 CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCTAAGTTCAGCCAAGAATTGCTGTGTA
1 CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCTAAGTTCAGCCAAGAATTGCTGTGTA
25618115 ACGCC
66 ACGCC
25618120 CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCT
1 CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCT
25618160 GGGTTTGGGT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 110 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (70 bp):
CCGATTTTTGAAGGAAGAAAACTCCATTGTTAAACCTTCTAAGTTCAGCCAAGAATTGCTGTGTA
ACGCC
Found at i:25620235 original size:19 final size:20
Alignment explanation
Indices: 25620213--25620256 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25620203 CTGTTTTGTT
25620213 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
25620232 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
25620252 ATGGG
1 ATGGG
25620257 TAAGGCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:25630866 original size:40 final size:40
Alignment explanation
Indices: 25630807--25631087 Score: 368
Period size: 40 Copynumber: 7.0 Consensus size: 40
25630797 AGGTCTCGAC
25630807 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
25630846 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
25630886 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
25630926 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* **
25630966 GATGTATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * * * *
25631006 AATATATCCGTCCTAA-ACCTCGAAGAGCATTCGTACTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
25631046 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
25631086 GA
1 GA
25631088 CGTGTATTCG
Statistics
Matches: 211, Mismatches: 28, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
39 5 0.02
40 204 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:25636812 original size:53 final size:54
Alignment explanation
Indices: 25636731--25637139 Score: 287
Period size: 53 Copynumber: 7.8 Consensus size: 54
25636721 TTTCCTTTTT
* * * *
25636731 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
* * *
25636784 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
* * * ** * *
25636838 GTAACTCATCAATTCCATGTCTTCACATGGTCTTACATGATTTTC-TTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GTATCATTGCCTTATA
* * *
25636893 GAACTTATCAATGCCATGCCTAGGCATGGTCTTACAT-G-AT-A-TG-CTTAT-
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
** * *** * *
25636941 ---CTTGCCAAATGTCATGTTCC-AAACATGGTCTTACATGGTATCCTTACCTTAT-
1 GAACTCACC-AATGCCATG--CCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
* * * *
25636993 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
* * ** * * *
25637047 GTAACTCATCAATGCC--G---TGTCATATTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
* * *
25637097 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATC
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATC
25637140 CTTATATTAC
Statistics
Matches: 277, Mismatches: 56, Indels: 45
0.73 0.15 0.12
Matches are distributed among these distances:
45 4 0.01
46 8 0.03
47 14 0.05
48 3 0.01
49 20 0.07
50 27 0.10
51 3 0.01
52 7 0.03
53 72 0.26
54 58 0.21
55 60 0.22
56 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCATTGCCTTATA
Found at i:25637184 original size:204 final size:207
Alignment explanation
Indices: 25636754--25637186 Score: 703
Period size: 204 Copynumber: 2.1 Consensus size: 207
25636744 CCATGTCTTG
*
25636754 ACATGGTCTTACATGGTATCATTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCATTACCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * *
25636819 ATGGGACCTTTGCCTTATAGTAACTCATCAATTCCATGTCTTCACATGGTCTTACATGATTTTCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCA-GTCGTCACAT-GTCTTACATGATTTCCT
* * *
25636884 TGCCTTATAGAACTTATCAATGCCATGCCTAGGCATGGTCTTACATGATATGCTTATCTTGCCAA
129 TGCCTTATAGAACTTATCAATGCCATGCCTAGGCATGGTCTTACATGATATCCTTATATTACCAA
25636949 ATGTCATGTTCCAA
194 ATGTCATGTTCCAA
*
25636963 ACATGGTCTTACATGGTATCCTTACCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCATTACCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* *
25637028 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCC-GT-GTCATAT-TCTTACATGATTTCCTTG
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCAGTCGTCACATGTCTTACATGATTTCCTTG
* *
25637090 CCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATATTACCGAAT
131 CCTTATAGAACTTATCAATGCCATGCCTAGGCATGGTCTTACATGATATCCTTATATTACCAAAT
25637155 G-CTATGTTCCAA
196 GTC-ATGTTCCAA
25637167 ACATGGTCTTACATGGTATC
1 ACATGGTCTTACATGGTATC
25637187 TTTGTCTTAC
Statistics
Matches: 211, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
203 1 0.00
204 107 0.51
206 5 0.02
207 2 0.01
209 96 0.45
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (207 bp):
ACATGGTCTTACATGGTATCATTACCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCAGTCGTCACATGTCTTACATGATTTCCTTG
CCTTATAGAACTTATCAATGCCATGCCTAGGCATGGTCTTACATGATATCCTTATATTACCAAAT
GTCATGTTCCAA
Found at i:25637239 original size:47 final size:47
Alignment explanation
Indices: 25637121--25637242 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
25637111 CATGCCTTGG
* * * * *
25637121 CATGGTCTTACATGATATCCTTATATTACCGAATGCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
25637168 CATGGTCTTACATGGTATCTTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
25637215 CATGGTCATACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
25637243 GTGCCAATGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:25639746 original size:42 final size:41
Alignment explanation
Indices: 25639585--25639747 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 41
25639575 ATATGCCAAC
* * * * * *
25639585 GCCATGTCCCAGATGTGGTCTTACATGGGATCTCACATTGAT
1 GCCATATCCCAGATATGGTCTTACAT-GAAACTCATATCGAT
* * * *
25639627 GCCATATCCCCA-ATATGGTCTTATACGAATTCTCATTTCGAT
1 GCCATAT-CCCAGATATGGTCTTACATGAA-ACTCATATCGAT
* * * *
25639669 GCCATGTCCCAGACATGGTCTTACATTAAATCTCATATCAAT
1 GCCATATCCCAGATATGGTCTTACATGAAA-CTCATATCGAT
25639711 GCCATATCCCAGATATGGTCTTACATGATAACTCATA
1 GCCATATCCCAGATATGGTCTTACATGA-AACTCATA
25639748 CTGATACCGA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 6 0.06
42 85 0.88
43 6 0.06
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (41 bp):
GCCATATCCCAGATATGGTCTTACATGAAACTCATATCGAT
Found at i:25643823 original size:6 final size:6
Alignment explanation
Indices: 25643800--25643943 Score: 173
Period size: 6 Copynumber: 24.0 Consensus size: 6
25643790 CACAGGTACG
* * * * *
25643800 CTTCTT CCTCTT ATTCTT CCTCTT CTTCTT CTTCTT TTTCCT CTTCTT
1 CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT
* * * * * *
25643848 CCTCTT CCTCTT CTTCCT CTTCCT CTTCCT CTTCCT CTTCTTT CTT-TT
1 CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTC-TT CTTCTT
25643896 CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT
1 CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT
25643944 GTTGCTGCTG
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
5 5 0.04
6 113 0.93
7 4 0.03
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.62
Consensus pattern (6 bp):
CTTCTT
Found at i:25643826 original size:15 final size:15
Alignment explanation
Indices: 25643808--25643943 Score: 152
Period size: 15 Copynumber: 9.3 Consensus size: 15
25643798 CGCTTCTTCC
*
25643808 TCTTATTCTTCCTCT
1 TCTTCTTCTTCCTCT
* *
25643823 TCTTCTTCTTCTTTT
1 TCTTCTTCTTCCTCT
*
25643838 TCCTCTTCTTCCTCT
1 TCTTCTTCTTCCTCT
*
25643853 TCCTCTTCTTCCTCT
1 TCTTCTTCTTCCTCT
25643868 TC--C-TCTTCCTCT
1 TCTTCTTCTTCCTCT
* * *
25643880 TCCTCTTCTTTCTTT
1 TCTTCTTCTTCCTCT
*
25643895 TCTTCTTCTTCTTCT
1 TCTTCTTCTTCCTCT
*
25643910 TCTTCTTCTTCTTCT
1 TCTTCTTCTTCCTCT
*
25643925 TCTTCTTCTTCTTCT
1 TCTTCTTCTTCCTCT
25643940 TCTT
1 TCTT
25643944 GTTGCTGCTG
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
12 11 0.10
13 1 0.01
14 1 0.01
15 93 0.88
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTCTTCTTCCTCT
Found at i:25643827 original size:9 final size:9
Alignment explanation
Indices: 25643800--25643943 Score: 173
Period size: 9 Copynumber: 16.0 Consensus size: 9
25643790 CACAGGTACG
*
25643800 CTTCTTCCT
1 CTTCTTCTT
*
25643809 CTTATTCTT
1 CTTCTTCTT
*
25643818 CCTCTTCTT
1 CTTCTTCTT
25643827 CTTCTTCTT
1 CTTCTTCTT
* *
25643836 TTTCCTCTT
1 CTTCTTCTT
*
25643845 CTTCCTCTT
1 CTTCTTCTT
*
25643854 CCTCTTCTT
1 CTTCTTCTT
* *
25643863 CCTCTTCCT
1 CTTCTTCTT
*
25643872 CTTCCTCTT
1 CTTCTTCTT
*
25643881 CCTCTTCTTT
1 CTTCTTC-TT
25643891 CTT-TTCTT
1 CTTCTTCTT
25643899 CTTCTTCTT
1 CTTCTTCTT
25643908 CTTCTTCTT
1 CTTCTTCTT
25643917 CTTCTTCTT
1 CTTCTTCTT
25643926 CTTCTTCTT
1 CTTCTTCTT
25643935 CTTCTTCTT
1 CTTCTTCTT
25643944 GTTGCTGCTG
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
8 5 0.04
9 107 0.92
10 4 0.03
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.62
Consensus pattern (9 bp):
CTTCTTCTT
Found at i:25647733 original size:42 final size:42
Alignment explanation
Indices: 25647655--25647822 Score: 151
Period size: 42 Copynumber: 4.0 Consensus size: 42
25647645 TCGGCATCAG
* * * *
25647655 TATGAG-TTATCATGTAAGACCATATCCGAGATATGGCGTTGA
1 TATGAGATT-TCATGTAAGACCATATCTGGGACATGGCATTGA
* ** *
25647697 TACGAGATTTCATGTAAGACCACGTCTGGGACATGGCGTTGA
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
* * * * *
25647739 AATGAGAATTT-GTATAAGACCATATCTGGGATATGGCATCGA
1 TATGAG-ATTTCATGTAAGACCATATCTGGGACATGGCATTGA
* ** *
25647781 TGTGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGA
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
25647823 CATCTTATTG
Statistics
Matches: 99, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
41 2 0.02
42 91 0.92
43 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
Found at i:25647837 original size:84 final size:84
Alignment explanation
Indices: 25647669--25647822 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 84
25647659 AGTTATCATG
* * **
25647669 TAAGACCATATCCGAGATATGGCGTTGATACGAGATTTCATGTAAGACCACGTCTGGGACATGGC
1 TAAGACCATATCCGAGATATGGCATCGATACGAGATCCCATGTAAGACCACGTCTGGGACATGGC
*
25647734 GTTGAAATGAGAATTTGTA
66 ATTGAAATGAGAATTTGTA
* * ** *
25647753 TAAGACCATATCTGGGATATGGCATCGATGTGAGATCCCATGTAAGACCATGTCTGGGACATGGC
1 TAAGACCATATCCGAGATATGGCATCGATACGAGATCCCATGTAAGACCACGTCTGGGACATGGC
25647818 ATTGA
66 ATTGA
25647823 CATCTTATTG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (84 bp):
TAAGACCATATCCGAGATATGGCATCGATACGAGATCCCATGTAAGACCACGTCTGGGACATGGC
ATTGAAATGAGAATTTGTA
Found at i:25651535 original size:55 final size:54
Alignment explanation
Indices: 25651407--25652119 Score: 527
Period size: 54 Copynumber: 13.6 Consensus size: 54
25651397 CTTACCATTC
* * ** *
25651407 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGTCTTAT-GAACTCCCCAATA
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * * * * *
25651460 CCATGCCTTGGCATGATCTTACATGGGAACTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTCATCAATG
* * * * * *
25651515 CCATGTTTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAGCTTATCAATT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * * ** *
25651569 CCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
*** * * *
25651615 CCATGTTCCAAACATGGTCTTATATGGTATCCTTGTCTTAT-GAACTCACCAATG
1 CCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * * *
25651669 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATG
* * * ** *
25651724 CCATGTCTTGTCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTGTCAACG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * * **
25651778 CCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
*** * * *
25651824 CCATGTTCCAAACATAGTCTTACATGGTATCCTTGTCTTAT-GAACTCACCAATG
1 CCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* *
25651878 CCATGTCTTGACATGGTCTTACAT-G-AGGCCTTTGCCTTATAGTAACTCATCAATA
1 CCATGTCTTGACATGGTCTTACATGGTA-TCC-TTGCCTTATAG-AACTCATCAATG
* * *
25651933 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * * **
25651987 CCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
*** * *
25652033 CCATGTTCCAAACAGGGTCTTACATGGTATCCTTGTCTTAT-GAACTCA-CTAATG
1 CCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATC-AATG
25652087 CCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
25652120 AATCGTCAAT
Statistics
Matches: 520, Mismatches: 104, Indels: 72
0.75 0.15 0.10
Matches are distributed among these distances:
46 26 0.05
47 69 0.13
48 5 0.01
49 8 0.02
51 7 0.01
52 14 0.03
53 106 0.20
54 150 0.29
55 131 0.25
56 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
Found at i:25651784 original size:209 final size:209
Alignment explanation
Indices: 25651417--25652112 Score: 1178
Period size: 209 Copynumber: 3.3 Consensus size: 209
25651407 CCATGTCTTG
* * * * *
25651417 ACATGGTCTTACGTGGTATCCTTGTCTTATGAACTCCCCAATACCATGCCTTGGCATGATCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTAC
* *
25651482 ATGGGAACTTTGCCTTATAGTAACTCATCAATGCCATGTTTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
* *
25651547 TGCCTTATAGAGCTTATCAATTCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
*
25651612 ATTCCATGTTCCAA
196 ATGCCATGTTCCAA
* *
25651626 ACATGGTCTTATATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTAC
* *
25651691 ATGGGACCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGTCATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
* *
25651756 TGCCTTATAGAACTTGTCAACGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
25651821 ATGCCATGTTCCAA
196 ATGCCATGTTCCAA
* *
25651835 ACATAGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTAC
*
25651900 ATGAGG-CCTTTGCCTTATAGTAACTCATCAATACCATGTCTTGACATGGTCTTACATGATTTCC
66 ATG-GGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC
25651964 TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
130 TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
25652029 AATGCCATGTTCCAA
195 AATGCCATGTTCCAA
* * *
25652044 ACAGGGTCTTACATGGTATCCTTGTCTTATGAACTCACTAATGCCATGTCTTGACATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTAC
25652109 ATGG
66 ATGG
25652113 TATCCTTAAT
Statistics
Matches: 460, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
208 1 0.00
209 457 0.99
210 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (209 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
ATGCCATGTTCCAA
Found at i:25654374 original size:33 final size:33
Alignment explanation
Indices: 25654328--25654392 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
25654318 ATGCTAAATT
*
25654328 GAAGTGGCTAAACAAATAGGAGTGCAAAATAGG
1 GAAGTGGCCAAACAAATAGGAGTGCAAAATAGG
25654361 GAAGTGGCCAAACAAATAGGAGTGCAAAATAG
1 GAAGTGGCCAAACAAATAGGAGTGCAAAATAG
25654393 CAGGATTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.29, T:0.14
Consensus pattern (33 bp):
GAAGTGGCCAAACAAATAGGAGTGCAAAATAGG
Found at i:25656068 original size:26 final size:26
Alignment explanation
Indices: 25656039--25656091 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
25656029 TTTACAGTTT
25656039 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
25656065 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
25656091 T
1 T
25656092 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:25661922 original size:26 final size:26
Alignment explanation
Indices: 25661893--25661944 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25661883 TGATAAAAAT
25661893 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25661919 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25661945 AGATGGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25663457 original size:26 final size:26
Alignment explanation
Indices: 25663428--25663480 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
25663418 TTTACAGTTT
25663428 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
25663454 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
25663480 T
1 T
25663481 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:25665988 original size:27 final size:27
Alignment explanation
Indices: 25665958--25666094 Score: 177
Period size: 27 Copynumber: 5.1 Consensus size: 27
25665948 TACTGAAATG
*
25665958 CCTTCGATTTGTAGAATTACCATTTTA
1 CCTTCGATTTATAGAATTACCATTTTA
*
25665985 CCTTCGATTTATAGAATTACCATTTCA
1 CCTTCGATTTATAGAATTACCATTTTA
* * *
25666012 CCCTCGATTTACAAAATTACCATTTTA
1 CCTTCGATTTATAGAATTACCATTTTA
* *
25666039 CCCTCGATTTATAGAATTACCGTTTTA
1 CCTTCGATTTATAGAATTACCATTTTA
* *
25666066 CCCTT-GATTTACAAAATTACCATTTTA
1 -CCTTCGATTTATAGAATTACCATTTTA
25666093 CC
1 CC
25666095 ATCAGTTTAC
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 91 0.95
28 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
CCTTCGATTTATAGAATTACCATTTTA
Found at i:25666075 original size:81 final size:81
Alignment explanation
Indices: 25665961--25666128 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
25665951 TGAAATGCCT
* * * *
25665961 TCGATTTGTAGAATTACCATTTTACCTTCGATTTATAGAATTACCATTTCACCCTC-GATTTACA
1 TCGATTTATAGAATTACCATTTTACCTTCGATTTACAAAATTACCATTTCACCATCAG-TTTACA
25666025 AAATTACCATTTTACCC
65 AAATTACCATTTTACCC
* *
25666042 TCGATTTATAGAATTACCGTTTTACCCTT-GATTTACAAAATTACCATTTTACCATCAGTTTACA
1 TCGATTTATAGAATTACCATTTTA-CCTTCGATTTACAAAATTACCATTTCACCATCAGTTTACA
**
25666106 AAATTACTGTTTTACCC
65 AAATTACCATTTTACCC
25666123 TCGATT
1 TCGATT
25666129 GTGAAATTAC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 72 0.94
82 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TCGATTTATAGAATTACCATTTTACCTTCGATTTACAAAATTACCATTTCACCATCAGTTTACAA
AATTACCATTTTACCC
Found at i:25666103 original size:27 final size:27
Alignment explanation
Indices: 25665972--25666128 Score: 199
Period size: 27 Copynumber: 5.8 Consensus size: 27
25665962 CGATTTGTAG
* * *
25665972 AATTACCATTTTACCTTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
*
25665999 AATTACCATTTCACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
25666026 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
25666053 AATTACCGTTTTACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
25666080 AATTACCATTTTACCATC-AGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
**
25666107 AATTACTGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
25666129 GTGAAATTAC
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 109 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:25666111 original size:54 final size:54
Alignment explanation
Indices: 25665972--25666128 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
25665962 CGATTTGTAG
* * *
25665972 AATTACCATTTTACCTTCGATTTATAGAATTACCATTTCACCCTCGATTTACAA
1 AATTACCATTTTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTACAA
* *
25666026 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAA
1 AATTACCATTTTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTACAA
* * *
25666080 AATTACCATTTTACCATC-AGTTTACAAAATTACTGTTTTACCCTCGATT
1 AATTACCATTTTACCATCGA-TTTATAGAATTACCGTTTTACCCTCGATT
25666129 GTGAAATTAC
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (54 bp):
AATTACCATTTTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTACAA
Found at i:25666191 original size:27 final size:27
Alignment explanation
Indices: 25666161--25666284 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 27
25666151 ATAGGATAAG
*
25666161 ATTACCAAAATACCCCTAGTTTGTAAA
1 ATTACCAAAATACCCCTAATTTGTAAA
* * ** *
25666188 ATTACCGAAATACCACTGGTTTGTGAA
1 ATTACCAAAATACCCCTAATTTGTAAA
* *
25666215 ATTATCGAAATA-CCCTCAATTTGTAAA
1 ATTACCAAAATACCCCT-AATTTGTAAA
* **
25666242 GTTACCAAAATACCCCTAATTTACAAA
1 ATTACCAAAATACCCCTAATTTGTAAA
*
25666269 ATTACAAAAAATACCC
1 ATTAC-CAAAATACCC
25666285 TTGACTTTCT
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.04
27 62 0.79
28 13 0.17
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
ATTACCAAAATACCCCTAATTTGTAAA
Found at i:25666329 original size:27 final size:27
Alignment explanation
Indices: 25666296--25666347 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
25666286 TGACTTTCTA
25666296 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
25666323 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
25666348 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:25667328 original size:26 final size:25
Alignment explanation
Indices: 25667275--25667344 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
25667265 AGGAAGTGCT
* * * *
25667275 AAAAGGGCTCTGCCCAAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
25667300 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
25667326 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25667345 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:25667357 original size:24 final size:23
Alignment explanation
Indices: 25667300--25667371 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
25667290 AAATTTACCG
25667300 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
25667324 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
25667348 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
25667372 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 25 0.60
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:25667601 original size:31 final size:31
Alignment explanation
Indices: 25667556--25667685 Score: 136
Period size: 31 Copynumber: 4.0 Consensus size: 31
25667546 GGGCCATACC
* *
25667556 ATTTATAGTAAAGGCTTCGGCCCAGTGATATG
1 ATTTAT-GAAAAGGCTTCAGCCCAGTGATATG
* *
25667588 ATTTATGAAAAGGCTTCGGCCCAATGATATG
1 ATTTATGAAAAGGCTTCAGCCCAGTGATATG
*
25667619 ATTTATGAAAAGGCTTCAGCCTAGTATTCTGATTATG
1 ATTTATGAAAAGGCTTCAGCCCAG-----TGA-TATG
*
25667656 ATTTATGGAAAGGCTTCAGCCCAGT-ATATG
1 ATTTATGAAAAGGCTTCAGCCCAGTGATATG
25667686 TCAAGACTAA
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
30 4 0.05
31 45 0.53
32 7 0.08
36 3 0.04
37 26 0.31
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCAGCCCAGTGATATG
Found at i:25669955 original size:27 final size:27
Alignment explanation
Indices: 25669928--25670121 Score: 230
Period size: 27 Copynumber: 7.2 Consensus size: 27
25669918 TGAAATGCCT
* *
25669928 TCGATTTGTAGAATTACCATTTTACCT
1 TCGATTTATAGAATTACCATTTTACCC
* *
25669955 TCGATTTATAGAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * **
25669982 TCGATTTACAAAATTACTGTTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
**
25670009 TCGATTTATATTATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
25670036 TCGATTTA-AGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
*
25670062 TCGATTTATAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
25670089 T-AAGTTTACAAAATTACCGTTTTACCC
1 TCGA-TTTATAGAATTACCATTTTACCC
25670116 TCGATT
1 TCGATT
25670122 GTGAAATTAT
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
26 25 0.17
27 118 0.82
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TCGATTTATAGAATTACCATTTTACCC
Found at i:25670066 original size:107 final size:108
Alignment explanation
Indices: 25669928--25670121 Score: 302
Period size: 107 Copynumber: 1.8 Consensus size: 108
25669918 TGAAATGCCT
* * * * *
25669928 TCGATTTGTAGAATTACCATTTTACCTTCGATTTATAGAATTACCGTTTCACCCT-CGATTTACA
1 TCGATTTGAAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTAAG-TTTACA
*
25669992 AAATTACTGTTTTACCCTCGATTTATATTATTACCATTTTACCC
65 AAATTACCGTTTTACCCTCGATTTATATTATTACCATTTTACCC
*
25670036 TCGATTT-AAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTAAGTTTACAA
1 TCGATTTGAAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTAAGTTTACAA
25670100 AATTACCGTTTTACCCTCGATT
66 AATTACCGTTTTACCCTCGATT
25670122 GTGAAATTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 70 0.90
108 8 0.10
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (108 bp):
TCGATTTGAAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTAAGTTTACAA
AATTACCGTTTTACCCTCGATTTATATTATTACCATTTTACCC
Found at i:25670130 original size:80 final size:80
Alignment explanation
Indices: 25669939--25670121 Score: 242
Period size: 80 Copynumber: 2.3 Consensus size: 80
25669929 CGATTTGTAG
* * **
25669939 AATTACCATTTTACCTTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTA-AGAATTACCATTTCACCCTCGATTTACAAAATTACCATTT
* * *
25670004 TACCCTCGATTTATAT
65 TACCCTAGATTTACAA
* * *
25670020 TATTACCATTTTACCCTCGATTTAAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTT
1 AATTACCATTTTACCCTCGATTTAAGAATTACCATTTCACCCTCGATTTACAAAATTACCATTTT
25670085 ACCCTA-AGTTTACAA
66 ACCCTAGA-TTTACAA
*
25670100 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
25670122 GTGAAATTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.74
81 22 0.25
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTAAGAATTACCATTTCACCCTCGATTTACAAAATTACCATTTT
ACCCTAGATTTACAA
Found at i:25670155 original size:107 final size:106
Alignment explanation
Indices: 25669936--25670157 Score: 247
Period size: 107 Copynumber: 2.1 Consensus size: 106
25669926 CTTCGATTTG
* * * * *
25669936 TAGAATTACCATTTTACCTTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACTG
1 TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTAGATTTACAAAATTACCG
* * **
25670001 TTTTACCCTCGATTTATATTATTACCATTTTACCCTCGATTTA
66 TTTTACCCTCGATTTAAATTATTA-CA-TATACCCTCGATGGA
*
25670044 -AGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTA-AGTTTACAAAATTACC
1 TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTAGA-TTTACAAAATTACC
*
25670107 GTTTTACCCTCGATTGTGAAATTATTGA-A-ATACCC-CTATAGGA
65 GTTTTACCCTCGATT-T-AAATTATT-ACATATACCCTCGAT-GGA
25670150 TAGAATTA
1 TAGAATTA
25670158 TCAAAATACC
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
105 3 0.03
106 7 0.07
107 77 0.79
108 2 0.02
109 7 0.07
110 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (106 bp):
TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCTAGATTTACAAAATTACCG
TTTTACCCTCGATTTAAATTATTACATATACCCTCGATGGA
Found at i:25670221 original size:81 final size:81
Alignment explanation
Indices: 25670120--25670275 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
25670110 TTACCCTCGA
*** * * * **
25670120 TTGTGAAATTATTGAAATACCC-CTATAGGATAGAATTATCAAAATACCACT-AGTTTGTAAAAT
1 TTGTGAAATTACCAAAATACCCTCAATAGG-TAAAATTACCAAAATACCACTGA-TTTACAAAAT
25670183 TACAGAAATACCACTGGT
64 TACAGAAATACCACTGGT
** *
25670201 TTGTGAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
1 TTGTGAAATTACCAAAATACCCTCAATAGGTAAAATTACCAAAATACCACTGATTTACAAAATTA
25670266 CAGAAATACC
66 CAGAAATACC
25670276 TTTGACTTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 57 0.92
82 5 0.08
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACCAAAATACCCTCAATAGGTAAAATTACCAAAATACCACTGATTTACAAAATTA
CAGAAATACCACTGGT
Found at i:25670249 original size:27 final size:27
Alignment explanation
Indices: 25670153--25670248 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
25670143 TATAGGATAG
*
25670153 AATTATCAAAATACCACTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTGTAA
* *
25670180 AATTA-CAGAAATACCACTGGTTTGTGA
1 AATTACCA-AAATACCACTAGTTTGTAA
*
25670207 AATTACCAAAATACC-CTCAATTTGTAA
1 AATTACCAAAATACCACT-AGTTTGTAA
25670234 AATTACCAAAATACC
1 AATTACCAAAATACC
25670249 CCTGATTTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 4 0.07
27 55 0.90
28 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCACTAGTTTGTAA
Found at i:25670256 original size:27 final size:26
Alignment explanation
Indices: 25670153--25670275 Score: 115
Period size: 27 Copynumber: 4.5 Consensus size: 26
25670143 TATAGGATAG
25670153 AATTATCAAAATACCACT-AGTTTGTAA
1 AATTA-CAAAATACCACTGA-TTTGTAA
* *
25670180 AATTACAGAAATACCACTGGTTTGTGA
1 AATTACA-AAATACCACTGATTTGTAA
*
25670207 AATTACCAAAATACC-CTCAATTTGTAA
1 AATTA-CAAAATACCACT-GATTTGTAA
* **
25670234 AATTACCAAAATACCCCTGATTTACAA
1 AATTA-CAAAATACCACTGATTTGTAA
25670261 AATTACAGAAATACC
1 AATTACA-AAATACC
25670276 TTTGACTTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.07
27 72 0.88
28 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (26 bp):
AATTACAAAATACCACTGATTTGTAA
Found at i:25670264 original size:54 final size:53
Alignment explanation
Indices: 25670153--25670331 Score: 137
Period size: 54 Copynumber: 3.3 Consensus size: 53
25670143 TATAGGATAG
* * ***
25670153 AATTATCAAAATACCACTAGTTTGTAAAATTACAGAAATACCACTGGTTTGTGA
1 AATTA-CAAAATACCACTAATTTGTAAAATTACAGAAATACCACTGATTTACAA
*
25670207 AATTACCAAAATACC-CTCAATTTGTAAAATTACCA-AAATACCCCTGATTTACAA
1 AATTA-CAAAATACCACT-AATTTGTAAAATTA-CAGAAATACCACTGATTTACAA
** * * ** * *
25670261 AATTACAGAAATACCTTTGACTTTCTAAAAATTGTAGAAATACCATTGGTTTACAA
1 AATTACA-AAATACCACT-AATTTGT-AAAATTACAGAAATACCACTGATTTACAA
*
25670317 AATTACTGAAATACC
1 AATTAC-AAAATACC
25670332 CTTGGTTTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
53 4 0.04
54 53 0.52
55 9 0.09
56 35 0.35
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (53 bp):
AATTACAAAATACCACTAATTTGTAAAATTACAGAAATACCACTGATTTACAA
Found at i:25670327 original size:27 final size:27
Alignment explanation
Indices: 25670254--25670339 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
25670244 ATACCCCTGA
* * *
25670254 TTTACAAAATTACAGAAATACCTTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
*
25670282 TTT-CTAAAAATT-GTAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
25670310 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
25670337 TTT
1 TTT
25670340 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 22 0.47
28 7 0.15
29 18 0.38
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:25671304 original size:25 final size:24
Alignment explanation
Indices: 25671266--25671332 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
25671256 AGGAAGTGCT
*
25671266 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
25671290 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
25671315 AGAAAGGGTTTTGCCCCA
1 A-AAAGGGCTTTGCCCCA
25671333 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:25671599 original size:31 final size:31
Alignment explanation
Indices: 25671546--25671677 Score: 169
Period size: 31 Copynumber: 4.3 Consensus size: 31
25671536 GGGCCATACC
*
25671546 ATTTATAGTAAAGGC-TCTGGCCCAGTGATATG
1 ATTTAT-GAAAAGGCTTC-GGCCCAGTGATATG
* *
25671578 ATTTATGAAATGGCTTTGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
**
25671609 ATTTATGAAAAGGCTTCAACCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
*
25671640 ATTTATGAAAAGGCTTCGGCCCAATGATAT-
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
*
25671670 AATTATGA
1 ATTTATGA
25671678 TTTGTGGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
30 7 0.08
31 74 0.84
32 7 0.08
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCGGCCCAGTGATATG
Found at i:25671930 original size:31 final size:30
Alignment explanation
Indices: 25671877--25672000 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 30
25671867 GGGCCATACC
25671877 ATTTATAGTAAAGGC-TCTGGCCCAGTGATATG
1 ATTTAT-G-AAAGGCTTC-GGCCCAGTGATATG
*
25671909 ATTTATGAAATGGCTTTGGCCCAGTGATATG
1 ATTTATGAAA-GGCTTCGGCCCAGTGATATG
**
25671940 ATTTATGAAAAGGCTTCGGCCCA-AAATTATG
1 ATTTATG-AAAGGCTTCGGCCCAGTGA-TATG
*
25671971 ATTTGTGGAAAGGCTTCGGCCCAGT-ATATG
1 ATTTAT-GAAAGGCTTCGGCCCAGTGATATG
25672001 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
30 8 0.10
31 61 0.76
32 11 0.14
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
ATTTATGAAAGGCTTCGGCCCAGTGATATG
Found at i:25672129 original size:294 final size:297
Alignment explanation
Indices: 25671589--25672158 Score: 1038
Period size: 294 Copynumber: 1.9 Consensus size: 297
25671579 TTTATGAAAT
*
25671589 GGCTTTGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTGATATGATTTATGAAAAGGC
1 GGCTCTGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTGATATGATTTATGAAAAGGC
25671654 TTCGGCCCAATGATATAATTATGATTTGTGGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAAT
66 TTCGGCCC-A--ATATAATTATGATTTGTGGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAAT
25671719 AGGGCTTTGGCCCAGATTGTACTGACACTGTGTTATTCACTGTTTGTTTGTTGTTGGGGATTACA
128 AGGGCTTTGGCCCAGATTGTACTGACACTGTGTTATTCACTGTTTGTTTGTTGTTGGGGATTACA
*
25671784 CACTGAGTTTTCATAATCTCACCCCGTTTCTGACTGTGCAGGTAATCCCTAGGCTTAGATGGTTT
193 CACTGAGTTTTCATAAACTCACCCCGTTTCTGACTGTGCAGGTAATCCCTAGGCTTAGATGGTTT
25671849 GGAGCTGCGAGGGACTAAGGGCCATACCATTTATAGTAAA
258 GGAGCTGCGAGGGACTAAGGGCCATACCATTTATAGTAAA
* ***
25671889 GGCTCTGGCCCAGTGATATGATTTATGAAATGGCTTTGGCCCAGTGATATGATTTATGAAAAGGC
1 GGCTCTGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTGATATGATTTATGAAAAGGC
25671954 TTCGGCCC-A-A-AATTATGATTTGTGGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGG
66 TTCGGCCCAATATAATTATGATTTGTGGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGG
25672016 GCTTTGGCCCAGATTGTACTGACACTGTGTTATTCACTGTTTGTTTGTTGTTGGGGATTACACAC
131 GCTTTGGCCCAGATTGTACTGACACTGTGTTATTCACTGTTTGTTTGTTGTTGGGGATTACACAC
25672081 TGAGTTTTCATAAACTCACCCCGTTTCTGACTGTGCAGGTAATCCCTAGGCTTAGATGGTTTGGA
196 TGAGTTTTCATAAACTCACCCCGTTTCTGACTGTGCAGGTAATCCCTAGGCTTAGATGGTTTGGA
25672146 GCTGCGAGGGACT
261 GCTGCGAGGGACT
25672159 CGGAGATGGC
Statistics
Matches: 264, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
294 194 0.73
295 1 0.00
296 1 0.00
300 68 0.26
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (297 bp):
GGCTCTGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTGATATGATTTATGAAAAGGC
TTCGGCCCAATATAATTATGATTTGTGGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGG
GCTTTGGCCCAGATTGTACTGACACTGTGTTATTCACTGTTTGTTTGTTGTTGGGGATTACACAC
TGAGTTTTCATAAACTCACCCCGTTTCTGACTGTGCAGGTAATCCCTAGGCTTAGATGGTTTGGA
GCTGCGAGGGACTAAGGGCCATACCATTTATAGTAAA
Found at i:25686069 original size:40 final size:39
Alignment explanation
Indices: 25685985--25686188 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 39
25685975 TCGAATGATG
* * * *
25685985 TCCGGGCTAAGTCCCGAATG-ATTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
25686025 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25686065 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
25686104 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* ** * *
25686145 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
25686184 TCCGG
1 TCCGG
25686189 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 36 0.26
40 93 0.66
41 11 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25686121 original size:79 final size:79
Alignment explanation
Indices: 25685985--25686202 Score: 246
Period size: 79 Copynumber: 2.7 Consensus size: 79
25685975 TCGAATGATG
* * * **
25685985 TCCGGGCTAAGTCCCGAATG-ATTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCATT
25686049 TGTGCGAGTTACTA-A
64 TGTGCGAGTTACTATA
* *
25686064 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGCATT
25686128 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* * ** * *
25686144 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTT-AAGTCCGAAGG
25686203 TACGTGATTC
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.58
80 48 0.41
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:25687711 original size:44 final size:44
Alignment explanation
Indices: 25687628--25687712 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
25687618 ATCCTTAATC
* * *
25687628 GTCAATTCCTCCTTAAATGCCATGTTATGAACATAGACTTTTCT
1 GTCAATTCCTCCTTAAATGACATGGTATCAACATAGACTTTTCT
* * *
25687672 GTCAATTCTTCCTTAATTGACATGGTA-CAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGACATGGTATCAA-CATAGACTTT
25687713 GAGATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGACATGGTATCAACATAGACTTTTCT
Found at i:25688283 original size:30 final size:30
Alignment explanation
Indices: 25688249--25688309 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25688239 TCCCTAACTC
25688249 AAACTTTTACAAAATTAC-ATTTTTGCCCCT
1 AAACTTTTACAAAATTACGA-TTTTGCCCCT
** *
25688279 AAACTTTTGTAGAATTACGATTTTGCCCCT
1 AAACTTTTACAAAATTACGATTTTGCCCCT
25688309 A
1 A
25688310 TGCTCAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTACGATTTTGCCCCT
Found at i:25699918 original size:8 final size:8
Alignment explanation
Indices: 25699905--25699933 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25699895 TACAATACAA
25699905 ATTCAACC
1 ATTCAACC
25699913 ATTCAACC
1 ATTCAACC
25699921 ATTCAACC
1 ATTCAACC
25699929 ATTCA
1 ATTCA
25699934 TTTCATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
ATTCAACC
Found at i:25703170 original size:24 final size:24
Alignment explanation
Indices: 25703125--25703169 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
25703115 ATGCTCAGAT
25703125 TCATCACATGAATAAATCAAAATA
1 TCATCACATGAATAAATCAAAATA
25703149 TCATCA-ATGAATACAA-CAAAA
1 TCATCACATGAATA-AATCAAAA
25703170 AATTGGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (24 bp):
TCATCACATGAATAAATCAAAATA
Found at i:25709252 original size:46 final size:45
Alignment explanation
Indices: 25709185--25709357 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 45
25709175 TGACATATGT
25709185 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAC-AGA
* *
25709231 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGC-C-ACAT-TACAGA
* *
25709279 G-TCAATGTAAGACATGTCTGGGACATACATC-G--ACATTGAGACAAGA
1 GCT-AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT---AC-AGA
25709325 GCTAGTGTAAGACATGTCTGGGACATGCATCGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG
25709358 TGTAACACCC
Statistics
Matches: 107, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
44 2 0.02
45 1 0.01
46 59 0.55
47 5 0.05
48 29 0.27
49 4 0.04
50 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACAGA
Found at i:25710881 original size:46 final size:45
Alignment explanation
Indices: 25710730--25710992 Score: 161
Period size: 46 Copynumber: 5.6 Consensus size: 45
25710720 GTAAGGTGCT
* * ** *
25710730 GATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCATCTTTGAGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTC-ACGAGGCC
* * * * * * *
25710779 AATGCCACGTCCCAAACATGGTCTTACACTGG-TACATCTCGTA-GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCACG-AGGCC
*
25710825 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCACGAGGCC
* * * * * **
25710871 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCACGAGGCC
* * * * * * *
25710917 GATGCCATGTCCCAGACATGGTCTTACATTGTCTCTCATAAGGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCACGAGGCC
25710965 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
25710993 AGCTCACACA
Statistics
Matches: 173, Mismatches: 33, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 65 0.38
47 34 0.20
48 20 0.12
49 28 0.16
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCACGAGGCC
Found at i:25714593 original size:749 final size:749
Alignment explanation
Indices: 25713155--25714649 Score: 2891
Period size: 749 Copynumber: 2.0 Consensus size: 749
25713145 AAGTTCTTGT
25713155 TAGATTGTTAAAGTCTAATGCGGTTGTCTTAGATATCTTGTTGTGGTTGAATTAGCTTTGTGTTA
1 TAGATTGTTAAAGTCTAATGCGGTTGTCTTAGATATCTTGTTGTGGTTGAATTAGCTTTGTGTTA
25713220 CCGTGTGAATTGGTGGTATCTATTACTTTTGTAGGTAAGTGTAAGTAAGGGTGGCAAAAAGGCTT
66 CCGTGTGAATTGGTGGTATCTATTACTTTTGTAGGTAAGTGTAAGTAAGGGTGGCAAAAAGGCTT
25713285 GGTAGATAGCCTATTTTTGTCCACACAGCTAGACACACGGGTGTGTGCCTAGGCCGTGTGTGACA
131 GGTAGATAGCCTATTTTTGTCCACACAGCTAGACACACGGGTGTGTGCCTAGGCCGTGTGTGACA
25713350 CACGGTCCGCCCCATAGGCGTGTTGTTCGACCCTGTGTTCCATGCACCCAGAATTTGTAAACTAG
196 CACGGTCCGCCCCATAGGCGTGTTGTTCGACCCTGTGTTCCATGCACCCAGAATTTGTAAACTAG
* *
25713415 TATGCATGGTAGTAAACACACAAGAAGAGACACGGTCGTGTGGAGGACACGGCCTTTGGCCACGG
261 TATGCATGGTAGTAAACACACAAGAAGAGACACAGCCGTGTGGAGGACACGGCCTTTGGCCACGG
25713480 GTGTGTGCCTTGGCCTTATGCCTCTAATTTGTTGCTTACGTCAGAAATAGAATGTCAAGGTTTTT
326 GTGTGTGCCTTGGCCTTATGCCTCTAATTTGTTGCTTACGTCAGAAATAGAATGTCAAGGTTTTT
25713545 ACACACGGGCAACAACACGGGCGTGTCATGGCCTTGTGATGGACACGGGCGTGTGCTCAGCCTGT
391 ACACACGGGCAACAACACGGGCGTGTCATGGCCTTGTGATGGACACGGGCGTGTGCTCAGCCTGT
25713610 GAAAACCCCTGTAGGTTCAAATTTGGAATTTAATTCACACGGGCTCAGGGCACGAGCGTGTCCCC
456 GAAAACCCCTGTAGGTTCAAATTTGGAATTTAATTCACACGGGCTCAGGGCACGAGCGTGTCCCC
* *
25713675 TTATGCTTAGGCTGTGTAAACCACACGGGTCTTCAGCACGACCAGGTCAAAATGGCCCCACAGGC
521 TTATGCTTAGGCTGTGTAAACCACACGGGCCTTCAGCACGACCAGGTCAAAATGGCCACACAGGC
25713740 ATGTCATCTTTCTACATAAGCGTGTGCCCCTATCTCAAGATACATTCTTTTCAAAGTATTTAAAG
586 ATGTCATCTTTCTACATAAGCGTGTGCCCCTATCTCAAGATACATTCTTTTCAAAGTATTTAAAG
*
25713805 ATGTTCGGTTTAATCTCGGATATTTTCCCAAGGATGATTTGGGCCTTGTAGGCCTATATTGAGAA
651 ATGTTCGGTTTAATCTCGGATATTTTCCCAAGGATGATTTGGGCCTTGTAGGCCCATATTGAGAA
25713870 TTTTTAGATTAAGAGTGAGAATTTTTGAATTAGC
716 TTTTTAGATTAAGAGTGAGAATTTTTGAATTAGC
*
25713904 TAGATTGTTAAAGTTTAATGCGGTTGTCTTAGATATCTTGTTGTGGTTGAATTAGCTTTGTGTTA
1 TAGATTGTTAAAGTCTAATGCGGTTGTCTTAGATATCTTGTTGTGGTTGAATTAGCTTTGTGTTA
*
25713969 CCGTGTGAATTGGTGGTATCTATTGCTTTTGTAGGTAAGTGTAAGTAAGGGTGGCAAAAAGGCTT
66 CCGTGTGAATTGGTGGTATCTATTACTTTTGTAGGTAAGTGTAAGTAAGGGTGGCAAAAAGGCTT
*
25714034 GGTAGATAGCCTATTTTTGTCCACACGGCTAGACACACGGGTGTGTGCCTAGGCCGTGTGTGACA
131 GGTAGATAGCCTATTTTTGTCCACACAGCTAGACACACGGGTGTGTGCCTAGGCCGTGTGTGACA
*
25714099 CACGGTCCGCCCCATAGGCGTGTTGTTCGACCCTGTGTTCCATGCACCCAGAATTTGTAAGCTAG
196 CACGGTCCGCCCCATAGGCGTGTTGTTCGACCCTGTGTTCCATGCACCCAGAATTTGTAAACTAG
25714164 TATGCATGGTAGTAAACACACAAGAAGAGACACAGCCGTGTGGAGGACACGGCCTTTGGCCACGG
261 TATGCATGGTAGTAAACACACAAGAAGAGACACAGCCGTGTGGAGGACACGGCCTTTGGCCACGG
*
25714229 GTGTGTGCCTTGGCCTTATGCCTCTAATTTGTTGCTTACGTCAGAAATAGAATGTTAAGGTTTTT
326 GTGTGTGCCTTGGCCTTATGCCTCTAATTTGTTGCTTACGTCAGAAATAGAATGTCAAGGTTTTT
25714294 ACACACGGGCAACAACACGGGCGTGTCATGGCCTTGTGATGGACACGGGCGTGTGCTCAGCCTGT
391 ACACACGGGCAACAACACGGGCGTGTCATGGCCTTGTGATGGACACGGGCGTGTGCTCAGCCTGT
25714359 GAAAACCCCTGTAGGTTCAAATTTGGAATTTAATTCACACGGGCTCAGGGCACGAGCGTGTCCCC
456 GAAAACCCCTGTAGGTTCAAATTTGGAATTTAATTCACACGGGCTCAGGGCACGAGCGTGTCCCC
25714424 TTATGCTTAGGCTGTGTAAACCACACGGGCCTTCAGCACGACCAGGTCAAAATGGCCACACAGGC
521 TTATGCTTAGGCTGTGTAAACCACACGGGCCTTCAGCACGACCAGGTCAAAATGGCCACACAGGC
*
25714489 ATGTCATCTTTCTACATAAGCGTGTGCCCCTATCTCAAGTTACATTCTTTTCAAAGTATTTAAAG
586 ATGTCATCTTTCTACATAAGCGTGTGCCCCTATCTCAAGATACATTCTTTTCAAAGTATTTAAAG
25714554 ATGTTCGGTTTAATCTCGGATATTTTCCCAAGGATGATTTGGGCCTTGTAGGCCCATATTGAGAA
651 ATGTTCGGTTTAATCTCGGATATTTTCCCAAGGATGATTTGGGCCTTGTAGGCCCATATTGAGAA
25714619 TTTTTAGATTAAGAGTGAGAATTTTTGAATT
716 TTTTTAGATTAAGAGTGAGAATTTTTGAATT
25714650 TGATCTAGTT
Statistics
Matches: 735, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
749 735 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (749 bp):
TAGATTGTTAAAGTCTAATGCGGTTGTCTTAGATATCTTGTTGTGGTTGAATTAGCTTTGTGTTA
CCGTGTGAATTGGTGGTATCTATTACTTTTGTAGGTAAGTGTAAGTAAGGGTGGCAAAAAGGCTT
GGTAGATAGCCTATTTTTGTCCACACAGCTAGACACACGGGTGTGTGCCTAGGCCGTGTGTGACA
CACGGTCCGCCCCATAGGCGTGTTGTTCGACCCTGTGTTCCATGCACCCAGAATTTGTAAACTAG
TATGCATGGTAGTAAACACACAAGAAGAGACACAGCCGTGTGGAGGACACGGCCTTTGGCCACGG
GTGTGTGCCTTGGCCTTATGCCTCTAATTTGTTGCTTACGTCAGAAATAGAATGTCAAGGTTTTT
ACACACGGGCAACAACACGGGCGTGTCATGGCCTTGTGATGGACACGGGCGTGTGCTCAGCCTGT
GAAAACCCCTGTAGGTTCAAATTTGGAATTTAATTCACACGGGCTCAGGGCACGAGCGTGTCCCC
TTATGCTTAGGCTGTGTAAACCACACGGGCCTTCAGCACGACCAGGTCAAAATGGCCACACAGGC
ATGTCATCTTTCTACATAAGCGTGTGCCCCTATCTCAAGATACATTCTTTTCAAAGTATTTAAAG
ATGTTCGGTTTAATCTCGGATATTTTCCCAAGGATGATTTGGGCCTTGTAGGCCCATATTGAGAA
TTTTTAGATTAAGAGTGAGAATTTTTGAATTAGC
Found at i:25722944 original size:42 final size:42
Alignment explanation
Indices: 25722826--25722944 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
25722816 AGTTATCATT
* * * * * *
25722826 TAAGACCATATCCGGGATATGGCGTTGATACGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCATTGATATGAGAATTAGTA
* * * *
25722868 TAAGACCACT-TTTGGGACATGGCATCGAAATGAGAATTAGTA
1 TAAGACCA-TATCTGGGATATGGCATTGATATGAGAATTAGTA
*
25722910 TAAGACCATATCTGGGATATGGCATTGATGTGAGA
1 TAAGACCATATCTGGGATATGGCATTGATATGAGA
25722945 TCCCATGTAA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
41 1 0.02
42 58 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATTGATATGAGAATTAGTA
Found at i:25725365 original size:29 final size:29
Alignment explanation
Indices: 25725322--25725379 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
25725312 CATATATATA
*
25725322 TATTTGCACATGATGTATTGGTATGGTAC
1 TATTTGCACACGATGTATTGGTATGGTAC
25725351 TATTTGCACACGATGTATTGGTATGGTAC
1 TATTTGCACACGATGTATTGGTATGGTAC
25725380 ATATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (29 bp):
TATTTGCACACGATGTATTGGTATGGTAC
Found at i:25726181 original size:14 final size:14
Alignment explanation
Indices: 25726162--25726192 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25726152 GGTTAAGTCC
25726162 CGAAGGCATTTGTG
1 CGAAGGCATTTGTG
25726176 CGAAGGCATTTGTG
1 CGAAGGCATTTGTG
25726190 CGA
1 CGA
25726193 GTTACTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (14 bp):
CGAAGGCATTTGTG
Found at i:25726191 original size:54 final size:54
Alignment explanation
Indices: 25726122--25726232 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
25726112 GACTAAGATC
*
25726122 CGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
*
25726176 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
25726230 CGA
1 CGA
25726233 GTTACTATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (54 bp):
CGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
Found at i:25726274 original size:40 final size:40
Alignment explanation
Indices: 25726176--25726267 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
25726166 GGCATTTGTG
*
25726176 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCC
* *
25726216 CGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCC
1 CGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCC
25726256 CGAAGGCATTTG
1 CGAAGGCATTTG
25726268 AACGAGTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCC
Found at i:25734417 original size:40 final size:40
Alignment explanation
Indices: 25734334--25734519 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
25734324 TTGAATGATG
* ** * *
25734334 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGGCCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
25734374 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25734414 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25734454 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25734495 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25734520 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25734526 original size:80 final size:79
Alignment explanation
Indices: 25734334--25734552 Score: 221
Period size: 80 Copynumber: 2.7 Consensus size: 79
25734324 TTGAATGATG
** * * * * *
25734334 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGGCCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTAGCTAAATCCGG-TTAA-ATCCCGAAGGCAT
25734397 TGGTGCGAGTTACTAAA
63 TGGTGCGAGTTACTAAA
* ** *
25734414 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATCCCGAAGGCATT
*
25734478 TGTGCGAGTTACTATAA
64 GGTGCGAGTTACTA-AA
* * *
25734495 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCCGAAGG
25734553 TATGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
79 17 0.14
80 89 0.75
81 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:25738468 original size:46 final size:46
Alignment explanation
Indices: 25738316--25738588 Score: 257
Period size: 46 Copynumber: 5.8 Consensus size: 46
25738306 GGTTATTTGT
* * * * * *
25738316 GAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATTTCTGGGACAT-GCATCGACCTCGAGAC
* * * * * *
25738364 GAGGGCTAGTGTAAGACATTTATGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGACATTTCTGGGACAT-GCATCGACCTCGAGAC
* *
25738411 GAGGGCTAGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGAC
1 GAGAGCCAGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGAC
25738457 GTA-AGCCAGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGAC
1 G-AGAGCCAGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGAC
* * *
25738503 GTA-AGCCAGTGTAAGACATGTCTGGGACATGCA-CTG-GCTACGAGAT
1 G-AGAGCCAGTGTAAGACATTTCTGGGACATGCATC-GACCT-CGAGAC
* * *
25738549 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GAGAGCCAGTGTAAGA-CATTTCTGGGACAT-GCATCGAC
25738589 TTGAGATATG
Statistics
Matches: 202, Mismatches: 15, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
45 4 0.02
46 106 0.52
47 72 0.36
48 19 0.09
49 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGAC
Found at i:25738595 original size:47 final size:46
Alignment explanation
Indices: 25738323--25738632 Score: 238
Period size: 47 Copynumber: 6.6 Consensus size: 46
25738313 TGTGAGAGCT
* * * ** *
25738323 AGTGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGACGA-GGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TCGAGACGATAAGCC
* * * * ** *
25738371 AGTGTAAGACATTTATGGGACATGGCATCGGCATTGAGACGA-GGGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGAC-TCGAGACGATAAGCC
*
25738418 AGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTCGAGACGATAAGCC
*
25738464 AGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTCGAGACGATAAGCC
* * *
25738510 AGTGTAAGACATGTCTGGGACATGCA-CTGGCTACGAGATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACT-CGAGACGATAAGCC
* * * *
25738556 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGACGATAAGCC
* *
25738603 AGTGTAAGACCGTGTCTAGGACATAGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
25738633 AGCACCTTAC
Statistics
Matches: 234, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.01
46 107 0.46
47 108 0.46
48 15 0.06
49 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGACGATAAGCC
Found at i:25741944 original size:22 final size:22
Alignment explanation
Indices: 25741914--25741957 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25741904 TAGTCATATG
25741914 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
25741936 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
25741958 TATTTCATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:25742017 original size:16 final size:17
Alignment explanation
Indices: 25741981--25742017 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
25741971 AATTTTATTT
25741981 TAATAATAAATCTTAAA
1 TAATAATAAATCTTAAA
*
25741998 -AATAAT-AATTTTAAA
1 TAATAATAAATCTTAAA
25742013 TAATA
1 TAATA
25742018 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATCTTAAA
Found at i:25742070 original size:15 final size:15
Alignment explanation
Indices: 25742036--25742106 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
25742026 ATATTATTGA
25742036 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
25742049 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
25742064 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
25742083 AAATATATTAATAAT
1 AAATATTTTAATAAT
25742098 AAATATTTT
1 AAATATTTT
25742107 TTATTTTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.41
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:25745762 original size:49 final size:49
Alignment explanation
Indices: 25745690--25745788 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
25745680 AGTACAAAAA
* * *
25745690 AGGTTCAAGTTAGTGTGTAAACTTTGACAAATCAATTATCTTTTTTAGT
1 AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAACTATCCTTTTTAGT
* *
25745739 AGGTTCGAGTCAGTGTGTAAACTTTGACAAGTCAACTATCCTTTTTAGT
1 AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAACTATCCTTTTTAGT
25745788 A
1 A
25745789 AAAATACATC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (49 bp):
AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAACTATCCTTTTTAGT
Found at i:25759281 original size:20 final size:20
Alignment explanation
Indices: 25759258--25759302 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
25759248 TAGCTTTTTT
25759258 AGAAAAGTAAATAATTTTCC
1 AGAAAAGTAAATAATTTTCC
25759278 AGAAAAGTAAATAATTTTCC
1 AGAAAAGTAAATAATTTTCC
25759298 AGAAA
1 AGAAA
25759303 TCATTTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (20 bp):
AGAAAAGTAAATAATTTTCC
Found at i:25761892 original size:16 final size:16
Alignment explanation
Indices: 25761868--25761902 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
25761858 AAGATGTTGT
*
25761868 GTTAGTTGCTTGTATG
1 GTTAATTGCTTGTATG
25761884 GTTAATTGCTTGTATG
1 GTTAATTGCTTGTATG
25761900 GTT
1 GTT
25761903 GACTTGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.29, T:0.51
Consensus pattern (16 bp):
GTTAATTGCTTGTATG
Found at i:25764771 original size:22 final size:23
Alignment explanation
Indices: 25764720--25764771 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
25764710 TAATTATAAA
*
25764720 ATTATTATTTTTTGAGTATATCT
1 ATTATTATATTTTGAGTATATCT
*
25764743 TTATATTATATTTT-A-TATAGTCT
1 AT-TATTATATTTTGAGTATA-TCT
25764766 ATTATT
1 ATTATT
25764772 TTAAATGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 8 0.33
23 6 0.25
24 10 0.42
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (23 bp):
ATTATTATATTTTGAGTATATCT
Found at i:25765951 original size:131 final size:132
Alignment explanation
Indices: 25765520--25766037 Score: 458
Period size: 131 Copynumber: 3.9 Consensus size: 132
25765510 TTCACAATTA
* * * *
25765520 TTAAGAATTCTTTAAAACGAAGTCGATATTCGAT-TCTTGGCAATTCGTGGAATCATGCCCTAAC
1 TTAAAAATCCTTTAAAACGAAGGCGATATTCGATGT-TTGGCAATTCGCGGAATCATGCCCTAAC
* * * * * ** *
25765584 GTGTTAGGTTGCAATTTCTCATTCGCTCAAAGTGATCGAAGGTCCCTTTAGAATTTCACCCATGT
65 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT
25765649 CTT
130 CTT
* * * * * *
25765652 TTAAAAATCCCTT-AAACGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCGTGCTCTAACG
1 TTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCGGAATCATGCCCTAACG
* * * * * *
25765716 TGCTGGGTTGCAATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTC
66 TGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTC
25765781 TT
131 TT
* ** * * * *
25765783 CTAAAAATCCTTTAAAACGAAGGTAATATT-TAGTGTTTGACAATTCG-GGAATTATGCCCTATC
1 TTAAAAATCCTTTAAAACGAAGGCGATATTCGA-TGTTTGGCAATTCGCGGAATCATGCCCTAAC
* ** * * * *
25765846 CTGCTAGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATAT
65 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT
25765911 -TT
130 CTT
* * * * * *
25765913 ATTAAAAA-CCTTTCAAAACGAAGGCGATGTTCGATGTTTGGCGATTTG-AGAATCGTGCCCTAT
1 -TTAAAAATCCTTT-AAAACGAAGGCGATATTCGATGTTTGGCAATTCGCGGAATCATGCCCTAA
* ** * * * * **
25765976 CGTGCTGGGTTGCGCTTTTTCATTTG-TCCAAACTAATCGAAGATCCCTTCGGAATTTCACTC
64 CGTGCTAGGTTGCAATTTCTCGTTTGCT-CAAAATAATCGAATATCCCTTTAGAATTTCACTC
25766038 GTATTTTCTA
Statistics
Matches: 306, Mismatches: 73, Indels: 15
0.78 0.19 0.04
Matches are distributed among these distances:
130 8 0.03
131 262 0.86
132 36 0.12
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (132 bp):
TTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCGGAATCATGCCCTAACG
TGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTC
TT
Found at i:25768167 original size:46 final size:46
Alignment explanation
Indices: 25768117--25768288 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
25768107 TGAGCATCCA
* *
25768117 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAACGTCCG
* *
25768163 AACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTGATG-GATGCAA--A--CGTCCG
* * *
25768210 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAACGTCCG
*
25768256 AGCTCGTTGAGTTGAGTCCGAGTTCACTGATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTGATGG
25768289 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
45 1 0.01
46 60 0.56
47 27 0.25
48 1 0.01
50 8 0.07
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAACGTCCG
Found at i:25768269 original size:93 final size:93
Alignment explanation
Indices: 25768110--25768279 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
25768100 GGATGGTTGA
* *
25768110 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25768175 TGAGTCCGAGTTTGAGAGATGTAACTAG
66 TGAGTCCGAGTTTGAGAGATGTAACTAG
* * *
25768203 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25768268 TGAGTCCGAGTT
66 TGAGTCCGAGTT
25768280 CACTGATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGAGAGATGTAACTAG
Found at i:25768516 original size:55 final size:55
Alignment explanation
Indices: 25768432--25768540 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
25768422 ATTGGTAAGT
*
25768432 GTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCGGGTTGAAAACTA
1 GTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCAGGTTGAAAACTA
25768487 GTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCAGGTTGAAAACT
1 GTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCAGGTTGAAAACT
25768541 CGATATAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (55 bp):
GTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCAGGTTGAAAACTA
Found at i:25769617 original size:23 final size:23
Alignment explanation
Indices: 25769587--25769634 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25769577 TAATGAATTG
25769587 TCTGTTAACACCTCGTGTTCGAC
1 TCTGTTAACACCTCGTGTTCGAC
25769610 TCTGTTAACACCTCGTGTTCGAC
1 TCTGTTAACACCTCGTGTTCGAC
25769633 TC
1 TC
25769635 CGGTGACGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (23 bp):
TCTGTTAACACCTCGTGTTCGAC
Found at i:25771310 original size:15 final size:15
Alignment explanation
Indices: 25771290--25771358 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
25771280 ATATCTTGGG
25771290 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
25771305 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
25771320 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
25771335 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
25771350 TTTCTTTAT
1 TTTCTTTAT
25771359 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:25771359 original size:30 final size:30
Alignment explanation
Indices: 25771281--25771368 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
25771271 CATAGTATCA
* * * *
25771281 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
25771311 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
25771341 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
25771369 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:25786244 original size:132 final size:132
Alignment explanation
Indices: 25785930--25786539 Score: 830
Period size: 131 Copynumber: 4.6 Consensus size: 132
25785920 AATCCTACTA
* * * * * *
25785930 ATCTCGTTTCCCTAAAGTTGCAGTAGAGCAGATCGAAGACTGTGAATCTAGGCTTCTTGAAATTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
* * *
25785995 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGT-GAGTACGCTGAAATTTT
66 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
25786059 AG
131 AG
* * * * * *
25786061 ATCTTGTTTCCTTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTGGGCTTCCTGAAGTTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
*
25786126 CAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
66 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
25786191 AG
131 AG
* *
25786193 ATCTCGTTTTCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTGGGCTTCCTGAAGTTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
*
25786258 CAGCGAAGCAGATTTAAGCCACCAACCTAGCT-CCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
66 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
25786322 AG
131 AG
* * *
25786324 ATCTCGTTTCCCTGAAGTTGTAGTGGAGCAGATCAAAGACGGTGAACCTAGGCTTCCTGAAGTTA
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
* * * * * * *
25786389 CAGTGAAGTAGATTTAAGCCACTATCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTGAAGATTG
66 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT-AAAATTT
25786454 TAG
130 TAG
* * * * * * * ** * *
25786457 ATTTTGTCTCCCTAAAGTTGTAGTGGAGCAAATCAAAAACGACGAATCT-GTCCTCCTGAAGTTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
25786521 CAGTGAAGCAGATTTAAGC
66 CAGTGAAGCAGATTTAAGC
25786540 AAGCCTTAAA
Statistics
Matches: 430, Mismatches: 46, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
131 222 0.52
132 160 0.37
133 48 0.11
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
CAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
AG
Found at i:25786404 original size:263 final size:263
Alignment explanation
Indices: 25785930--25786539 Score: 846
Period size: 263 Copynumber: 2.3 Consensus size: 263
25785920 AATCCTACTA
* * * * *
25785930 ATCTCGTTTCCCTAAAGTTGCAGTAGAGCAGATCGAAGACTGTGAATCTAGGCTTCTTGAAATTG
1 ATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCT-GGCTTCCTGAAGTTG
*
25785995 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTACGCTGAAATTTTA
65 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTACGCTAAAATTTTA
* * * * *
25786060 GATCTTGTTTCCTTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTGGGCTTCCTGAAGTT
130 GATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGCGAACCTAGGCTTCCTGAAGTT
*
25786125 GCAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT-AAAATT
195 ACAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAAATT
*
25786189 TTAG
260 GTAG
* *
25786193 ATCTCGTTTTCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTGGGCTTCCTGAAGTTG
1 ATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCT-GGCTTCCTGAAGTTG
* *
25786258 CAGCGAAGCAGATTTAAGCCACCAACCTAGC-TCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTT
65 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGT-GAGTACGCTAAAATTTT
** *
25786322 AGATCTCGTTTCCCTGAAGTTGTAGTGGAGCAGATCAAAGACGGTGAACCTAGGCTTCCTGAAGT
129 AGATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGCGAACCTAGGCTTCCTGAAGT
* * * * * * *
25786387 TACAGTGAAGTAGATTTAAGCCACTATCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTGAAGAT
194 TACAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAAAT
25786452 TGTAG
259 TGTAG
* * * * * * ** * *
25786457 ATTTTGTCTCCCTAAAGTTGTAGTGGAGCAAATCAAAAACGACGAATCTGTCCTCCTGAAGTTGC
1 ATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTGGCTTCCTGAAGTTGC
25786522 AGTGAAGCAGATTTAAGC
66 AGTGAAGCAGATTTAAGC
25786540 AAGCCTTAAA
Statistics
Matches: 304, Mismatches: 41, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
262 15 0.05
263 242 0.80
264 47 0.15
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (263 bp):
ATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTGGCTTCCTGAAGTTGC
AGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTACGCTAAAATTTTAG
ATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGCGAACCTAGGCTTCCTGAAGTTA
CAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAAATTG
TAG
Found at i:25789701 original size:131 final size:131
Alignment explanation
Indices: 25789451--25789970 Score: 539
Period size: 131 Copynumber: 4.0 Consensus size: 131
25789441 TTCACAATTA
* *
25789451 TTAAGAATTCTTTAAAACGAAGGCAATATTCGAT-TCTTGGCAATTCGTGGAATCGTGCCCTAAC
1 TTAAAAATCCTTTAAAACGAAGGCAATATTCGATGT-TTGGCAATTCG-GGAATCGTGCCCTAAC
* * ** *
25789515 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATGATCGAAGGTCCCTTTAGAATTTCACCCATGT
64 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT
25789580 CTT
129 CTT
* * * * *
25789583 TTAAAAATCCCTT-AAACGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCGTGCCCTAACG
1 TTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAACG
* * * * *
25789647 TGCTGGGTTGCAATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTC
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTC
25789712 TT
130 TT
* * * * ** * *
25789714 CTAAAAATCCTTTAAAACAAAGGCAATATTCGGTGTTTGACAATTCGGGAATTATGCCCTATCTT
1 TTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACGT
** * * *
25789779 GCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATGT-T
66 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCT
25789843 T
131 T
** * * * * * *
25789844 ATTAAAAA-CCTTTCAAAACGAAGGTGATGTTCGATGTTTGGCGATTTGAGAATTGTGCCCTATC
1 -TTAAAAATCCTTT-AAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAAC
** * * * *
25789908 GTGCTGGGTTGCGCTTTTTCTTTTG-TCCAAAATAATCGAAGATCCC-TTCGAAATTTCACTCAT
64 GTGCTGGGTTGCAATTTCTCGTTTGCT-CAAAATAATCGAATATCCCTTTAG-AATTTCACTCAT
25789971 ATTTTCTAAG
Statistics
Matches: 321, Mismatches: 61, Indels: 13
0.81 0.15 0.03
Matches are distributed among these distances:
130 11 0.03
131 273 0.85
132 37 0.12
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (131 bp):
TTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCT
T
Found at i:25789942 original size:262 final size:263
Alignment explanation
Indices: 25789460--25789979 Score: 602
Period size: 262 Copynumber: 2.0 Consensus size: 263
25789450 ATTAAGAATT
* * * *
25789460 CTTTAAAACGAAGGCAATATTCGATTCTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTT
1 CTTTAAAACAAAGGCAATATTCGATTCTTGACAATTCGTGGAATCATGCCCTAACGTGCTGGGTT
** *
25789525 GCAATTTCTCGTTTGCTCAAAATGATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAA
66 GCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGTCTTTTAAAAA
* *
25789590 TCCCTTAAACGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGCTGGGT
131 TCCCTTAAACGAAGGCGATATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
* * *
25789655 TGCAATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAA
196 TGCAATTTCCCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACTCATATCTTCTAAAA
25789720 ATC
261 ATC
* * * *
25789723 CTTTAAAACAAAGGCAATATTCGGTGT-TTGACAATTCG-GGAATTATGCCCTATCTTGCTGGGT
1 CTTTAAAACAAAGGCAATATTCGAT-TCTTGACAATTCGTGGAATCATGCCCTAACGTGCTGGGT
** * * * *
25789786 TGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATGT-TTATTAAA
65 TGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGTCTT-TTAAA
* * * * * * * * *
25789850 AA-CCTTTCAAAACGAAGGTGATGTTCGATGTTTGGCGATTTG-AGAATTGTGCCCTATCGTGCT
129 AATCCCTT--AAACGAAGGCGATATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCT
** ** * * * *
25789913 GGGTTGCGCTTTTTCTTTTG-TCCAAAATAATCGAAGATCCCTTCGAAATTTCACTCATATTTTC
192 GGGTTGCAATTTCCCGTTTGCT-CAAAATAATCAAAGATCCCTTCAAAATTTCACTCATATCTTC
25789977 TAA
256 TAA
25789980 GGCGAGGCAA
Statistics
Matches: 213, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
261 7 0.03
262 146 0.69
263 59 0.28
264 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (263 bp):
CTTTAAAACAAAGGCAATATTCGATTCTTGACAATTCGTGGAATCATGCCCTAACGTGCTGGGTT
GCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGTCTTTTAAAAA
TCCCTTAAACGAAGGCGATATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
TGCAATTTCCCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACTCATATCTTCTAAAA
ATC
Found at i:25791109 original size:44 final size:46
Alignment explanation
Indices: 25791058--25791150 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
25791048 TACAACATCT
*
25791058 ATTCCATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATTTC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCC
*
25791102 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
25791148 ATT
1 ATT
25791151 ACAACTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 2 0.05
46 18 0.41
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
Found at i:25791153 original size:16 final size:16
Alignment explanation
Indices: 25791132--25791185 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
25791122 TGAATTACTG
*
25791132 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
25791148 ATTACAACTCTATTCA
1 ATTACAACTCTATTCC
*
25791164 ATTACAATTCTATTCC
1 ATTACAACTCTATTCC
25791180 ATTACA
1 ATTACA
25791186 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:25791294 original size:35 final size:34
Alignment explanation
Indices: 25791223--25791304 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
25791213 GGAGATTTTG
* *
25791223 ATTTGGGG-GAAATATAAGGGATTTGGGAAAAAA
1 ATTTGGGGAAAAAAATAAGGGATTTGGGAAAAAA
* **
25791256 ATTTAGGGGAAAAAAATAAGGGATTTGGGCAACTA
1 ATTT-GGGGAAAAAAATAAGGGATTTGGGAAAAAA
*
25791291 ATTTGGGGATAAAA
1 ATTTGGGGAAAAAA
25791305 CTAATCCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.10
34 13 0.32
35 24 0.59
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (34 bp):
ATTTGGGGAAAAAAATAAGGGATTTGGGAAAAAA
Done.