Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001985.1 Hibiscus syriacus cultivar Beakdansim tig00004046_pilon, whole genome shotgun sequence
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: 712196
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:5347 original size:45 final size:45
Alignment explanation
Indices: 5259--5347 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
5249 GGATTTTATG
* ****
5259 AAAACATCAAATGCATTTGATGCATCGATGCACTCTGGCTATTTT
1 AAAACATCAAATGCACTTGATGCATCGATGCACTCAAAATATTTT
*
5304 AAAACATCGAATGCACTTGATGCATCGATGCGA-TCAAAATATTT
1 AAAACATCAAATGCACTTGATGCATCGATGC-ACTCAAAATATTT
5348 GAATTTTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (45 bp):
AAAACATCAAATGCACTTGATGCATCGATGCACTCAAAATATTTT
Found at i:13410 original size:21 final size:22
Alignment explanation
Indices: 13381--13421 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13371 GGTTAAAACC
13381 ATAAACTATT-TCGAATGGAGA
1 ATAAACTATTGTCGAATGGAGA
* *
13402 ATAACCTATTGTGGAATGGA
1 ATAAACTATTGTCGAATGGA
13422 TCGGTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (22 bp):
ATAAACTATTGTCGAATGGAGA
Found at i:14219 original size:35 final size:35
Alignment explanation
Indices: 14146--14220 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
14136 CATCACTAAC
**
14146 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
14181 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
14216 AGTAA
1 AGTAA
14221 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:14324 original size:24 final size:24
Alignment explanation
Indices: 14297--14378 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
14287 AATATATCAA
* *
14297 GTCAAGTATCATATCAGAATTCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
14321 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
14345 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
*
14368 GTCAGGTATCA
1 GTCAAGTATCA
14379 TAACATAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.42
24 29 0.58
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:16861 original size:10 final size:9
Alignment explanation
Indices: 16848--16895 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
16838 GGTCAAAGTT
16848 TGGTCAACAG
1 TGGTCAAC-G
16858 TGGTCAACG
1 TGGTCAACG
16867 TGGGTCAAC-
1 T-GGTCAACG
16876 -GGTCAACG
1 TGGTCAACG
16884 -GGTCAACG
1 TGGTCAACG
16892 -GGTC
1 TGGTC
16896 GGGTCAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 12 0.33
9 2 0.06
10 15 0.42
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
TGGTCAACG
Found at i:16889 original size:8 final size:8
Alignment explanation
Indices: 16849--16920 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
16839 GTCAAAGTTT
16849 GGTCAACAG
1 GGTCAAC-G
16858 TGGTCAACGTG
1 -GGTCAAC--G
16869 GGTCAAC-
1 GGTCAACG
16876 GGTCAACG
1 GGTCAACG
16884 GGTCAACG
1 GGTCAACG
16892 GGT---CG
1 GGTCAACG
16897 GGTCAACG
1 GGTCAACG
16905 GGT---CG
1 GGTCAACG
16910 GGTCAACG
1 GGTCAACG
16918 GGT
1 GGT
16921 TGGGTCGGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
5 10 0.19
7 7 0.13
8 21 0.40
10 14 0.26
11 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.40, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:16900 original size:13 final size:13
Alignment explanation
Indices: 16882--16970 Score: 106
Period size: 13 Copynumber: 6.5 Consensus size: 13
16872 CAACGGTCAA
16882 CGGGTCAACGGGT
1 CGGGTCAACGGGT
16895 CGGGTCAACGGGT
1 CGGGTCAACGGGT
16908 CGGGTCAACGGGTTGGGT
1 CGGGTCAAC-----GGGT
*
16926 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
16939 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
16952 CGGGTAAACGGGT
1 CGGGTCAACGGGT
16965 CGGGTC
1 CGGGTC
16971 GGGTCGGGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
13 54 0.81
18 13 0.19
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:16913 original size:18 final size:18
Alignment explanation
Indices: 16903--16943 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
16893 GTCGGGTCAA
16903 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
16921 TGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
16939 CGGGT
1 CGGGT
16944 AAACGGGTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.49, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:16929 original size:31 final size:31
Alignment explanation
Indices: 16890--16956 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
16880 AACGGGTCAA
*
16890 CGGGTCGGGTCAACGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
* *
16921 TGGGTCGGGTCAACTGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
16952 CGGGT
1 CGGGT
16957 AAACGGGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.19, G:0.48, T:0.19
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
Found at i:16940 original size:44 final size:44
Alignment explanation
Indices: 16882--16975 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
16872 CAACGGTCAA
* * *
16882 CGGGTCAACGGGTCGGGTCAACGGGTCGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
*
16926 CGGGTCAACTGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
16970 CGGGTC
1 CGGGTC
16976 GGGTTATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18
Consensus pattern (44 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
Found at i:19080 original size:35 final size:35
Alignment explanation
Indices: 19007--19081 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
18997 CGTCACTAAC
**
19007 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
19042 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
19077 AGTAA
1 AGTAA
19082 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:19193 original size:24 final size:23
Alignment explanation
Indices: 19165--19242 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
19155 TATCAAGTCA
* *
19165 AGTATCATATCAGAATTCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
19188 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
19212 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
19235 AGGTATCA
1 A-GTATCA
19243 TAACATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 22 0.47
24 25 0.53
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:21718 original size:10 final size:9
Alignment explanation
Indices: 21705--21752 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
21695 GTCAAAGTTT
21705 TGGTCAACAG
1 TGGTCAAC-G
21715 TGGTCAACG
1 TGGTCAACG
21724 TGGGTCAAC-
1 T-GGTCAACG
21733 -GGTCAACG
1 TGGTCAACG
21741 -GGTCAACG
1 TGGTCAACG
21749 -GGTC
1 TGGTC
21753 GGGTCAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 12 0.33
9 2 0.06
10 15 0.42
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
TGGTCAACG
Found at i:21746 original size:8 final size:8
Alignment explanation
Indices: 21706--21777 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
21696 TCAAAGTTTT
21706 GGTCAACAG
1 GGTCAAC-G
21715 TGGTCAACGTG
1 -GGTCAAC--G
21726 GGTCAAC-
1 GGTCAACG
21733 GGTCAACG
1 GGTCAACG
21741 GGTCAACG
1 GGTCAACG
21749 GGT---CG
1 GGTCAACG
21754 GGTCAACG
1 GGTCAACG
21762 GGT---CG
1 GGTCAACG
21767 GGTCAACG
1 GGTCAACG
21775 GGT
1 GGT
21778 TGGGTCGGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
5 10 0.19
7 7 0.13
8 21 0.40
10 14 0.26
11 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.40, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:21757 original size:13 final size:13
Alignment explanation
Indices: 21739--21827 Score: 106
Period size: 13 Copynumber: 6.5 Consensus size: 13
21729 CAACGGTCAA
21739 CGGGTCAACGGGT
1 CGGGTCAACGGGT
21752 CGGGTCAACGGGT
1 CGGGTCAACGGGT
21765 CGGGTCAACGGGTTGGGT
1 CGGGTCAAC-----GGGT
*
21783 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
21796 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
21809 CGGGTAAACGGGT
1 CGGGTCAACGGGT
21822 CGGGTC
1 CGGGTC
21828 GGGTCGGGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
13 54 0.81
18 13 0.19
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:21770 original size:18 final size:18
Alignment explanation
Indices: 21760--21800 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
21750 GTCGGGTCAA
21760 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
21778 TGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
21796 CGGGT
1 CGGGT
21801 AAACGGGTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.49, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:21786 original size:31 final size:31
Alignment explanation
Indices: 21747--21813 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
21737 AACGGGTCAA
*
21747 CGGGTCGGGTCAACGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
* *
21778 TGGGTCGGGTCAACTGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
21809 CGGGT
1 CGGGT
21814 AAACGGGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.19, G:0.48, T:0.19
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
Found at i:21797 original size:44 final size:44
Alignment explanation
Indices: 21739--21832 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
21729 CAACGGTCAA
* * *
21739 CGGGTCAACGGGTCGGGTCAACGGGTCGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
*
21783 CGGGTCAACTGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
21827 CGGGTC
1 CGGGTC
21833 GGGTTATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18
Consensus pattern (44 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
Found at i:32022 original size:18 final size:18
Alignment explanation
Indices: 31999--32045 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
31989 ATATAAAGTA
31999 GTATCGGTA-CACCTTTGG
1 GTATCGGTATC-CCTTTGG
32017 GTATCGGTATCCCTTTGG
1 GTATCGGTATCCCTTTGG
32035 GTATCGGTATC
1 GTATCGGTATC
32046 ATTTTTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.36
Consensus pattern (18 bp):
GTATCGGTATCCCTTTGG
Found at i:35267 original size:18 final size:18
Alignment explanation
Indices: 35243--35322 Score: 108
Period size: 18 Copynumber: 4.5 Consensus size: 18
35233 CAACACTACG
* *
35243 TCTGATAATTGTAAAACA
1 TCTGATAACTGTAAATCA
*
35261 CCTGATAACTGTAAATCA
1 TCTGATAACTGTAAATCA
35279 TCTGATAACTGTAAATCA
1 TCTGATAACTGTAAATCA
*
35297 TCTGATAATTGTAAAT-A
1 TCTGATAACTGTAAATCA
*
35314 TATGATAAC
1 TCTGATAAC
35323 GGTGAAATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 8 0.15
18 47 0.85
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
TCTGATAACTGTAAATCA
Found at i:36163 original size:20 final size:20
Alignment explanation
Indices: 36138--36192 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
36128 CTTAGTCTTT
36138 CATCTATCTGGCATAAATGA
1 CATCTATCTGGCATAAATGA
*
36158 CATCTATCTAGCATAAATGA
1 CATCTATCTGGCATAAATGA
* *
36178 CATCTTTCTGTCATA
1 CATCTATCTGGCATA
36193 TGCACAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
CATCTATCTGGCATAAATGA
Found at i:37228 original size:59 final size:59
Alignment explanation
Indices: 36425--37227 Score: 991
Period size: 59 Copynumber: 13.8 Consensus size: 59
36415 TTTCCCATAC
* *
36425 GGAAATTCATACACTTAGTATGAATTT-C---TCAGTTT-GCAC-CCATAGTGCCCCTA-C-
1 GGAAATTCATACACTTAGTATG-ATTTCCTTATCATTTTAGCACACGA-AGTG-CCCTATCT
* * * * * ** * **
36479 AGAAATTAATACACTTAGTATGATTT-CTTAACGTTTTAGCGCACGAAACGCTCTATAG
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* * * *** * ** *
36537 GGAAATTCATACACTTAGTAGGATTT-ATTAACATTTTAGTGTATGAAACGCCCTATAT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* ** * * *
36595 GGAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAATGCCTTATAT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* ** ** *
36653 GGAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTATAT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* * *
36711 GGAAATTCATACAATTAATATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* * *
36770 GGAAATTCATACACTTAGAATGATTTCCTTATCATTTTAGCACATGAACTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* *
36829 AGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCAAACGAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* * *
36888 GGAAATTCATACACTTAGTATGATTTCCTTATCATTATAGCACAAGAAGTGCCTTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* *
36947 GGAAATTCATACACTTAGTATGATTCCCTTATCATTTTAGGACACGAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
*
37006 GGAGATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* * *
37065 GGAAATTTATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCCCTTTCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* *
37124 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGTCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
* * *
37183 AGAAATTCATACACATAGTATGAGTTCCTTATCATTTTAGCACAC
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
37228 TTAGTGCCAT
Statistics
Matches: 669, Mismatches: 72, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
53 5 0.01
54 20 0.03
56 8 0.01
57 5 0.01
58 182 0.27
59 449 0.67
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
Found at i:40124 original size:23 final size:22
Alignment explanation
Indices: 40095--40158 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
40085 CAGCTCGTAT
*
40095 AAATGCACCGGAGTGCCACGTAG
1 AAATGCACCGAAGTGCCA-GTAG
* *
40118 AATTGCACCGAAGTGTCGAGTAG
1 AAATGCACCGAAGTG-CCAGTAG
40141 AAATGCACC-ATAGTGCCA
1 AAATGCACCGA-AGTGCCA
40159 TATAAGATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.09
23 29 0.85
24 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (22 bp):
AAATGCACCGAAGTGCCAGTAG
Found at i:45810 original size:2 final size:2
Alignment explanation
Indices: 45803--45878 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
45793 ACTTATTAAC
45803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
45845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45879 CCACGCATAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46209 original size:30 final size:30
Alignment explanation
Indices: 46148--46277 Score: 201
Period size: 30 Copynumber: 4.3 Consensus size: 30
46138 GAAGGACCTA
* *
46148 TCCAGAGGTCACAAAGA-CAC-CGGTAATTG
1 TCCAGAGGTCATAAAGATC-CTCGGTAACTG
46177 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
46207 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
46237 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
46268 TCCATAGGTC
1 TCCAGAGGTC
46278 CCGAAGAACC
Statistics
Matches: 95, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
29 17 0.18
30 64 0.67
31 14 0.15
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:46294 original size:31 final size:31
Alignment explanation
Indices: 46175--46327 Score: 96
Period size: 30 Copynumber: 5.0 Consensus size: 31
46165 CACCGGTAAT
* ** * *
46175 TGTCCAGAGGTCATAAAGATCCTCGGT-AAC
1 TGTCCATAGGTCACGAAGAACCTAGGTAAAC
* ** * *
46205 TGTCCAGAGGTCATAAAGATCCTCGGT-AAC
1 TGTCCATAGGTCACGAAGAACCTAGGTAAAC
* ** * *
46235 TGTCCAGAGGTCATAAAGATCCTCGGTAAAC
1 TGTCCATAGGTCACGAAGAACCTAGGTAAAC
*
46266 TGTCCATAGGTCCCGAAGAACCTAGGTAAAC
1 TGTCCATAGGTCACGAAGAACCTAGGTAAAC
* * * *
46297 TTTCCATATGTCTCGAA-AGACATAGGTAAAC
1 TGTCCATAGGTCACGAAGA-ACCTAGGTAAAC
46328 CCTCGACTCT
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
30 58 0.52
31 53 0.48
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (31 bp):
TGTCCATAGGTCACGAAGAACCTAGGTAAAC
Found at i:47138 original size:21 final size:21
Alignment explanation
Indices: 47084--47140 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
47074 ATGTTAACAC
47084 ATATA-ATCATGCATACATACA
1 ATATATATCATGCATA-ATACA
* *
47105 ATTTATGTCATGCAT-ATACA
1 ATATATATCATGCATAATACA
47125 TATATATATCATGCAT
1 -ATATATATCATGCAT
47141 TAAACATAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.17
21 17 0.57
22 8 0.27
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (21 bp):
ATATATATCATGCATAATACA
Found at i:47499 original size:21 final size:20
Alignment explanation
Indices: 47469--47512 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
47459 AATTCTGTCG
* *
47469 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
47489 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
47510 TTG
1 TTG
47513 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:48694 original size:2 final size:2
Alignment explanation
Indices: 48687--48716 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48677 TGCACCTTTC
*
48687 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48717 CCACGCATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:49045 original size:30 final size:30
Alignment explanation
Indices: 48989--49232 Score: 445
Period size: 30 Copynumber: 8.1 Consensus size: 30
48979 GAAGGACCTA
* *
48989 TCCAGAGGTCACAAAGA-CCCCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
49018 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
49048 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
49078 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
49108 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
49138 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
49168 TCCAGAGGTCATAAAGATCCTTGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
49198 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
49229 TCCA
1 TCCA
49233 TATGTCTCGA
Statistics
Matches: 209, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
29 16 0.08
30 184 0.88
31 9 0.04
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:49977 original size:22 final size:22
Alignment explanation
Indices: 49933--49974 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49923 TAAATCAATT
*
49933 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
49955 TCATATAACTTC-ATAACCTT
1 TCATATAACTCCTATAACCTT
49975 TCTTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:50452 original size:21 final size:21
Alignment explanation
Indices: 50422--50466 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50412 ATTCTGTCGT
* *
50422 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
50443 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
50464 TTG
1 TTG
50467 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:53547 original size:2 final size:2
Alignment explanation
Indices: 53540--53578 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
53530 TGCACCTTTC
53540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53579 CACATCCACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53914 original size:30 final size:30
Alignment explanation
Indices: 53856--54129 Score: 505
Period size: 30 Copynumber: 9.1 Consensus size: 30
53846 GAAGGACCTA
* * *
53856 TCCAGAGGTCACAAAGA-CCCCAGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
53885 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
53915 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
53945 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
53975 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
54005 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
54035 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
54065 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
54095 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
54126 TCCA
1 TCCA
54130 TATGTCTCGA
Statistics
Matches: 240, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
29 16 0.07
30 215 0.90
31 9 0.04
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:54878 original size:22 final size:22
Alignment explanation
Indices: 54834--54875 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
54824 TAAATCAATT
*
54834 TCATATAACTCCTATAATCTTC
1 TCATATAACTCCTATAACCTTC
*
54856 TCATATAACTTC-ATAACCTT
1 TCATATAACTCCTATAACCTT
54876 TCTTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TCATATAACTCCTATAACCTTC
Found at i:55353 original size:21 final size:21
Alignment explanation
Indices: 55323--55367 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
55313 ATTCTGTCGT
* *
55323 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
55344 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
55365 TTG
1 TTG
55368 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:61234 original size:15 final size:15
Alignment explanation
Indices: 61203--61288 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 15
61193 AGATCCAATC
61203 AAGAA-CAAAAAAGAA
1 AAGAAGCAAAAAA-AA
61218 AAGAAGCAAAAAAAA
1 AAGAAGCAAAAAAAA
* *
61233 AACAAAGAAAAAGAGAAA
1 AA-GAAGCAAAA-A-AAA
61251 CAAGAA-CAAAAGGAAAA
1 -AAGAAGCAAAA--AAAA
61268 AAG-AGCAAAAATCAAA
1 AAGAAGCAAAAA--AAA
61284 AAGAA
1 AAGAA
61289 AAAGGGACAA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
14 1 0.02
15 10 0.18
16 28 0.49
17 9 0.16
18 7 0.12
19 2 0.04
ACGTcount: A:0.76, C:0.08, G:0.15, T:0.01
Consensus pattern (15 bp):
AAGAAGCAAAAAAAA
Found at i:61266 original size:16 final size:17
Alignment explanation
Indices: 61203--61277 Score: 54
Period size: 16 Copynumber: 4.6 Consensus size: 17
61193 AGATCCAATC
*
61203 AAGAACAAAAAAGAAAA
1 AAGAACAAAAGAGAAAA
61220 GAAGCAA-AAAA-A-AAACA
1 -AAG-AACAAAAGAGAAA-A
*
61237 AAG-A-AAAAGAGAAAC
1 AAGAACAAAAGAGAAAA
61252 AAGAACAAAAG-GAAAA
1 AAGAACAAAAGAGAAAA
*
61268 AAGAGCAAAA
1 AAGAACAAAA
61278 ATCAAAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
14 5 0.10
15 4 0.08
16 23 0.48
17 7 0.15
18 7 0.15
19 2 0.04
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (17 bp):
AAGAACAAAAGAGAAAA
Found at i:61953 original size:22 final size:22
Alignment explanation
Indices: 61928--61976 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
61918 CCATCAATCT
* *
61928 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
61950 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
61972 TTTGA
1 TTTGA
61977 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:62413 original size:18 final size:18
Alignment explanation
Indices: 62390--62425 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62380 TCAACATCAA
* *
62390 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
62408 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
62426 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:62948 original size:36 final size:36
Alignment explanation
Indices: 62905--63186 Score: 294
Period size: 36 Copynumber: 8.0 Consensus size: 36
62895 ACTAGAAGAG
62905 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
62941 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
62977 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
63013 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * ***
63049 ------ATAT-TTGA-ATATGTTTTATTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** * *
63078 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
63115 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
63150 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
63187 ACCTTTGAAT
Statistics
Matches: 204, Mismatches: 30, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 17 0.08
30 2 0.01
35 6 0.03
36 143 0.70
37 34 0.17
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:62948 original size:71 final size:73
Alignment explanation
Indices: 62863--63035 Score: 228
Period size: 72 Copynumber: 2.4 Consensus size: 73
62853 GTTTTTCTTA
* * * * * *
62863 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
62925 TTTCCCTTG
65 TTTCCCTTG
* *
62934 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
62998 TTCCCTTG
66 TTCCCTTG
*
63006 AAATAAATTTTGTCTCTCTTGAGACAGTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTT
63036 CCCTTGAAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
70 8 0.09
71 25 0.28
72 54 0.61
73 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:63178 original size:138 final size:137
Alignment explanation
Indices: 62931--63248 Score: 386
Period size: 138 Copynumber: 2.3 Consensus size: 137
62921 ACAGTTTCCC
** *
62931 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
* * *
62996 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATATTTGAATAT
66 GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATAT
63061 GTTTTAT
131 GTTTTAT
* * * * *
63068 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGAC
* * *
63133 AGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAAT
65 AGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAAT
* * ***
63197 TTATTTCCC
129 ATGTTTTAT
* * *** *
63206 CTAAAACAAATTTTATCTCCCTTGAGACAGTTACTCTTGAAAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAAC
63249 CCAAAATCTT
Statistics
Matches: 152, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
137 44 0.29
138 108 0.71
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (137 bp):
TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATAT
GTTTTAT
Found at i:63279 original size:67 final size:67
Alignment explanation
Indices: 63161--63316 Score: 199
Period size: 68 Copynumber: 2.3 Consensus size: 67
63151 TTTCGTCTAT
* **
63161 CTTGAGACAGTTTCCCTTGAAA-CAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTATCT
1 CTTGAGACAGTTTCTCTTGAAACCAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATCT
63224 CC
66 CC
* * * * *
63226 CTTGAGACAGTTACTCTTGAAACCCAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAA-CCAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
63291 TCC
65 TCC
* *
63294 CTTGAGACCGTTTCTCATGAAAC
1 CTTGAGACAGTTTCTCTTGAAAC
63317 AACAGATATC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 20 0.26
67 28 0.36
68 29 0.38
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (67 bp):
CTTGAGACAGTTTCTCTTGAAACCAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATCT
CC
Found at i:64087 original size:105 final size:104
Alignment explanation
Indices: 63922--64371 Score: 674
Period size: 105 Copynumber: 4.3 Consensus size: 104
63912 GCCATCCGCG
* * * * *
63922 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGATAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
63987 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTT-TCAATCTCAGAGCCA
* *
64030 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
64095 ACCGCTGCTTGTCAACAACAACTTTCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTT-CAATCTCAGAGCCA
*
64135 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
64200 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTT-TCAATCTCAGAGCCA
64240 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
64305 ACCGCTGCTTGTCAATAA-AA-TTTC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTTCAATCTCAGAGCCA
* *
64340 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
64372 TGAACAATGC
Statistics
Matches: 319, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
100 37 0.12
101 2 0.01
102 1 0.00
103 2 0.01
104 3 0.01
105 249 0.78
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTTCAATCTCAGAGCCA
Found at i:66597 original size:2 final size:2
Alignment explanation
Indices: 66590--66653 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
66580 TGCACCTTTC
66590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
66632 AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
66654 CCACGCATAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66983 original size:30 final size:30
Alignment explanation
Indices: 66926--67055 Score: 208
Period size: 30 Copynumber: 4.3 Consensus size: 30
66916 GAAGGACCTA
* *
66926 TCCAGAGGTCACAAAGACCCT-GGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
66955 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
66985 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
67015 TCCAGTGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
67046 TCCATAGGTC
1 TCCAGAGGTC
67056 CCGAAGAACC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 19 0.20
30 62 0.66
31 13 0.14
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:67072 original size:31 final size:31
Alignment explanation
Indices: 67028--67104 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
67018 AGTGGTCATA
* *
67028 AAGATCCTCGGTAAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAAACTGTCCATAGGTCCCG
* * *
67059 AAGAACCTAGGTAAACTTTCCATATGTCTCG
1 AAGAACCTAGGTAAACTGTCCATAGGTCCCG
*
67090 AA-AGACATAGGTAAA
1 AAGA-ACCTAGGTAAA
67105 TCCTCGACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGAACCTAGGTAAACTGTCCATAGGTCCCG
Found at i:68285 original size:21 final size:21
Alignment explanation
Indices: 68255--68299 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
68245 ATTCTGTCGT
* *
68255 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
68276 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
68297 TTG
1 TTG
68300 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:76540 original size:41 final size:41
Alignment explanation
Indices: 76478--76611 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 41
76468 AAATTCGCAA
* ** *
76478 CAAATTCGCAACGCGATTATGTAAATCGCATTGCGATTTTC
1 CAAATTCGCAACGCGAATATGTAAATCGCAACGCGAATTTC
* * * *
76519 CAAATTTGCAACACGAATATGTAAATTGCAACGCGAATTTG
1 CAAATTCGCAACGCGAATATGTAAATCGCAACGCGAATTTC
* * * *
76560 GAAAATCGCAACGCGAATTTGTAAATCGCAACACAGAA-TT-
1 CAAATTCGCAACGCGAATATGTAAATCGCAACGC-GAATTTC
76600 CAAATTCGCAAC
1 CAAATTCGCAAC
76612 ACAAAAGTCA
Statistics
Matches: 75, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
40 10 0.13
41 62 0.83
42 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
CAAATTCGCAACGCGAATATGTAAATCGCAACGCGAATTTC
Found at i:76565 original size:21 final size:21
Alignment explanation
Indices: 76524--76580 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
76514 TTTTCCAAAT
* * *
76524 TTGCAACACGAATAT-GTAAA
1 TTGCAACGCGAATTTGGAAAA
76544 TTGCAACGCGAATTTGGAAAA
1 TTGCAACGCGAATTTGGAAAA
*
76565 TCGCAACGCGAATTTG
1 TTGCAACGCGAATTTG
76581 TAAATCGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (21 bp):
TTGCAACGCGAATTTGGAAAA
Found at i:76608 original size:20 final size:19
Alignment explanation
Indices: 76519--76729 Score: 122
Period size: 20 Copynumber: 10.7 Consensus size: 19
76509 TGCGATTTTC
*
76519 CAAATTTGCAACACGAATAT
1 CAAATTCGCAACACGAAT-T
* *
76539 GTAAATT-GCAACGCGAATTT
1 -CAAATTCGCAACACGAA-TT
* * *
76559 GGAAAATCGCAACGCGAATTT
1 -CAAATTCGCAACACGAA-TT
*
76580 GTAAA-TCGCAACACAGAATT
1 -CAAATTCGCAACAC-GAATT
* *
76600 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACAC-GAATT
*
76620 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACAC-GAATT
** * *
76640 CAAATTCGCAATGCTATTT
1 CAAATTCGCAACACGAATT
*
76659 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACACGAA-TT
* *
76678 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGA-ATT
*
76698 CGAATTCGCAACACGAATT
1 CAAATTCGCAACACGAATT
* *
76717 TAATTTCGCAACA
1 CAAATTCGCAACA
76730 GGTTTTAGTT
Statistics
Matches: 156, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.01
19 42 0.27
20 87 0.56
21 26 0.17
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (19 bp):
CAAATTCGCAACACGAATT
Found at i:76663 original size:19 final size:19
Alignment explanation
Indices: 76639--76728 Score: 94
Period size: 19 Copynumber: 4.7 Consensus size: 19
76629 AACACAGAAG
*
76639 TCAAATTCGCAA-TGCTATT
1 TCAAATTCGCAACTG-AATT
76658 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
76677 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
* *
76697 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
76717 T-AATTTCGCAAC
1 TCAAATTCGCAAC
76729 AGGTTTTAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
19 38 0.62
20 23 0.38
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:76704 original size:39 final size:40
Alignment explanation
Indices: 76585--76728 Score: 129
Period size: 39 Copynumber: 3.7 Consensus size: 40
76575 AATTTGTAAA
** * **
76585 TCGCAACACAGAA-TTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACAC-GAATTTCAAATTCGCAACTGATATTTCAAAT
* *
76625 TCGCAACACAGAA-GTCAAATTCGCAA-TGCTATTTCAAAT
1 TCGCAACAC-GAATTTCAAATTCGCAACTGATATTTCAAAT
* *
76664 TCGCAAC-TGAATTTCAAATTCGCAACTCGAT-TTTCGAAT
1 TCGCAACACGAATTTCAAATTCGCAACT-GATATTTCAAAT
*
76703 TCGCAACACGAATTT-AATTTCGCAAC
1 TCGCAACACGAATTTCAAATTCGCAAC
76729 AGGTTTTAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
37 3 0.03
38 12 0.14
39 39 0.45
40 33 0.38
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (40 bp):
TCGCAACACGAATTTCAAATTCGCAACTGATATTTCAAAT
Found at i:77535 original size:12 final size:12
Alignment explanation
Indices: 77514--77547 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
77504 ACCACATTTC
*
77514 CAATACCAAACA
1 CAATATCAAACA
77526 CAATATCAAACA
1 CAATATCAAACA
*
77538 CAATCTCAAA
1 CAATATCAAA
77548 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:80099 original size:20 final size:20
Alignment explanation
Indices: 80074--80152 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
80064 TCGAAAATCG
80074 CAACGCGAATTTGACTATCA
1 CAACGCGAATTTGACTATCA
80094 CAACGCGAA----A--ATCA
1 CAACGCGAATTTGACTATCA
* *
80108 CAATGCGAATTTGACTATCG
1 CAACGCGAATTTGACTATCA
*
80128 CAATGCGAATTTGACTATCA
1 CAACGCGAATTTGACTATCA
80148 CAACG
1 CAACG
80153 AGAAAATCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
14 12 0.24
16 1 0.02
18 1 0.02
20 35 0.71
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (20 bp):
CAACGCGAATTTGACTATCA
Found at i:80103 original size:34 final size:34
Alignment explanation
Indices: 80065--80136 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
80055 ATTCGCAAAT
*
80065 CGAAAATCGCAACGCGAATTTGACTATCACAACG
1 CGAAAATCACAACGCGAATTTGACTATCACAACG
* * *
80099 CGAAAATCACAATGCGAATTTGACTATCGCAATG
1 CGAAAATCACAACGCGAATTTGACTATCACAACG
80133 CGAA
1 CGAA
80137 TTTGACTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (34 bp):
CGAAAATCACAACGCGAATTTGACTATCACAACG
Found at i:80190 original size:54 final size:54
Alignment explanation
Indices: 80070--80182 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
80060 CAAATCGAAA
* * * *
80070 ATCGCAACGCGAATTTGACTATCACAACGCGAAAATCACAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACTATCACAACGAGAAAATCACAACGCAAATTTGACT
80124 ATCGCAATGCGAATTTGACTATCACAACGAGAAAATCACAACGCAAATTTGACT
1 ATCGCAATGCGAATTTGACTATCACAACGAGAAAATCACAACGCAAATTTGACT
*
80178 TTCGC
1 ATCGC
80183 GTTGCGAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (54 bp):
ATCGCAATGCGAATTTGACTATCACAACGAGAAAATCACAACGCAAATTTGACT
Found at i:81752 original size:21 final size:21
Alignment explanation
Indices: 81692--81789 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
81682 ATGAATCGGG
* *
81692 CTCTTGAACGGT-AGACGGGAC
1 CTCTTGAACGATGAGA-GGGGC
*
81713 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
81734 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
81755 CTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGATGAGAGGGGC
81776 CTCTTGAACGATGA
1 CTCTTGAACGATGA
81790 TAGGTGCATC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 60 0.94
22 3 0.05
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:82200 original size:63 final size:63
Alignment explanation
Indices: 82104--82243 Score: 149
Period size: 63 Copynumber: 2.2 Consensus size: 63
82094 AAAGTAGATT
* * *
82104 CCTCACCACGTAACGCACCATTGCCATCGCGTAAAAAAGCC-ACCTCACCACGTAAAG-ACCGAA
1 CCTCATCACGTAACGCACCATTGCCATCACGTAAAAAA-CCGACCTCACCACGCAAAGCACCG-A
* * * * ** **
82167 CCTCATCACGTCATGCACCATTGTCTTCACGTAAAGTACCGACCTCATGACGCAAAGCACCGA
1 CCTCATCACGTAACGCACCATTGCCATCACGTAAAAAACCGACCTCACCACGCAAAGCACCGA
82230 CCTCATCACGTAAC
1 CCTCATCACGTAAC
82244 TCCCCTAACT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
62 2 0.03
63 56 0.90
64 4 0.06
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.17
Consensus pattern (63 bp):
CCTCATCACGTAACGCACCATTGCCATCACGTAAAAAACCGACCTCACCACGCAAAGCACCGA
Found at i:83965 original size:20 final size:20
Alignment explanation
Indices: 83940--84019 Score: 117
Period size: 20 Copynumber: 4.0 Consensus size: 20
83930 ACTTAAATTT
*
83940 GCAACGCAAAAATGAAAATC
1 GCAACGCGAAAATGAAAATC
83960 GCAACGCGAAAATGAAAATC
1 GCAACGCGAAAATGAAAATC
* *
83980 GCAATGCGAACATGAAAATC
1 GCAACGCGAAAATGAAAATC
*
84000 ACAACGCGAAAAT-AAAATC
1 GCAACGCGAAAATGAAAATC
84019 G
1 G
84020 TGTTGCGATT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 6 0.11
20 47 0.89
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.11
Consensus pattern (20 bp):
GCAACGCGAAAATGAAAATC
Found at i:84046 original size:20 final size:20
Alignment explanation
Indices: 84021--84067 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
84011 ATAAAATCGT
84021 GTTGCGATTTTCATGTTCGC
1 GTTGCGATTTTCATGTTCGC
* *
84041 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATGTTCGC
84061 GTTGCGA
1 GTTGCGA
84068 ATTTAAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.47
Consensus pattern (20 bp):
GTTGCGATTTTCATGTTCGC
Found at i:84613 original size:20 final size:21
Alignment explanation
Indices: 84590--84677 Score: 105
Period size: 20 Copynumber: 4.4 Consensus size: 21
84580 TGACTTCTGT
84590 GTTGCGAA-TTACAAATTCGC
1 GTTGCGAATTTACAAATTCGC
*
84610 GTTGC-AATTTACAAATTCGT
1 GTTGCGAATTTACAAATTCGC
84630 GTTGCG-ATTTACATAA-TCGC
1 GTTGCGAATTTACA-AATTCGC
* *
84650 GTTGCGAATTTAGAAATTTG-
1 GTTGCGAATTTACAAATTCGC
84670 GTTGCGAA
1 GTTGCGAA
84678 ATAGGAGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.03
20 47 0.80
21 10 0.17
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (21 bp):
GTTGCGAATTTACAAATTCGC
Found at i:84635 original size:40 final size:40
Alignment explanation
Indices: 84588--84696 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
84578 ATTGACTTCT
84588 GTGTTGCGAATTACAAATTCGCGTTGCAATTTACAAATTC
1 GTGTTGCGAATTACAAATTCGCGTTGCAATTTACAAATTC
* * *
84628 GTGTTGCGATTTACATAA-TCGCGTTGCGAATTTAGAAATTT
1 GTGTTGCGAATTACA-AATTCGCGTTGC-AATTTACAAATTC
* ** *
84669 G-GTTGCGAAATAGGAGTTCGCGTTGCAA
1 GTGTTGCGAATTACAAATTCGCGTTGCAA
84697 ATTTGTTGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.05
40 41 0.71
41 14 0.24
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (40 bp):
GTGTTGCGAATTACAAATTCGCGTTGCAATTTACAAATTC
Found at i:87481 original size:12 final size:12
Alignment explanation
Indices: 87466--87511 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
87456 CGGATTTTTT
*
87466 ACCGGATAAAAA
1 ACCGGTTAAAAA
87478 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
87493 ACCGGTTAAAAA
1 ACCGGTTAAAAA
87505 ACCGGTT
1 ACCGGTT
87512 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:87493 original size:15 final size:13
Alignment explanation
Indices: 87472--87512 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
87462 TTTTACCGGA
87472 TAAAAAACCGGTT
1 TAAAAAACCGGTT
87485 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
87499 TAAAAAACCGGTT
1 TAAAAAACCGGTT
87512 T
1 T
87513 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:89825 original size:21 final size:21
Alignment explanation
Indices: 89801--89841 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
89791 TTTATTTTAT
89801 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
89822 AACTTTGTTTCAATTATCGT
1 AACTTTATTTCAATTATCGT
89842 GGTGGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:92276 original size:33 final size:33
Alignment explanation
Indices: 92223--92321 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
92213 TTTGTTTCAA
92223 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
*
92255 TTATCGAACTTGGAAGTTTTTAATTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
92288 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
92321 T
1 T
92322 ATGTTGAGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 11 0.18
33 50 0.82
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:92350 original size:13 final size:13
Alignment explanation
Indices: 92307--92361 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
92297 TTGGAAGTAT
92307 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
92320 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
92334 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
92347 TTAAGTATTTGAA
1 TTAAGTATTTCAA
92360 TT
1 TT
92362 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:92748 original size:22 final size:22
Alignment explanation
Indices: 92695--92751 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
92685 CATTCAGTGA
*
92695 GGAATCGGTACCCCCTTGGGGG
1 GGAATCGGTTCCCCCTTGGGGG
92717 GGAATCGGTTCCCCCTTGGGGG
1 GGAATCGGTTCCCCCTTGGGGG
92739 GGAATCGGTTCCC
1 GGAATCGGTTCCC
92752 TATGAGCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.28, G:0.39, T:0.21
Consensus pattern (22 bp):
GGAATCGGTTCCCCCTTGGGGG
Found at i:92809 original size:17 final size:18
Alignment explanation
Indices: 92789--92822 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92779 GTTTTTTTAT
92789 AACCG-GTTTTTTAAAAA
1 AACCGTGTTTTTTAAAAA
*
92806 AACCGTTTTTTTTAAAA
1 AACCGTGTTTTTTAAAA
92823 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (18 bp):
AACCGTGTTTTTTAAAAA
Found at i:92942 original size:15 final size:17
Alignment explanation
Indices: 92916--92947 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92906 TTCTATGGGA
92916 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
92932 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
92948 CAGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:94978 original size:135 final size:135
Alignment explanation
Indices: 94808--95077 Score: 540
Period size: 135 Copynumber: 2.0 Consensus size: 135
94798 TCGCATCTTT
94808 CATTAAATAGCCATTATAAACAGATAAAAATACACCAATGGTTATCAACAAGTGAACTCGATGTT
1 CATTAAATAGCCATTATAAACAGATAAAAATACACCAATGGTTATCAACAAGTGAACTCGATGTT
94873 GAACCACAAACATCAACCAGTTGAATCAATGTGATTAAACAGTATTAAACTAACCTCCACAAGCC
66 GAACCACAAACATCAACCAGTTGAATCAATGTGATTAAACAGTATTAAACTAACCTCCACAAGCC
94938 AATCA
131 AATCA
94943 CATTAAATAGCCATTATAAACAGATAAAAATACACCAATGGTTATCAACAAGTGAACTCGATGTT
1 CATTAAATAGCCATTATAAACAGATAAAAATACACCAATGGTTATCAACAAGTGAACTCGATGTT
95008 GAACCACAAACATCAACCAGTTGAATCAATGTGATTAAACAGTATTAAACTAACCTCCACAAGCC
66 GAACCACAAACATCAACCAGTTGAATCAATGTGATTAAACAGTATTAAACTAACCTCCACAAGCC
95073 AATCA
131 AATCA
95078 ACCAAAATCC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 135 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (135 bp):
CATTAAATAGCCATTATAAACAGATAAAAATACACCAATGGTTATCAACAAGTGAACTCGATGTT
GAACCACAAACATCAACCAGTTGAATCAATGTGATTAAACAGTATTAAACTAACCTCCACAAGCC
AATCA
Found at i:98823 original size:2 final size:2
Alignment explanation
Indices: 98816--98848 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
98806 GGATTGTCTC
98816 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98849 GAAGGTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99330 original size:182 final size:182
Alignment explanation
Indices: 99004--99857 Score: 1146
Period size: 182 Copynumber: 4.7 Consensus size: 182
98994 TGTCGGTTTA
* * *
99004 TGTCAATACGTTAT-AAAAT-TATCGATCCACATC-ATTATAACAGG-AAAAATATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGA-TATAACAGGTAAAAATATGACAAAACC
* * * * * **
99065 GGTCACGAAAAGACAAAATCGGTAAAGCGCTACTAGATATATTGAAAGTGTCGATACTTTAATAT
65 GGTCTCTAAAGGACAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATAT
* * * * *
99130 AAGTATCGACACTTTGTGAATTTAAAAGATAAACAGTTTTAACGCCTTTAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
* * * * *
99183 TATCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGAAAAAATATGACAAAATCA
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* ** * *
99248 GTCTCTAAAGGACAAAACCGGTAAAGCGCTACATGATATATTAAAAGTCTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
99313 AGTATCGACATTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCATATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
*
99365 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * *
99430 GTCTCTAGAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTTGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
99495 AGTATC-ACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
* * *
99546 TGTCGATATTTTATAATAATGTATCGATCCCACAACGATATAACAGGTAAAAATATGATAAAACC
1 TGTCGATACTTTATAAAAATGTATCGAT-CCACAACGATATAACAGGTAAAAATATGACAAAACC
* *
99611 GGTCTCTAAAGAACAAAACCGGTATAGAG-TGACCGGATATATTGAAAGTGTCGATACTTTAATA
65 GGTCTCTAAAGGACAAAACCGGTAAAGAGCT-ACCGGATATATTGAAAGTGTCGATACTTTAATA
* * * * *
99675 TAAGTATCAACACTTAT-TGAATTTAAAAAAGAAGTAGTTTTAGCGCCTAAAAAG
129 TAAGTATCGACACTT-TGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
* *
99729 TGTCGGTACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* ** * * * *
99794 GTCTCGAAATAAAAAAAACTGGTAATGAGCTACCGGATATATTGAAAGTGTCGATATTTTAATA
66 GTCTCTAAA-GGACAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
99858 AGTACGCGTA
Statistics
Matches: 601, Mismatches: 64, Indels: 16
0.88 0.09 0.02
Matches are distributed among these distances:
179 11 0.02
180 5 0.01
181 90 0.15
182 383 0.64
183 110 0.18
184 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCTAAAGGACAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
Found at i:102268 original size:21 final size:21
Alignment explanation
Indices: 102244--102287 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
102234 AAGACAATCA
102244 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
102265 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
102286 AG
1 AG
102288 GCATAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:102356 original size:33 final size:32
Alignment explanation
Indices: 102319--102415 Score: 158
Period size: 33 Copynumber: 3.0 Consensus size: 32
102309 AAATAGATAG
102319 TGGTGAAAGGAGTTGAGGTGTTGAGGAGTGAAA
1 TGGTGAAAGGAGTTGAGGTGTTGAGG-GTGAAA
*
102352 TGGTGAAAGGAGTTGAGGTGTTGAGGGGTGAAG
1 TGGTGAAAGGAGTTGAGGTGTTGA-GGGTGAAA
*
102385 TGGTGAAAGAAGTTGAGGTGTTGAGGGTGAA
1 TGGTGAAAGGAGTTGAGGTGTTGAGGGTGAA
102416 CTTAAGATGG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 7 0.11
33 52 0.85
34 2 0.03
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.25
Consensus pattern (32 bp):
TGGTGAAAGGAGTTGAGGTGTTGAGGGTGAAA
Found at i:104210 original size:19 final size:19
Alignment explanation
Indices: 104186--104234 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
104176 AATATAGGGT
104186 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
104205 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
104224 TAATTTTGTAT
1 TAATTTTGTAT
104235 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:105014 original size:203 final size:197
Alignment explanation
Indices: 104613--105066 Score: 552
Period size: 203 Copynumber: 2.3 Consensus size: 197
104603 ATGTAATAAG
* * ** * * **
104613 CGGTATAAATATACCGGA-TTTATGTGTGAATATGTCTACATAATGTATCGACACTTTCTCATTT
1 CGGTATAAATATACC-AATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTATCAAATTT
* * * * * **
104677 TGTGTCGATACTTTTTATCTAGAATGAATGCCCAAAATGATGTACGCATTTGTGTCGATACATTT
65 TGTGTCGATACTTTTTATCCAGAAGGAATGCCCAAAAGGATGCACCCATAAGTGTCGATACATTT
*
104742 ATAAAAATATCGATCCCAGAAACATCAAACCCATAAATATAATGTAATAGGTAAATTTACAATGT
130 ATAAAAATATCGATCCCAAAAACATCAAACCCATAAATATAATGTAATAGGTAAATTTACAATGT
104807 AAC
195 AAC
* *
104810 CGGTATAACTATACCAATTTTATGAGAAAATAGGTCTACATAATGTATCGACACATATGAAATTT
1 CGGTATAAATATACCAATTTTATGAGAAAATAGGTCTACATAATGTATCGACAC-TATCAAATTT
* *
104875 GTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACA
65 -TGTGTCGATACTT-TTTATCCAGAAGGAATGCCCAAAAGGATGCACCCAT-AAGTGTCGATACA
* ** *
104939 TTTAATAAAAAGTTTCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTA
127 TTT-ATAAAAA-TATCGATCCCAAAAACATC-AAACCCATAAATATAATGTAATAGGTAAATTTA
105004 CAATGTAAC
189 CAATGTAAC
* *** **
105013 CGGTATAAATTTACTGGTTTTATGAGAAAATAGGTGAACATAATGTATCGACAC
1 CGGTATAAATATACCAATTTTATGAGAAAATAGGTCTACATAATGTATCGACAC
105067 GTTTTAGATT
Statistics
Matches: 218, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
196 1 0.00
197 46 0.21
198 8 0.04
199 39 0.18
200 14 0.06
201 7 0.03
202 17 0.08
203 86 0.39
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (197 bp):
CGGTATAAATATACCAATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTATCAAATTTT
GTGTCGATACTTTTTATCCAGAAGGAATGCCCAAAAGGATGCACCCATAAGTGTCGATACATTTA
TAAAAATATCGATCCCAAAAACATCAAACCCATAAATATAATGTAATAGGTAAATTTACAATGTA
AC
Found at i:106581 original size:18 final size:18
Alignment explanation
Indices: 106558--106618 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
106548 CAAGAGGTCA
106558 ATGAAGATGACGATGAAG
1 ATGAAGATGACGATGAAG
106576 ATGAAGATGACGATGAAG
1 ATGAAGATGACGATGAAG
*
106594 ATGATGATG--G-TGAAG
1 ATGAAGATGACGATGAAG
*
106609 ATGATGATGA
1 ATGAAGATGA
106619 TGATAATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 14 0.34
16 1 0.02
18 26 0.63
ACGTcount: A:0.41, C:0.03, G:0.34, T:0.21
Consensus pattern (18 bp):
ATGAAGATGACGATGAAG
Found at i:106619 original size:6 final size:6
Alignment explanation
Indices: 106558--106637 Score: 70
Period size: 6 Copynumber: 13.3 Consensus size: 6
106548 CAAGAGGTCA
* * * * * * *
106558 ATGAAG ATGACG ATGAAG ATGAAG ATGACG ATGAAG ATGATG ATGGTG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
* * *
106606 AAGATG ATGATG ATGATA ATGATT ATGATG AT
1 ATGATG ATGATG ATGATG ATGATG ATGATG AT
106638 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (6 bp):
ATGATG
Found at i:106627 original size:15 final size:15
Alignment explanation
Indices: 106558--106636 Score: 79
Period size: 15 Copynumber: 5.3 Consensus size: 15
106548 CAAGAGGTCA
*
106558 ATGAAGATGACGATG
1 ATGAAGATGATGATG
* * * *
106573 AAGATGAAGATGACG
1 ATGAAGATGATGATG
106588 ATGAAGATGATGATG
1 ATGAAGATGATGATG
*
106603 GTGAAGATGATGATG
1 ATGAAGATGATGATG
*
106618 ATGATA-ATGATTATG
1 ATGA-AGATGATGATG
106633 ATGA
1 ATGA
106637 TCCAAACAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
15 50 0.98
16 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.25
Consensus pattern (15 bp):
ATGAAGATGATGATG
Found at i:112908 original size:28 final size:29
Alignment explanation
Indices: 112870--112976 Score: 168
Period size: 28 Copynumber: 3.8 Consensus size: 29
112860 GATATGATAT
112870 GAGAACATGACATG-GCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
112899 GAGAAATGACATGAGCTAC-TGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
112927 GAGAAATGAC-TGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
112955 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
112977 ACATATGAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
27 7 0.10
28 53 0.73
29 13 0.18
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:114107 original size:197 final size:195
Alignment explanation
Indices: 113747--114221 Score: 618
Period size: 197 Copynumber: 2.4 Consensus size: 195
113737 GGGTGTTACA
* * * * *
113747 TAACCAGTATAAATATACCG-GTTATGAGAAAATAGGGGAACATAATGTTTCGACACTTTTTAAA
1 TAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTGAACATAATGTATCGACAC-TTTTGAA
* * * *
113811 TTT-TGTCGATATTTTTTGTCCAGAATGAATGCCCAAATGGTGAACGCATAAGTGTCGATACATT
65 TTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTGAACGCATAAGTGTCGATA-ATT
* * *
113875 TATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAA
129 TATAAAAAGAATCGATCCCAAAAACATCAAAACCGATAATTATAATATAATAGGTAAATTTACAA
113940 TG
194 TG
* **
113942 TAACCGGTATAAATATACTGATTTTATGAGAAAATAGGTGAACATAACATATCGACACGTTTT-A
1 TAACCGGTATAAATATACCG-TTTTATGAGAAAATAGGTGAACATAATGTATCGACAC-TTTTGA
* *
114006 GTTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTTGCACGCATAAAGTGTCGAT-
64 ATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGG--TGAACGCAT-AAGTGTCGATA
*
114070 ATTT-TAAAAAGAATTGATCCCAAAAACATCAAAACCGATAATTATAATATAATAGGTAAATTTA
126 ATTTATAAAAAGAATCGATCCCAAAAACATCAAAACCGATAATTATAATATAATAGGTAAATTTA
114134 CAATG
191 CAATG
* * * * *
114139 TAACCGGTATAAATATACCGGTTTTATAAGAGAATATGTGTACATAATGTGTCGACACTTTTGGA
1 TAACCGGTATAAATATACC-GTTTTATGAGAAAATAGGTGAACATAATGTATCGACACTTTT-GA
*
114204 TTTTGTGTCGATACTTTT
64 ATTTGTGTCGATACTTTT
114222 AAATAACGCG
Statistics
Matches: 244, Mismatches: 27, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
195 18 0.07
196 8 0.03
197 177 0.73
198 23 0.09
199 8 0.03
200 10 0.04
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (195 bp):
TAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTGAACATAATGTATCGACACTTTTGAAT
TTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTGAACGCATAAGTGTCGATAATTTA
TAAAAAGAATCGATCCCAAAAACATCAAAACCGATAATTATAATATAATAGGTAAATTTACAATG
Found at i:123668 original size:27 final size:28
Alignment explanation
Indices: 123633--123696 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
123623 AGAAAAGGCG
*
123633 AACGGCGTCAGG-GTTGACGAGAAGACA
1 AACGACGTCAGGAGTTGACGAGAAGACA
* * *
123660 AACGACGTC-GGAGTTGGCTAGAAGACG
1 AACGACGTCAGGAGTTGACGAGAAGACA
123687 AACGACGTCA
1 AACGACGTCA
123697 ACAGTTGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.33, C:0.20, G:0.34, T:0.12
Consensus pattern (28 bp):
AACGACGTCAGGAGTTGACGAGAAGACA
Found at i:132360 original size:11 final size:11
Alignment explanation
Indices: 132340--132381 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
132330 GTTAGATAAG
132340 AAATAATAAAT
1 AAATAATAAAT
*
132351 AAATATTAAAT
1 AAATAATAAAT
132362 AAA-AATAAA-
1 AAATAATAAAT
*
132371 AAATAAAAAAT
1 AAATAATAAAT
132382 GTAATAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 3 0.12
10 10 0.38
11 13 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:133919 original size:17 final size:19
Alignment explanation
Indices: 133899--133940 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
133889 GAAAAAAATT
*
133899 AATAAAAATATTAAT-A-A
1 AATAAAAATAATAATCATA
133916 AATAAAAATAATAATCATA
1 AATAAAAATAATAATCATA
133935 AATAAA
1 AATAAA
133941 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 1 0.05
19 7 0.32
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAATAATAATCATA
Found at i:134248 original size:55 final size:55
Alignment explanation
Indices: 134160--134274 Score: 167
Period size: 55 Copynumber: 2.1 Consensus size: 55
134150 CGCTGTCATC
** * *
134160 GAGCTGAATGAAATCAAACTCGACAATTTTGTTGACAGATAGTCCTTCTTGCCTT
1 GAGCTGAATGAAATCAAACTCGACAATACTGTTGACAAATAGCCCTTCTTGCCTT
* * *
134215 GAGCTGAATGGAATCGAACTCGATAATACTGTTGACAAATAGCCCTTCTTGCCTT
1 GAGCTGAATGAAATCAAACTCGACAATACTGTTGACAAATAGCCCTTCTTGCCTT
134270 GAGCT
1 GAGCT
134275 ATGCTGTGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
GAGCTGAATGAAATCAAACTCGACAATACTGTTGACAAATAGCCCTTCTTGCCTT
Found at i:134569 original size:80 final size:80
Alignment explanation
Indices: 134209--134654 Score: 380
Period size: 80 Copynumber: 5.5 Consensus size: 80
134199 TAGTCCTTCT
* * * *
134209 TGCC-TTGAGCTGAATGGAATCGAACTCGATA-ATACTGTTGACAAATAGCCCTTCTTGCCTTGA
1 TGCCTTTGAGCTGAATGGAATCGAACTCGA-AGGT-CT-TTGGCAGATAGCCCTTCTAGCCTTGA
* **
134272 GCTATGCTGTGAATGATG
63 GTTATGCTGCAAATGATG
* * *
134290 TGCC-TTGAGCTGAATGGAATCGAACTCGAAGGTCTTTGATGACAGATAGCCCTTCTCG-ATTTA
1 TGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTAGCCTTGA
* *
134353 GGCTATGCTGCGAATGATG
63 -GTTATGCTGCAAATGATG
* ** * * * * *
134372 TGCCTTTGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCATTGA
1 TGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTT-G-G-CAGATAGCCCTTCTAGCCTTGA
*
134437 GTTATGCTGTAAATGATG
63 GTTATGCTGCAAATGATG
* * * * * * *
134455 TGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGGTCTTTGGTAGATAGCCCTTCTTGCCTTAAGT
1 TGCCTTTG-AGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGT
* *
134519 TATGCTACAAATTATG
65 TATGCTGCAAATGATG
* * * *
134535 CGCCTTTGAGCTGAATGGAATCGAACTCTAAGGTCTTTGACAGATAACCCTTCTAGCCTTGAGTT
1 TGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTT
*
134600 ATGCTGTAAATGATG
66 ATGCTGCAAATGATG
* * * * * *
134615 TGCCCTCGAAGCTGAGTGTAGTCAAACTCGAAGGTCTTTG
1 TGCCTTTG-AGCTGAATGGAATCGAACTCGAAGGTCTTTG
134655 TGTTTCAAGA
Statistics
Matches: 299, Mismatches: 55, Indels: 22
0.80 0.15 0.06
Matches are distributed among these distances:
79 21 0.07
80 86 0.29
81 60 0.20
82 36 0.12
83 73 0.24
84 23 0.08
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (80 bp):
TGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTT
ATGCTGCAAATGATG
Found at i:134618 original size:160 final size:163
Alignment explanation
Indices: 134213--134654 Score: 520
Period size: 160 Copynumber: 2.7 Consensus size: 163
134203 CCTTCTTGCC
* * *
134213 TTGAGCTGAATGGAATCGAACTCGATAA--TACTGTTGACAAATAGCCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAATGGAATCGAACTC--TAAGGT-CT-TTGACAAATAACCCTTCTAGCCTTGAGTTA
* * * *
134276 TGCTGTGAATGATGTG-CCTTG-AGCTGAATGGAATCGAACTCGAAGGTCTTTGATGACAGATAG
62 TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA-GACAGATAG
* * * * *
134339 CCCTTCTCGATTTAGGCTATGCTGCGAATGATGTGCCT
126 CCCTTCTCGACTTAAGCTATGCTACAAATGATGCGCCT
* ** * * * *
134377 TTGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCATTGAGTTAT
1 TTGAGCTGAATGGAATCGAACTCTAAGGTC-TT--TGACAAATAACCCTTCTAGCCTTGAGTTAT
*
134442 GCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGGTCTTTG-G-TAGATAGCC
63 GCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGAGACAGATAGCC
* * * *
134504 CTTCTTGCCTTAAGTTATGCTACAAATTATGCGCCT
128 CTTCTCGACTTAAGCTATGCTACAAATGATGCGCCT
*
134540 TTGAGCTGAATGGAATCGAACTCTAAGGTCTTTGACAGATAACCCTTCTAGCCTTGAGTTATGCT
1 TTGAGCTGAATGGAATCGAACTCTAAGGTCTTTGACAAATAACCCTTCTAGCCTTGAGTTATGCT
* *
134605 GTAAATGATGTGCCCTCGAAGCTGAGTGTAGTCAAACTCGAAGGTCTTTG
66 GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
134655 TGTTTCAAGA
Statistics
Matches: 236, Mismatches: 34, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
160 69 0.29
161 9 0.04
162 4 0.02
163 61 0.26
164 21 0.09
165 40 0.17
166 13 0.06
167 19 0.08
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (163 bp):
TTGAGCTGAATGGAATCGAACTCTAAGGTCTTTGACAAATAACCCTTCTAGCCTTGAGTTATGCT
GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGAGACAGATAGCCCTT
CTCGACTTAAGCTATGCTACAAATGATGCGCCT
Found at i:134725 original size:33 final size:35
Alignment explanation
Indices: 134651--134737 Score: 135
Period size: 35 Copynumber: 2.5 Consensus size: 35
134641 CTCGAAGGTC
134651 TTTGTGTTTCAAGAGAAACATTTTCAAAGGGTTTT
1 TTTGTGTTTCAAGAGAAACATTTTCAAAGGGTTTT
134686 TTTGTGTTTCAAGAGAAACGA-TTTCAAA-GG-TTT
1 TTTGTGTTTCAAGAGAAAC-ATTTTCAAAGGGTTTT
*
134719 TTTGTGTTTCCAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
134738 TGTCACGAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
33 21 0.42
34 2 0.04
35 26 0.52
36 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (35 bp):
TTTGTGTTTCAAGAGAAACATTTTCAAAGGGTTTT
Found at i:134810 original size:36 final size:36
Alignment explanation
Indices: 134723--135431 Score: 519
Period size: 36 Copynumber: 19.8 Consensus size: 36
134713 AGGTTTTTTG
* * * * *
134723 TGTTTCCAGAGAAACTGTCACGAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
** *
134760 TGTTTGGAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
134796 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
134833 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
134869 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* *
134898 TGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
134934 TG-TTCTAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
*
134970 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACCT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
135007 AGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
135043 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* *
135072 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
135108 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
135144 TATTTCAAGAGAAACTGTATCAAGAGAGACAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTC-A-AGAG----AGACAAAATT
* * *
135186 TGTTTCAAGAGAAACTATATCAAGAGGGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
135223 AGTTCCAAAAGAAATTGTCTCAAGGGAGA-AGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACA-AAATT
* *
135259 TGTTTCAAG-GAAAACATAT-TC-----A-AC-AATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
*
135288 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
135323 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTC-TCA-AGAG----AGACAAAATT
* *
135365 TGTTTAAAGAGAAACTGTCTCAAGAGAGAAAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
135402 TGTTT--TGAGTAAATTAGTCTCAAGAGAGAC
1 TGTTTCAAGAG-AAACT-GTCTCAAGAGAGAC
135432 GACCCCTTGT
Statistics
Matches: 542, Mismatches: 75, Indels: 110
0.75 0.10 0.15
Matches are distributed among these distances:
28 6 0.01
29 54 0.10
30 6 0.01
31 3 0.01
32 3 0.01
33 4 0.01
34 1 0.00
35 35 0.06
36 212 0.39
37 147 0.27
38 4 0.01
40 8 0.01
41 7 0.01
42 52 0.10
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:134912 original size:102 final size:102
Alignment explanation
Indices: 134794--134983 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 102
134784 AGAGACAAAA
* *
134794 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAA-TTAGTTCCAAAAGAAACTGTCTCAAGAG
*
134859 AGACGAAATTTGTTTCAAG-GAAAACATATTCAAAGAT
65 AGACAAAATTTGTTTCAAGAGAAAACATATTCAAAGAT
* * * **
134896 TTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGTTCTAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGA
134961 GACAAAATTTGTTTCAAGAGAAA
66 GACAAAATTTGTTTCAAGAGAAA
134984 CTGTCTCAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 41 0.52
102 38 0.48
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTGTTTCAAGAGAAAACATATTCAAAGAT
Found at i:134921 original size:138 final size:136
Alignment explanation
Indices: 134752--134999 Score: 390
Period size: 138 Copynumber: 1.8 Consensus size: 136
134742 ACGAGGGAGG
** *
134752 CAAAATTTTGTTTGGAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT-TCAAGAGAAACTGTCT
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGTTCT-AAGAGAAACTGTCT
*
134816 CAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAA
65 CAAGAGAGACAAAA-TTAGTTCCAAAAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAA
134881 AACATATT
129 AACATATT
*
134889 CAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGTTCTAAGGGAAACTGTCT
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGTTCTAAGAGAAACTGTCT
* * *
134954 CAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
65 CAAGAGAGACAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGAC
135000 AAAACCTAGT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
137 32 0.32
138 68 0.67
139 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (136 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGTTCTAAGAGAAACTGTCTC
AAGAGAGACAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAA
CATATT
Found at i:134985 original size:174 final size:174
Alignment explanation
Indices: 134752--135176 Score: 753
Period size: 174 Copynumber: 2.4 Consensus size: 174
134742 ACGAGGGAGG
**
134752 CAAAATTTTGTTTGGAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC
1 CAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC
*
134817 AAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAA
65 AAGAGAGACAAAACCTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAA
134882 ACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAA
130 ACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAA
134927 CAAAATTTG-TTCTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC
1 CAAAATTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC
*
134991 AAGAGAGACAAAACCTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAA
65 AAGAGAGACAAAACCTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAA
* *
135056 ACATATTCAAAGATTTTGTTTCAAGGGAAATTGTCTCAAGAGAGA
130 ACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAA
* *
135101 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTATCA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
135166 AGAGAGACAAA
66 AGAGAGACAAA
135177 GACAAAATTT
Statistics
Matches: 240, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
173 2 0.01
174 230 0.96
175 8 0.03
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (174 bp):
CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
AGAGAGACAAAACCTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAA
CATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAAA
Found at i:135096 original size:102 final size:102
Alignment explanation
Indices: 134968--135320 Score: 386
Period size: 102 Copynumber: 3.3 Consensus size: 102
134958 AGAGACAAAA
*
134968 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACCTAGTTCCAAAAGAAATTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGG
135033 AGACGAAATTTGTTTCAAGGAAAACATATTCAAAGAT
66 AGACGAAATTTGTTTCAAGGAAAACATATTCAAAGAT
* * * * ** * *
135070 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGG
* * * ** *
135134 AGACAAAATTTATTTCAAGAGAAACTGTATCAAGAGAGACAAAGACAAAA
66 AGACGAAATTTGTTTCAAG-GAAA----A-C---ATATTCAAAG----AT
* * *
135184 TTTGTTTCAAGAGAAACTATATCAAGAGGGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGG
*
135249 AGAAGAAATTTGTTTCAAGGAAAACATATTCAACA-AT
66 AGACGAAATTTGTTTCAAGGAAAACATATTCAA-AGAT
*
135286 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
135321 TTTGTTTCAA
Statistics
Matches: 199, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
101 38 0.19
102 70 0.35
106 6 0.03
107 2 0.01
109 1 0.01
110 8 0.04
114 36 0.18
115 38 0.19
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGG
AGACGAAATTTGTTTCAAGGAAAACATATTCAAAGAT
Found at i:135115 original size:21 final size:21
Alignment explanation
Indices: 135086--135155 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
135076 TCAAGGGAAA
135086 TTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
*
135107 TTGTTTCAAG-G-G---AAA-
1 TTGTCTCAAGAGAGACAAAAT
*
135122 CTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
* *
135143 TTATTTCAAGAGA
1 TTGTCTCAAGAGA
135156 AACTGTATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
15 8 0.22
16 4 0.11
17 1 0.03
19 1 0.03
20 4 0.11
21 19 0.51
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGTCTCAAGAGAGACAAAAT
Found at i:135185 original size:42 final size:42
Alignment explanation
Indices: 135098--135218 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
135088 GTCTCAAGAG
* *
135098 AGACAAAATTTGTTTCAAGGGAAACTGTCTC-A-AGAG----
1 AGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAA
*
135134 AGACAAAATTTATTTCAAGAGAAACTGTATCAAGAGAGACAA
1 AGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAA
* *
135176 AGACAAAATTTGTTTCAAGAGAAACTATATCAAGAGGGACAA
1 AGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAA
135218 A
1 A
135219 ACTTAGTTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
36 28 0.38
37 1 0.01
38 4 0.05
42 40 0.55
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (42 bp):
AGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAA
Found at i:135200 original size:78 final size:79
Alignment explanation
Indices: 135098--135251 Score: 211
Period size: 78 Copynumber: 2.0 Consensus size: 79
135088 GTCTCAAGAG
* * * * * *
135098 AGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGAGAAACTGT
1 AGACAAAATTTGTTTCAAGAGAAACTATATCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGT
135162 ATCAAGAGAGACAA
66 ATCAAGAGAGACAA
* *
135176 AGACAAAATTTGTTTCAAGAGAAACTATATCAAGAGGGACAAAACTTAGTTCCAAAAGAAATTGT
1 AGACAAAATTTGTTTCAAGAGAAACTATATCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGT
* *
135241 CTCAAGGGAGA
66 ATCAAGAGAGA
135252 AGAAATTTGT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 43 0.66
79 22 0.34
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (79 bp):
AGACAAAATTTGTTTCAAGAGAAACTATATCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGT
ATCAAGAGAGACAA
Found at i:135375 original size:42 final size:41
Alignment explanation
Indices: 135314--135393 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 41
135304 GTCTCAAGAG
* *
135314 AGACAAATTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAA
1 AGACAAATTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAA
135355 AGACAAAATTTGTTTAAAGAGAAACTGTCTCAAGAGAGA
1 AGAC-AAATTTGTTTAAAGAGAAACTGTCTCAAGAGAGA
135394 AAAAACTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 4 0.11
42 32 0.89
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (41 bp):
AGACAAATTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAA
Found at i:135427 original size:216 final size:210
Alignment explanation
Indices: 134896--135431 Score: 735
Period size: 216 Copynumber: 2.5 Consensus size: 210
134886 ATTCAAAGAT
*
134896 TTTGTTTCAAGGGAAACTGTCTCAAGAGAA-ACAAAATTTGTTCTAAGGGAAACTGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAAGACAAAATTTGTT-TAAGAGAAACTGTCTCAAGAG
*
134960 AGACAAAATTTGTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAACCTAGTTCCAAAAGAAATTG
65 AGAAAAAATTTGTTT-AAGAGAAACTAGTCTCAAGAGAGACAAAACCTAGTTCCAAAAGAAATTG
* *
135024 TCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAATTG
129 TCTCAAGGGAGAAGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTG
135089 TCTCAAGAGAGACAAAA
194 TCTCAAGAGAGACAAAA
* *
135106 TTTGTTTCAAGGGAAACTGTCTCAAGAG-AGACAAAATTTATTTCAAGAGAAACTGTATCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAAGACAAAATTTGTTT-AAGAGAAACTGTCTCAAGAG
* * *
135170 AGACAAAGACAAAATTTGTTTCAAGAGAAACTA-TATCAAGAGGGACAAAACTTAGTTCCAAAAG
65 AG----A-A-AAAATTTGTTT-AAGAGAAACTAGTCTCAAGAGAGACAAAACCTAGTTCCAAAAG
135234 AAATTGTCTCAAGGGAGAAGAAATTTGTTTCAAGGAAAACATATTCAACA-ATTTTGTTTCAAGG
123 AAATTGTCTCAAGGGAGAAGAAATTTGTTTCAAGGAAAACATATTCAA-AGATTTTGTTTCAAGG
135298 GAAACTGTCTCAAGAGAGAC-AAA
187 GAAACTGTCTCAAGAGAGACAAAA
* *
135321 TTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAGACAAAATTTGTTTAAAGAGAAACTGTCTC
1 TTTGTTTCAAGGGAAACTGTC-TCA-AGAG---AAGACAAAATTTGTTT-AAGAGAAACTGTCTC
* *
135386 AAGAGAGAAAAAACTTTGTTT-TGAGTAAATTAGTCTCAAGAGAGAC
60 AAGAGAGAAAAAA-TTTGTTTAAGAG-AAACTAGTCTCAAGAGAGAC
135432 GACCCCTTGT
Statistics
Matches: 289, Mismatches: 18, Indels: 32
0.85 0.05 0.09
Matches are distributed among these distances:
209 2 0.01
210 59 0.20
214 4 0.01
215 32 0.11
216 151 0.52
217 6 0.02
221 35 0.12
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.26
Consensus pattern (210 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAAGACAAAATTTGTTTAAGAGAAACTGTCTCAAGAGA
GAAAAAATTTGTTTAAGAGAAACTAGTCTCAAGAGAGACAAAACCTAGTTCCAAAAGAAATTGTC
TCAAGGGAGAAGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTC
TCAAGAGAGACAAAA
Found at i:136797 original size:83 final size:87
Alignment explanation
Indices: 136666--136891 Score: 246
Period size: 95 Copynumber: 2.6 Consensus size: 87
136656 GGCTAGCTGA
* * * *
136666 ATCCATAAATTCGGGGTGTTTAACCAATTGCTCTAGAGGGACAGCTCA-ATAT-GTA-AA-CACC
1 ATCCATAAATCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCATATATAATATAATCACC
* * *
136727 TTTATCAGGTTAGCTGAATCTT
66 TTTATCAGGCTAACTGAATATT
136749 ATCCATAAATCCGGGGCGTTTAACCAATTG-TCTTAGAGGGACAACTCAAGCTTTATTATATAAT
1 ATCCATAAATCCGGGGCGTTTAACCAATTGCTC-TAGAGGGACAACT----C---A-TATATAAT
136813 ATAATCACCTTTATCAGGCTAACTGAATATT
57 ATAATCACCTTTATCAGGCTAACTGAATATT
* * *
136844 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTCCAGAGGGACAACTCA
1 ATCCATAAATCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCA
136892 GGCTTTATTG
Statistics
Matches: 119, Mismatches: 10, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
82 2 0.02
83 40 0.34
87 1 0.01
88 1 0.01
90 1 0.01
91 1 0.01
92 4 0.03
93 2 0.02
94 2 0.02
95 63 0.53
96 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (87 bp):
ATCCATAAATCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCATATATAATATAATCACC
TTTATCAGGCTAACTGAATATT
Found at i:136886 original size:95 final size:96
Alignment explanation
Indices: 136714--136913 Score: 287
Period size: 95 Copynumber: 2.1 Consensus size: 96
136704 GGACAGCTCA
* * * * * * *
136714 ATATGTAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAATCCGGGGCGTTTAACCAATTG
1 ATATATAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTG
*
136779 TCTTAGAGGGACAACTCAAGCTTTATTATAT
66 TCTCAGAGGGACAACTCAAGCTTTATTATAT
136810 A-ATATAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTG
1 ATATATAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTG
* *
136874 -CTCCAGAGGGACAACTCAGGCTTTATTGTAT
66 TCT-CAGAGGGACAACTCAAGCTTTATTATAT
136905 ATATATAAT
1 ATATATAAT
136914 ATTATAATCT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 2 0.02
95 82 0.89
96 8 0.09
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (96 bp):
ATATATAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTG
TCTCAGAGGGACAACTCAAGCTTTATTATAT
Found at i:139275 original size:7 final size:7
Alignment explanation
Indices: 139265--139328 Score: 62
Period size: 7 Copynumber: 9.3 Consensus size: 7
139255 AAATTATTAG
139265 ATAAAAA
1 ATAAAAA
139272 ATAAAAA
1 ATAAAAA
*
139279 ATAAATA
1 ATAAAAA
*
139286 ATAAATA
1 ATAAAAA
139293 A-AAAAA
1 ATAAAAA
*
139299 CT--AAA
1 ATAAAAA
139304 ATAAAAA
1 ATAAAAA
139311 CATAAAAA
1 -ATAAAAA
139319 CATAAAAA
1 -ATAAAAA
139327 AT
1 AT
139329 GTAATAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 4 0.08
6 4 0.08
7 26 0.53
8 15 0.31
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:140357 original size:22 final size:22
Alignment explanation
Indices: 140324--140365 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
140314 AATTATTGAG
140324 GTAACGATTAAAATTATGATTTT
1 GTAACGATTAAAATTA-GATTTT
140347 GTAA-GATTAAAATTAGATT
1 GTAACGATTAAAATTAGATT
140366 ATTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (22 bp):
GTAACGATTAAAATTAGATTTT
Found at i:145846 original size:21 final size:22
Alignment explanation
Indices: 145793--145857 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
145783 TTCATTTAAA
145793 TATTATTTATATTATTATTATTAT
1 TATTA-TTA-ATTATTATTATTAT
145817 TATTA-TAATTATTATTATT-T
1 TATTATTAATTATTATTATTAT
* *
145837 TATTATTAATAAATATTATTA
1 TATTATTAATTATTATTATTA
145858 CAGACCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 6 0.16
21 24 0.65
22 2 0.05
24 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTAATTATTATTATTAT
Found at i:145857 original size:3 final size:3
Alignment explanation
Indices: 145793--145844 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
145783 TTCATTTAAA
*
145793 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
145837 TAT TAT TA
1 TAT TAT TA
145845 ATAAATATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 3 0.07
3 40 0.91
4 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:155425 original size:115 final size:114
Alignment explanation
Indices: 155265--155605 Score: 574
Period size: 114 Copynumber: 3.0 Consensus size: 114
155255 AAGTGCCATG
*
155265 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
155330 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTGAAAGATGAATT
*
155380 TGCTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
155445 TGATTTGGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
*
155494 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
155559 TGGTTCGGTAGGAACCCCAGAACCAATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
155606 ATGCATGATC
Statistics
Matches: 212, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
114 133 0.63
115 79 0.37
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
Found at i:157751 original size:54 final size:54
Alignment explanation
Indices: 157665--157776 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
157655 CAATGATTGA
* * * * **
157665 GAACATCTGAGCAGAAACTACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAAGAAAGGATGAATGCGCCGTCAAATGTTTTAC
* *
157719 GAACATCTGAGCAGAAGCCACAAGAAAGGATGAATGCGCCGTCAAATGTTTTAT
1 GAACATCTGAGCAGAAACCACAAGAAAGGATGAATGCGCCGTCAAATGTTTTAC
157773 GAAC
1 GAAC
157777 CTGCTATTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAAGAAAGGATGAATGCGCCGTCAAATGTTTTAC
Found at i:158162 original size:22 final size:22
Alignment explanation
Indices: 158136--158212 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
158126 ATCTACATTA
*
158136 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
*
158158 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
* *
158180 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
158202 TTCAAAGATGA
1 TTCAAAGATGA
158213 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:158817 original size:113 final size:115
Alignment explanation
Indices: 158650--158941 Score: 480
Period size: 113 Copynumber: 2.5 Consensus size: 115
158640 TGCCAGGTCG
*
158650 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** *
158715 AACTTTTCGCTTGAATTCATCAT-TCGAT-GGATCAACTTTTCCAGAGAA
66 AACTTTTCGCTTGAATTCATCATATAGATAACATCAACTTTGCCAGAGAA
158763 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
158828 AACTTTTTGCTTGAATTCATCATAAGGTAGATCAACATCAACTTTGCCAGAGAA
66 AACTTTTCGCTTGAATTCATCAT-A--TAGAT-AACATCAACTTTGCCAGAGAA
158882 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
158942 CATCTGAAGA
Statistics
Matches: 167, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
113 86 0.51
117 4 0.02
119 77 0.46
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (115 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTGAATTCATCATATAGATAACATCAACTTTGCCAGAGAA
Found at i:158926 original size:40 final size:40
Alignment explanation
Indices: 158881--158981 Score: 193
Period size: 40 Copynumber: 2.5 Consensus size: 40
158871 TTGCCAGAGA
*
158881 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
158921 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
158961 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
158982 TGTTCAACTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.19
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
Found at i:158945 original size:159 final size:153
Alignment explanation
Indices: 158762--159094 Score: 540
Period size: 159 Copynumber: 2.1 Consensus size: 153
158752 TTTCCAGAGA
*
158762 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
158827 CAACTTTTTGCTTGAATTCATCATAAGGTAGATCAACATCAACTTTGCCAGAGAAAGTTCATAAT
66 CAACTTTTTGCTTAAATTCATCACAAGGTAGATCAAC-T----TTT-CCAGAGAAAGTTCATAAT
*
158892 GAGAAGAACTCATCTGAAGAAGGAAGAAG
125 GAGAAGAACTCATCTGAAGAAAGAAGAAG
158921 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * *
158986 CAACTTTTTGCTTAAATTCATCACCCGGTGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
66 CAACTTTTTGCTTAAATTCATCACAAGGTAGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAG
159051 AACTCATCTGAAGAAAGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAG
159074 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
159095 TGTTTAACTT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
153 67 0.40
154 3 0.02
158 1 0.01
159 95 0.57
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (153 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTTGCTTAAATTCATCACAAGGTAGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAG
Found at i:159060 original size:113 final size:113
Alignment explanation
Indices: 158921--159679 Score: 885
Period size: 113 Copynumber: 6.7 Consensus size: 113
158911 AAGGAAGAAG
158921 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** *
158986 CAACTTTTTGCTTAAATTCATCACCCGGTGGATCAGCTTTTCCAGAGA
66 CAACCTTTTGCTTAAATTCATCACATGATGGATCAGCTTTTCCAGAGA
159034 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGA-AAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * * *
159098 TTAACTTTTTACTTAAATTCACCACCTGGTGGATTAGCTTTTCCAGAGA
65 TCAACCTTTTGCTTAAATTCATCACATGATGGATCAGCTTTTCCAGAGA
*
159147 AAGTTCATAATGAGAAAAACTCATCTGAAGAA-AGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGA-AAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * *
159211 TCAACTTTTTACTTAAATTCATCACTTGATGGATCAGCTTTTCCAAAGA
65 TCAACCTTTTGCTTAAATTCATCACATGATGGATCAGCTTTTCCAGAGA
* * *
159260 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATAAAAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * ** * * *
159325 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GTA
66 CAACCTTTTGCTTAAATTCATCACATGATGGATCAGCTTTTCCAGAG-A
* *
159373 GAGTTCATAATGAGAAGAACTTGTCATCTGAAGAAG-AAG-A-AA-TTCATAATGAGAAGAATTT
1 AAGTTCATAATGAGAAGAAC---TCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTT
* ** * *
159434 GTTCAACCTTTTGCTCAAAACCATCACATAATGGATCAGCTTTTTCAGAGA
63 GTTCAACCTTTTGCTTAAATTCATCACATGATGGATCAGCTTTTCCAGAGA
* *
159485 AAGTTCATAATGAGAAGAACTCATCT---GAAG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * *
159546 CAACCTTTTGCAT-AATTCTATCATAGAAGGAGATAGATTAGCATCAACCTTTCCAAAGA
66 CAACCTTTTGCTTAAATTC-ATC--------ACAT-GA-T-GGATCAGCTTTTCCAGAGA
* *
159605 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
159670 CAACCTTTTG
66 CAACCTTTTG
159680 AATGATACTA
Statistics
Matches: 564, Mismatches: 56, Indels: 41
0.85 0.08 0.06
Matches are distributed among these distances:
106 7 0.01
107 1 0.00
108 5 0.01
109 39 0.07
112 77 0.14
113 330 0.59
114 2 0.00
115 2 0.00
116 13 0.02
117 3 0.01
118 1 0.00
119 1 0.00
120 40 0.07
123 4 0.01
124 39 0.07
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTAAATTCATCACATGATGGATCAGCTTTTCCAGAGA
Found at i:159438 original size:20 final size:20
Alignment explanation
Indices: 159375--159438 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
159365 GCCAGGTAGA
159375 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
159395 G-TCAT-CTGAAGAAGAAGAA
1 GTTCATAATG-AGAAGAACTT
* *
159414 ATTCATAATGAGAAGAATTT
1 GTTCATAATGAGAAGAACTT
159434 GTTCA
1 GTTCA
159439 ACCTTTTGCT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:159698 original size:124 final size:122
Alignment explanation
Indices: 159482--159767 Score: 370
Period size: 124 Copynumber: 2.4 Consensus size: 122
159472 GCTTTTTCAG
159482 AGAAAGTTCATAATGAGAAGAACTCATCT---GAAG-AAGAAGAAGTTCACAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTT
* * * * * *
159543 GTTCAACCTTTTGCATAATTCTATCATAGAAGGAGATAGATTAGCATCAACCTTTCCA-A
66 ATTCAACCTTTTGAATAATACTATCATAGAAGGAAATAGATCAACATCAACC---CCAGA
*
159602 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTT
* * * *
159667 ATTCAACCTTTTGAATGATACTATC-TCAGAAGGAAATAGGTCAACATCATCCCCAGC
66 ATTCAACCTTTTGAATAATACTATCAT-AGAAGGAAATAGATCAACATCAACCCCAGA
* *
159724 GGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAGAAGAA
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
159768 TTTATTCAAC
Statistics
Matches: 147, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
120 29 0.20
121 11 0.07
122 34 0.23
123 5 0.03
124 68 0.46
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (122 bp):
AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTT
ATTCAACCTTTTGAATAATACTATCATAGAAGGAAATAGATCAACATCAACCCCAGA
Found at i:159947 original size:24 final size:22
Alignment explanation
Indices: 159905--159969 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
159895 TTCATTTAAA
*
159905 TATTATTTAT-ATTATTATTAT
1 TATTATTAATAATTATTATTAT
159926 TATTATAATAATAATTATTATT-T
1 TATTAT--TAATAATTATTATTAT
*
159949 TATTATTAATAAATATTATTA
1 TATTATTAATAATTATTATTA
159970 CAGGCCCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 19 0.50
23 10 0.26
24 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATTAATAATTATTATTAT
Found at i:159958 original size:18 final size:18
Alignment explanation
Indices: 159900--159958 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
159890 TTTTTTTCAT
*
159900 TTAAATATTATTTATATTA
1 TTAATTATTATTT-TATTA
* *
159919 TT-ATTATTATTATAATA
1 TTAATTATTATTTTATTA
*
159936 ATAATTATTATTTTATTA
1 TTAATTATTATTTTATTA
159954 TTAAT
1 TTAAT
159959 AAATATTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 5 0.16
18 25 0.78
19 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTATTATTTTATTA
Found at i:159969 original size:3 final size:3
Alignment explanation
Indices: 159905--159956 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
159895 TTCATTTAAA
* * *
159905 TAT TAT T-T ATAT TAT TAT TAT TAT TAT AAT AAT AAT TAT TAT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
159949 TAT TAT TA
1 TAT TAT TA
159957 ATAAATATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 3 0.07
3 40 0.91
4 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:160454 original size:15 final size:15
Alignment explanation
Indices: 160430--160460 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
160420 CAACCAACAG
160430 AGAAAAAAGAAAAAA
1 AGAAAAAAGAAAAAA
*
160445 AGAAACAAGAAAAAA
1 AGAAAAAAGAAAAAA
160460 A
1 A
160461 AGCAAGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAAAA
Done.