Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010573.1 Kokia drynarioides strain JFW-HI SEQ_125496, 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: 690509
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 15 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:10909 original size:30 final size:29
Alignment explanation
Indices: 10875--11257 Score: 326
Period size: 29 Copynumber: 13.0 Consensus size: 29
10865 CAGACATTCG
*
10875 GGGGTAAAAATGGTAATTTTTTGAAGTTTT
1 GGGGT-AAAATGGTAATTTTTGGAAGTTTT
* *
10905 GGGGTTAAAAAT-G-AGATTTTTGGTAGTTTA
1 GGGG-T-AAAATGGTA-ATTTTTGGAAGTTTT
10935 GGGGTAAAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAATGGTAATTTTTGGAAGTTTT
* *
10964 GGGGTTAAAA-CG-AGATTTTTGGAAG-TTC
1 GGGG-TAAAATGGTA-ATTTTTGGAAGTTTT
*
10992 GAGGGTAAAATGGTAATTTTTGGAAGTTTC
1 G-GGGTAAAATGGTAATTTTTGGAAGTTTT
* *
11022 GAGGTCAAAATGG-GATTTTTGGAAG-TTT
1 GGGGT-AAAATGGTAATTTTTGGAAGTTTT
11050 GGGGTTAAAATGGTAATTTTTGGAAGTTTT
1 GGGG-TAAAATGGTAATTTTTGGAAGTTTT
* * * *
11080 AGGGTTAAAAATGG-GATTTTT-TATAG-TTC
1 -GGGGT-AAAATGGTAATTTTTGGA-AGTTTT
*
11109 GATGGTAAAATGGTAATTTTTGGAAGTTTT
1 G-GGGTAAAATGGTAATTTTTGGAAGTTTT
*
11139 GGGGTCAAAAATGG-GATTTTTGGAAG-TTT
1 GGGGT--AAAATGGTAATTTTTGGAAGTTTT
*
11168 GAGGGTAAAATGGTAATTTTTTGGAAGTTTA
1 G-GGGTAAAATGGTAA-TTTTTGGAAGTTTT
* *
11199 GGGGTTAAAAATGG-GATTTTTAGAAG-TTT
1 GGGG-T-AAAATGGTAATTTTTGGAAGTTTT
11228 GAGGGTAAAATGGTAATTTTTGGATAGTTT
1 G-GGGTAAAATGGTAATTTTTGGA-AGTTT
11258 AGGGACCTTC
Statistics
Matches: 289, Mismatches: 31, Indels: 65
0.75 0.08 0.17
Matches are distributed among these distances:
28 48 0.17
29 106 0.37
30 97 0.34
31 31 0.11
32 7 0.02
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGGAAGTTTT
Found at i:10942 original size:29 final size:28
Alignment explanation
Indices: 10875--11261 Score: 304
Period size: 30 Copynumber: 13.1 Consensus size: 28
10865 CAGACATTCG
* *
10875 GGGGTAAAAATGGTAATTTTTTGAAGTTTT
1 GGGGT-AAAATGG-AATTTTTGGAAGTTTA
*
10905 GGGGTTAAAAAT-GAGATTTTTGGTAGTTTA
1 GGGG-T-AAAATGGA-ATTTTTGGAAGTTTA
*
10935 GGGGTAAAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAATGG-AATTTTTGGAAGTTTA
* *
10964 GGGGTTAAAA-CGAGATTTTTGGAAG-TTC
1 GGGG-TAAAATGGA-ATTTTTGGAAGTTTA
*
10992 GAGGGTAAAATGGTAATTTTTGGAAGTTTC
1 G-GGGTAAAATGG-AATTTTTGGAAGTTTA
* *
11022 GAGGTCAAAATGGGATTTTTGGAAGTTT-
1 GGGGT-AAAATGGAATTTTTGGAAGTTTA
11050 GGGGTTAAAATGGTAATTTTTGGAAGTTTTA
1 GGGG-TAAAATGG-AATTTTTGGAAG-TTTA
* * * *
11081 GGGTTAAAAATGGGATTTTT-TATAG-TTC
1 GGGGT-AAAATGGAATTTTTGGA-AGTTTA
* *
11109 GATGGTAAAATGGTAATTTTTGGAAGTTTT
1 G-GGGTAAAATGG-AATTTTTGGAAGTTTA
*
11139 GGGGTCAAAAATGGGATTTTTGGAAGTTT-
1 GGGGT--AAAATGGAATTTTTGGAAGTTTA
11168 GAGGGTAAAATGGTAATTTTTTGGAAGTTTA
1 G-GGGTAAAATGG-AA-TTTTTGGAAGTTTA
* *
11199 GGGGTTAAAAATGGGATTTTTAGAAGTTT-
1 GGGG-T-AAAATGGAATTTTTGGAAGTTTA
11228 GAGGGTAAAATGGTAATTTTTGGATAGTTTA
1 G-GGGTAAAATGG-AATTTTTGGA-AGTTTA
11259 GGG
1 GGG
11262 ACCTTCGGGG
Statistics
Matches: 296, Mismatches: 28, Indels: 66
0.76 0.07 0.17
Matches are distributed among these distances:
28 48 0.16
29 102 0.34
30 111 0.38
31 28 0.09
32 7 0.02
ACGTcount: A:0.29, C:0.02, G:0.30, T:0.39
Consensus pattern (28 bp):
GGGGTAAAATGGAATTTTTGGAAGTTTA
Found at i:10960 original size:59 final size:59
Alignment explanation
Indices: 10876--11257 Score: 531
Period size: 59 Copynumber: 6.5 Consensus size: 59
10866 AGACATTCGG
* * *
10876 GGGTAAAAATGGTAATTTTTTGAAGTTTTGGGGTTAAAAATGAGATTTTTGGTAGTTT-A
1 GGGT-AAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGA
* * *
10935 GGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTT-AAAACGAGATTTTTGGAAGTTCGA
1 -GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGA
* * *
10994 GGGTAAAATGGTAATTTTTGGAAGTTTCGAGG-TCAAAATGGGATTTTTGGAAGTTTG-
1 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGA
* * *
11051 GGGTTAAAATGGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTT-TATAGTTCGA
1 GGG-TAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGA-AGTTTGA
* *
11111 TGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTGA
1 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGA
* *
11170 GGGTAAAATGGTAATTTTTTGGAAGTTTAGGGGTTAAAAATGGGATTTTTAGAAGTTTGA
1 GGGTAAAATGGTAA-TTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGA
11230 GGGTAAAATGGTAATTTTTGGATAGTTT
1 GGGTAAAATGGTAATTTTTGGA-AGTTT
11258 AGGGACCTTC
Statistics
Matches: 289, Mismatches: 24, Indels: 18
0.87 0.07 0.05
Matches are distributed among these distances:
57 4 0.01
58 96 0.33
59 121 0.42
60 68 0.24
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGA
Found at i:12000 original size:28 final size:22
Alignment explanation
Indices: 11940--11987 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
11930 CGGTGAACGT
11940 GCCACTGCCTGCACGTCCACGC
1 GCCACTGCCTGCACGTCCACGC
11962 GCCACTGCCTGCACGTCCACGC
1 GCCACTGCCTGCACGTCCACGC
11984 GCCA
1 GCCA
11988 TCCTGGCCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.15, C:0.50, G:0.23, T:0.12
Consensus pattern (22 bp):
GCCACTGCCTGCACGTCCACGC
Found at i:12240 original size:21 final size:21
Alignment explanation
Indices: 12214--12285 Score: 135
Period size: 21 Copynumber: 3.4 Consensus size: 21
12204 GCAGAGGCTT
*
12214 CGACGCGGGCTCCGACGACGG
1 CGACGCGGGCTCCGGCGACGG
12235 CGACGCGGGCTCCGGCGACGG
1 CGACGCGGGCTCCGGCGACGG
12256 CGACGCGGGCTCCGGCGACGG
1 CGACGCGGGCTCCGGCGACGG
12277 CGACGCGGG
1 CGACGCGGG
12286 TCAGGGAAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.11, C:0.38, G:0.47, T:0.04
Consensus pattern (21 bp):
CGACGCGGGCTCCGGCGACGG
Found at i:13031 original size:6 final size:6
Alignment explanation
Indices: 13022--13083 Score: 78
Period size: 6 Copynumber: 10.8 Consensus size: 6
13012 AATTTTGAAG
*
13022 TTAAAT TTAAA- TTAAAT TGAAAT TTAAGA- TT-AAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT
13068 TTAAA- TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAA
13084 ATAAATTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 34 0.69
7 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:13038 original size:11 final size:11
Alignment explanation
Indices: 13022--13090 Score: 79
Period size: 11 Copynumber: 6.1 Consensus size: 11
13012 AATTTTGAAG
13022 TTAAATTTAAA-
1 TTAAA-TTAAAT
13033 TTAAATTGAAAT
1 TTAAATT-AAAT
13045 TTAAGATT-AAT
1 TTAA-ATTAAAT
13056 TTAAATTTAAAT
1 TTAAA-TTAAAT
13068 TTAAATTAAAT
1 TTAAATTAAAT
*
13079 TTAAAATAAAT
1 TTAAATTAAAT
13090 T
1 T
13091 AAAAAGGGCC
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
10 3 0.06
11 34 0.65
12 12 0.23
13 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:13046 original size:17 final size:16
Alignment explanation
Indices: 13022--13093 Score: 99
Period size: 17 Copynumber: 4.3 Consensus size: 16
13012 AATTTTGAAG
13022 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
*
13038 TTGAAATTTAAGATTAAT
1 TT-AAATTTAA-ATTAAA
13056 TTAAATTTAAATTTAAA
1 TTAAATTTAAA-TTAAA
*
13073 TTAAATTTAAAATAAA
1 TTAAATTTAAATTAAA
13089 TTAAA
1 TTAAA
13094 AAGGGCCCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
16 12 0.24
17 31 0.62
18 7 0.14
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:13881 original size:59 final size:58
Alignment explanation
Indices: 13776--14006 Score: 207
Period size: 59 Copynumber: 3.9 Consensus size: 58
13766 AAAATGAAGT
* ** *
13776 TTTGGAGAA-TTTAAGATC-AAATAGTAATTTTGGGAAAGCATGGGGGTCAAAATGCAAA
1 TTTGGAGAAGTTTAAGGTCAAAAT-GTAATTTTGGG-AAGTTTAGGGGTCAAAATGCAAA
** * * * * *
13834 TTTGG-GAAGGTTTTGGGTTAAAATGTGATTTTGGGGAAGTTTAGGGGTTAAAATGTAAT
1 TTTGGAGAA-GTTTAAGGTCAAAATGTAATTTT-GGGAAGTTTAGGGGTCAAAATGCAAA
* * *
13893 TTTGGAGAAGTTTAAGGTCAAAATGTAATTTTGGGAAGTTTAGGGGTCAATATGTAAT
1 TTTGGAGAAGTTTAAGGTCAAAATGTAATTTTGGGAAGTTTAGGGGTCAAAATGCAAA
* * * * * *
13951 TTTGGAAAAGTTTAGAGGTCAAAATGTAACTTTAGAAATGTTTAAGGGTTAAAATG
1 TTTGGAGAAGTTTA-AGGTCAAAATGTAATTTTGGGAA-GTTTAGGGGTCAAAATG
14007 TATTATTTTA
Statistics
Matches: 142, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
57 3 0.02
58 42 0.30
59 73 0.51
60 24 0.17
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (58 bp):
TTTGGAGAAGTTTAAGGTCAAAATGTAATTTTGGGAAGTTTAGGGGTCAAAATGCAAA
Found at i:13882 original size:30 final size:30
Alignment explanation
Indices: 13818--14008 Score: 194
Period size: 30 Copynumber: 6.5 Consensus size: 30
13808 GGAAAGCATG
* *
13818 GGGGTCAAAATGCAAATTTGG-GAAGGTTT-
1 GGGGTCAAAATGTAATTTTGGAGAA-GTTTA
* * * *
13847 TGGGTTAAAATGTGATTTTGGGGAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAGAAGTTTA
*
13877 GGGGTTAAAATGTAATTTTGGAGAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAGAAGTTTA
*
13907 -AGGTCAAAATGTAATTTTGG-GAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAGAAGTTTA
* *
13935 GGGGTCAATATGTAATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAGAAGTTTA
* * *
13965 GAGGTCAAAATGTAACTTTAGA-AATGTTTA
1 GGGGTCAAAATGTAATTTTGGAGAA-GTTTA
* *
13995 AGGGTTAAAATGTA
1 GGGGTCAAAATGTA
14009 TTATTTTAAA
Statistics
Matches: 137, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
28 8 0.06
29 58 0.42
30 71 0.52
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAGAAGTTTA
Found at i:13928 original size:88 final size:89
Alignment explanation
Indices: 13819--14008 Score: 224
Period size: 88 Copynumber: 2.1 Consensus size: 89
13809 GAAAGCATGG
* * * * ** * *
13819 GGGTCAAAATGCAAATTTGGGAAGGTTT-TGGGTTAAAATGTGATTTTGGGGAAGTTTAGGGGTT
1 GGGTCAAAATGTAAATTTGGGAA-GTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTAGAGGTC
* *
13883 AAAATGTAATTTTGGAGAA-GTTTAA
65 AAAATGTAACTTTAGA-AATGTTTAA
* *
13908 -GGTCAAAATGTAATTTTGGGAAGTTTAGGGGTCAATATGTAATTTTGGAAAAGTTTAGAGGTCA
1 GGGTCAAAATGTAAATTTGGGAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTAGAGGTCA
13972 AAATGTAACTTTAGAAATGTTTAA
66 AAATGTAACTTTAGAAATGTTTAA
*
13996 GGGTTAAAATGTA
1 GGGTCAAAATGTA
14009 TTATTTTAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
87 6 0.07
88 68 0.80
89 11 0.13
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (89 bp):
GGGTCAAAATGTAAATTTGGGAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTAGAGGTCA
AAATGTAACTTTAGAAATGTTTAA
Found at i:16341 original size:209 final size:208
Alignment explanation
Indices: 15820--16495 Score: 808
Period size: 209 Copynumber: 3.2 Consensus size: 208
15810 GCTTCATATC
* * * * * *
15820 TTGGTCTACTTCTCTGTATTTCATCAAGATGATGATCACTTCATTGTTTTGATCTAC-TCAT-TG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTTAATCTACTTC-TCTG
* *
15883 TATCTCATTAGGAAGATGGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCAT-TTTA
65 TATCTCATTAGGAAGATGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAAATGACC-TCTTTA
* * * * * * **
15947 TTGCTTTAACCCACTT-CTCTGTATCTCATCAGGAAGATAAGGTTAAAAGTCTCATTCGTATTGA
129 TTGCTTTAACCCACTTCCT-TATATCTCATCAGGAAGATAGGGTTTAAAGTTTTACTCACATTGA
* * * **
16011 GTTTCGCTTCATCAAT
193 GCTTCACTTTATTGAT
** * * *
16027 TTGGTCTACTTCTCCATATCTCATCAGGAAGATGAACACTTCATTGATTTAATCTACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTTAATCTACTTCTCTGT
* * * *
16092 ATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTTATCAGGAAAATGACCTCTTTATT
66 ATCTCATTAGGAAGATGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAAATGACCTCTTTATT
* *
16157 GCTTTAACCCATTTCCTTATATCTCATCAGGAAGATGGGGGTTTAAAGTTTTACTCACATTGAGC
131 GCTTTAACCCACTTCCTTATATCTCATCAGGAAGAT-AGGGTTTAAAGTTTTACTCACATTGAGC
16222 TTCACTTTATTGAT
195 TTCACTTTATTGAT
* *
16236 TTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAAT-TCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTTAATCT-ACTTCTCTG
* * *
16300 TATCTCATTAGGAAGATGAATTTGATCTACTTCTTTGTATCTCATCAGGAAAATGACCTCTTTAT
65 TATCTCATTAGGAAGATGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAAATGACCTCTTTAT
* * * * * * *
16365 TGCTTTGACTCACTTCTTTATATCTTATCAGGAAGATCGGGTTTGAA-TTTTCACTCACATTAAG
130 TGCTTTAACCCACTTCCTTATATCTCATCAGGAAGATAGGGTTTAAAGTTTT-ACTCACATTGAG
16429 CTTCACTTCT-TTGAT
194 CTTCACTT-TATTGAT
* * **
16444 TTGGTCTACTTCTCTGTATTTCATCAGAAAGATGACCGTCTCATTGTTTTAA
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTTAA
16496 CGTTTCACTC
Statistics
Matches: 406, Mismatches: 55, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
207 55 0.14
208 174 0.43
209 177 0.44
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (208 bp):
TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTTAATCTACTTCTCTGT
ATCTCATTAGGAAGATGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAAATGACCTCTTTATT
GCTTTAACCCACTTCCTTATATCTCATCAGGAAGATAGGGTTTAAAGTTTTACTCACATTGAGCT
TCACTTTATTGAT
Found at i:16378 original size:85 final size:85
Alignment explanation
Indices: 16234--16401 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
16224 CACTTTATTG
* * * *
16234 ATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATTCACTTCTCT
1 ATTTGATCTACTTCTTTGTATCTCATCAGGAAAATGACCGCCTCATTGCTTTAACTCACTTCTCT
* *
16299 GTATCTCATTAGGAAGATGA
66 ATATCTCATCAGGAAGATGA
* * * * *
16319 ATTTGATCTACTTCTTTGTATCTCATCAGGAAAATGACCTCTTTATTGCTTTGACTCACTTCTTT
1 ATTTGATCTACTTCTTTGTATCTCATCAGGAAAATGACCGCCTCATTGCTTTAACTCACTTCTCT
*
16384 ATATCTTATCAGGAAGAT
66 ATATCTCATCAGGAAGAT
16402 CGGGTTTGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (85 bp):
ATTTGATCTACTTCTTTGTATCTCATCAGGAAAATGACCGCCTCATTGCTTTAACTCACTTCTCT
ATATCTCATCAGGAAGATGA
Found at i:17343 original size:45 final size:45
Alignment explanation
Indices: 17279--17405 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 45
17269 CTGTTCTTTA
* * * *
17279 TTTTGAATTTGAGCCGCCCTTTACGAGTTTTCAACTCAAAATCCT
1 TTTTGATTTTGAGACGCCCTTTGCGAGTTTTCATCTCAAAATCCT
* * *
17324 TTTTGATTTTAAGACGCCCTTTGTGGGTTTTCATCTC--AATCCT
1 TTTTGATTTTGAGACGCCCTTTGCGAGTTTTCATCTCAAAATCCT
*
17367 TTTT--TTTATCGAGACGCCCTTTGCAAGTTTTCATCTCAA
1 TTTTGATTT-T-GAGACGCCCTTTGCGAGTTTTCATCTCAA
17406 TCTTTTTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 33 0.49
45 30 0.45
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (45 bp):
TTTTGATTTTGAGACGCCCTTTGCGAGTTTTCATCTCAAAATCCT
Found at i:17382 original size:43 final size:40
Alignment explanation
Indices: 17330--17444 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 40
17320 TCCTTTTTGA
17330 TTTT-AAGACGCCCTTTGTGGGTTTTCATCTCAATCCTTTTT
1 TTTTCAAGACGCCCTTTG-GGGTTTTCATCTCAAT-CTTTTT
* **
17371 TTTATCGAGACGCCCTTTGCAAGTTTTCATCTCAATCTTTTT
1 TTT-TCAAGACGCCCTTTG-GGGTTTTCATCTCAATCTTTTT
*
17413 TTTTCAAGATGCCCTTTAGGGGTTTTCATCTC
1 TTTTCAAGACGCCCTTT-GGGGTTTTCATCTC
17445 GATTTCTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 26 0.41
42 11 0.17
43 26 0.41
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.46
Consensus pattern (40 bp):
TTTTCAAGACGCCCTTTGGGGTTTTCATCTCAATCTTTTT
Found at i:17438 original size:41 final size:42
Alignment explanation
Indices: 17293--17444 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 42
17283 GAATTTGAGC
* *
17293 CGCCCTTTACGAGTTTTCAACTCAAAATCCTTTTTGATTTT-AAGA
1 CGCCCTTTGCGAGTTTTCATCTC--AATCCTTTTT--TTTTCAAGA
* * *
17338 CGCCCTTTGTGGGTTTTCATCTCAATCCTTTTTTTTATCGAGA
1 CGCCCTTTGCGAGTTTTCATCTCAATCCTTTTTTTT-TCAAGA
*
17381 CGCCCTTTGCAAGTTTTCATCTCAAT-CTTTTTTTTTCAAGA
1 CGCCCTTTGCGAGTTTTCATCTCAATCCTTTTTTTTTCAAGA
* *
17422 TGCCCTTTAG-GGGTTTTCATCTC
1 CGCCCTTT-GCGAGTTTTCATCTC
17445 GATTTCTCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
41 26 0.28
42 11 0.12
43 36 0.39
45 19 0.21
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (42 bp):
CGCCCTTTGCGAGTTTTCATCTCAATCCTTTTTTTTTCAAGA
Found at i:19711 original size:356 final size:356
Alignment explanation
Indices: 19058--19764 Score: 1315
Period size: 356 Copynumber: 2.0 Consensus size: 356
19048 TTAAAGCACC
*
19058 ATCAAAATTTAATCTCCAAGGATGTTCCACCATGGTTTCTTCTTTAGTAGTTGCAACATACATTA
1 ATCAAAATTTAATCTCCAAGGATGTTCCACCATGGTTCCTTCTTTAGTAGTTGCAACATACATTA
*
19123 AATCCTTGTTTGGGAAATCAAAGTTTATTGGCTCATAGTCCTCTAAAGCCTTGCTGGCTAAGAAG
66 AATCCTCGTTTGGGAAATCAAAGTTTATTGGCTCATAGTCCTCTAAAGCCTTGCTGGCTAAGAAG
19188 TCTGCTATCGCACTCCCTTTTACTGTCTTTTGATTAACATAGATTATGTCGAACTCAGACAATAA
131 TCTGCTATCGCACTCCCTTTTACTGTCTTTTGATTAACATAGATTATGTCGAACTCAGACAATAA
* *
19253 GATTTTCCACCTAGCCAACCTTCCATTTAGTGTGACCGACTCCATCATATATTTTAGAGGATCTA
196 GATTTTCCACCTAGCCAACCTTCCATTCAGTGTGACCGACTCCATCATATATTTCAGAGGATCTA
19318 ATTTTAAGATTAACCAAGTTGTGTGGTACAACATGTATTATCTTAATCTTCTCGTGGTTCAAACT
261 ATTTTAAGATTAACCAAGTTGTGTGGTACAACATGTATTATCTTAATCTTCTCGTGGTTCAAACT
19383 AGAGCACAACATAGCTTTTCAATTGGCGAGT
326 AGAGCACAACATAGCTTTTCAATTGGCGAGT
19414 ATCAAAATTTAATCTCCAAGGATGTTCCACCATGGTTCCTTCTTTAGTAGTTGCAACATACATTA
1 ATCAAAATTTAATCTCCAAGGATGTTCCACCATGGTTCCTTCTTTAGTAGTTGCAACATACATTA
* * *
19479 AATCCTCGTTTGGGAAATCGAAGTTTATTGGCTCATAGTCCTCTAAAGTCTTGCTGGCTAGGAAG
66 AATCCTCGTTTGGGAAATCAAAGTTTATTGGCTCATAGTCCTCTAAAGCCTTGCTGGCTAAGAAG
*
19544 TCTGCTATCGTACTCCCTTTTACTGTCTTTTGATTAACATAGATTATGTCGAACTCAGACAATAA
131 TCTGCTATCGCACTCCCTTTTACTGTCTTTTGATTAACATAGATTATGTCGAACTCAGACAATAA
19609 GATTTTCCACCTAGCCAACCTTCCATTCAGTGTGACCGACTCCATCATATATTTCAGAGGATCTA
196 GATTTTCCACCTAGCCAACCTTCCATTCAGTGTGACCGACTCCATCATATATTTCAGAGGATCTA
* *
19674 ATTTTAAGATTAACCAAGTTGTGTGGTACAACATGTATTGTCTTAATCTTCTTGTGGTTCAAACT
261 ATTTTAAGATTAACCAAGTTGTGTGGTACAACATGTATTATCTTAATCTTCTCGTGGTTCAAACT
*
19739 AGAGCACAACATAGTTTTTCAATTGG
326 AGAGCACAACATAGCTTTTCAATTGG
19765 AAAGTATCGA
Statistics
Matches: 340, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
356 340 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (356 bp):
ATCAAAATTTAATCTCCAAGGATGTTCCACCATGGTTCCTTCTTTAGTAGTTGCAACATACATTA
AATCCTCGTTTGGGAAATCAAAGTTTATTGGCTCATAGTCCTCTAAAGCCTTGCTGGCTAAGAAG
TCTGCTATCGCACTCCCTTTTACTGTCTTTTGATTAACATAGATTATGTCGAACTCAGACAATAA
GATTTTCCACCTAGCCAACCTTCCATTCAGTGTGACCGACTCCATCATATATTTCAGAGGATCTA
ATTTTAAGATTAACCAAGTTGTGTGGTACAACATGTATTATCTTAATCTTCTCGTGGTTCAAACT
AGAGCACAACATAGCTTTTCAATTGGCGAGT
Found at i:28745 original size:30 final size:29
Alignment explanation
Indices: 28644--28781 Score: 136
Period size: 30 Copynumber: 4.7 Consensus size: 29
28634 TTTTGAAGAA
*
28644 TTTAGGGTCAAAA-GTAATTTTAGGAAAG
1 TTTAGGGTCAAAATGTAATTTTGGGAAAG
* * *
28672 TTTGGGAGTCAAAATGCAATTTTGGGAAGG
1 TTTAGG-GTCAAAATGTAATTTTGGGAAAG
*
28702 TTTAGGGTCAAAATGTGATTTTGGGAAAG
1 TTTAGGGTCAAAATGTAATTTTGGGAAAG
* * *
28731 TTTAAGGGTTAAAATATAATTTT-AGAGAAG
1 TTT-AGGGTCAAAATGTAATTTTGGGA-AAG
* *
28761 TTTGGGGGTTAAAATGTAATT
1 TTT-AGGGTCAAAATGTAATT
28782 ATGGACTCTT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
28 5 0.05
29 32 0.35
30 54 0.59
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTTGGGAAAG
Found at i:29407 original size:28 final size:28
Alignment explanation
Indices: 29376--29434 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
29366 TTTGATTTCC
* * *
29376 TTTATTTTTCAAATCTGTTT-TTATTTTT
1 TTTATTTTT-AAACCTATTTCTTATTTAT
29404 TTTATTTTTAAACCTATTTCTTATTTAT
1 TTTATTTTTAAACCTATTTCTTATTTAT
29432 TTT
1 TTT
29435 CTTGTTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTATTTTTAAACCTATTTCTTATTTAT
Found at i:29560 original size:18 final size:17
Alignment explanation
Indices: 29517--29552 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
29507 AATGAATACT
29517 TTTC-TTTTTTTTTATA
1 TTTCATTTTTTTTTATA
29533 TTTCATTTTTTCTTTATA
1 TTTCATTTTTT-TTTATA
29551 TT
1 TT
29553 CTATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 8 0.44
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTCATTTTTTTTTATA
Found at i:40675 original size:21 final size:21
Alignment explanation
Indices: 40625--40678 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
40615 TGGAAAGGTC
40625 CTATCGATACAAGTATGACTA
1 CTATCGATACAAGTATGACTA
* * *
40646 CTA-CTGATACAATTATTACTT
1 CTATC-GATACAAGTATGACTA
40667 CTATCGATACAA
1 CTATCGATACAA
40679 CAAATTCTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (21 bp):
CTATCGATACAAGTATGACTA
Found at i:56641 original size:17 final size:18
Alignment explanation
Indices: 56615--56662 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
56605 CACTTATAAA
56615 AAAAGAAAAA-AAGAAAG
1 AAAAGAAAAAGAAGAAAG
* *
56632 AAAAGGAAAAGAGGAAAG
1 AAAAGAAAAAGAAGAAAG
*
56650 -AAGGAAAAAGAAG
1 AAAAGAAAAAGAAG
56663 TATACTGCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAGAAAG
Found at i:66463 original size:29 final size:31
Alignment explanation
Indices: 66412--66470 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
66402 TTAGTTGAGT
*
66412 TTTAAAATTTTTAAGTTTCATTTTT-TGTTG
1 TTTAAAATTTTTAAGTTTAATTTTTATGTTG
*
66442 TTTAAAA-TTTTAATTTTAATTTTTATGTT
1 TTTAAAATTTTTAAGTTTAATTTTTATGTT
66471 AATAAAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (31 bp):
TTTAAAATTTTTAAGTTTAATTTTTATGTTG
Found at i:76584 original size:17 final size:18
Alignment explanation
Indices: 76558--76602 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
76548 ATAGTTTGCA
*
76558 TGCATCTTTA-TTGTCAT
1 TGCATTTTTATTTGTCAT
*
76575 TGCATTTTTATTTTGTTAT
1 TGCATTTTTA-TTTGTCAT
76594 TGCATTTTT
1 TGCATTTTT
76603 TTAGTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (18 bp):
TGCATTTTTATTTGTCAT
Found at i:77223 original size:27 final size:28
Alignment explanation
Indices: 77187--77242 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
77177 ACATCGAAAG
*
77187 GAAAATGAGATAAAAAAAAAAAGAAAAA
1 GAAAATGAGAGAAAAAAAAAAAGAAAAA
* * *
77215 GAAAA-GAGAGAAGAAGAAGAAGAAAAA
1 GAAAATGAGAGAAAAAAAAAAAGAAAAA
77242 G
1 G
77243 TTATGTTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (28 bp):
GAAAATGAGAGAAAAAAAAAAAGAAAAA
Found at i:79904 original size:22 final size:23
Alignment explanation
Indices: 79861--79906 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
79851 TTTTAGGTCC
*
79861 TTAGGAATTTATTTCTTTCATAA
1 TTAGGAATTTATTTCTTGCATAA
*
79884 TTAGGATTTTATTTC-TGCATAA
1 TTAGGAATTTATTTCTTGCATAA
79906 T
1 T
79907 AAAACATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTGCATAA
Found at i:87021 original size:18 final size:19
Alignment explanation
Indices: 86997--87038 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
86987 TATATTCAAA
86997 AAAAT-AATTATTTTTAAC
1 AAAATAAATTATTTTTAAC
*
87015 CAAATAAATTATTTTTAAC
1 AAAATAAATTATTTTTAAC
87034 AAAAT
1 AAAAT
87039 CAACATTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAAATTATTTTTAAC
Found at i:93220 original size:4 final size:4
Alignment explanation
Indices: 93211--93250 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
93201 ATAAATCGAG
* * *
93211 TAAA TAAA TAAC TGAA TAAA TAAA TAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
93251 ATAATATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:93404 original size:30 final size:30
Alignment explanation
Indices: 93361--93484 Score: 142
Period size: 30 Copynumber: 4.1 Consensus size: 30
93351 CATTAAAACC
* *
93361 GGGTCAAATTTGAATTTTTAGAAAGTTCAA
1 GGGTTAAATTTGAATTTTTAGAAAGTTTAA
* *
93391 GGGTTAGATTTGAATTTTTAGAAAGTTTAG
1 GGGTTAAATTTGAATTTTTAGAAAGTTTAA
**
93421 GGGTTAAATTCAAATTTTTAGAAAGTTTAA
1 GGGTTAAATTTGAATTTTTAGAAAGTTTAA
* * * *
93451 AGGTCAAAATTGAATTTTT-GAAAAGTTTAG
1 GGGTTAAATTTGAATTTTTAG-AAAGTTTAA
93481 GGGT
1 GGGT
93485 AAAAAACATA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 1 0.01
30 77 0.99
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (30 bp):
GGGTTAAATTTGAATTTTTAGAAAGTTTAA
Found at i:93500 original size:60 final size:60
Alignment explanation
Indices: 93373--93499 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
93363 GTCAAATTTG
* * * * * **
93373 AATTTTTAGAAAGTTCAAGGGTTAGATTTGAATTTTTAGAAAGTTTAGGGGTTAAATTCA
1 AATTTTTAGAAAGTTCAAAGGTCAAAATTGAATTTTTAGAAAGTTTAGGGGTAAAAAACA
*
93433 AATTTTTAGAAAGTTTAAAGGTCAAAATTGAATTTTT-GAAAAGTTTAGGGGTAAAAAACA
1 AATTTTTAGAAAGTTCAAAGGTCAAAATTGAATTTTTAG-AAAGTTTAGGGGTAAAAAACA
93493 TAATTTT
1 -AATTTT
93500 AAAATAAAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 50 0.88
61 6 0.11
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (60 bp):
AATTTTTAGAAAGTTCAAAGGTCAAAATTGAATTTTTAGAAAGTTTAGGGGTAAAAAACA
Found at i:93544 original size:53 final size:53
Alignment explanation
Indices: 93486--93590 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
93476 TTTAGGGGTA
* *
93486 AAAAACATAATTTTAAAATAAAGCAAG-GATTTCTTGAGCAATAAACCCAAAAT
1 AAAAACATAATTTTAAAATAAAGC-AGTGACTTCTCGAGCAATAAACCCAAAAT
* *
93539 AAAAACATAATTTTAAAATAAAGCAGTGGCTTCTCGAGCAATAAACCTAAAA
1 AAAAACATAATTTTAAAATAAAGCAGTGACTTCTCGAGCAATAAACCCAAAA
93591 ATCTTGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.24
Consensus pattern (53 bp):
AAAAACATAATTTTAAAATAAAGCAGTGACTTCTCGAGCAATAAACCCAAAAT
Found at i:94756 original size:67 final size:63
Alignment explanation
Indices: 94641--94780 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 63
94631 TGGGTTTATT
* * * *
94641 ATTTATTTATTTATATTCATAAAATAATAAATAAATAATTAAATAAAATTATTA-TTATTTTAC
1 ATTTATTTATGTATATTCATAAAATAATAAATAAATAATAAAACAAAATTAATATTTA-TTTAC
*
94704 ATTTATTTATGTGTATTCATACAATAATAAATAAATAAATAATAAAACAAAATTAATATTTATTT
1 ATTTATTTATGTATATTCAT--AA-AAT-AATAAATAAATAATAAAACAAAATTAATATTTATTT
*
94769 AT
62 AC
94771 ATTTATTTAT
1 ATTTATTTAT
94781 TTATTTATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
63 18 0.27
65 2 0.03
66 3 0.05
67 40 0.61
68 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (63 bp):
ATTTATTTATGTATATTCATAAAATAATAAATAAATAATAAAACAAAATTAATATTTATTTAC
Found at i:94774 original size:63 final size:62
Alignment explanation
Indices: 94642--94776 Score: 148
Period size: 63 Copynumber: 2.1 Consensus size: 62
94632 GGGTTTATTA
* * ** * *
94642 TTTATTTATTTATATTCATAAAATAATAAATAAATAATTAAATAAAATTATTATTATTTTACA
1 TTTATTTATGTATATTCATAAAATAATAAATAAATAAATAAATAAAAAAATTAATATTTTA-T
* *
94705 TTTATTTATGTGTATTCATACAATAATAAATAAATAAAT-AATAAAACAAAATTAATA-TTTAT
1 TTTATTTATGTATATTCATAAAATAATAAATAAATAAATAAAT-AAA-AAAATTAATATTTTAT
94767 TTATATTTAT
1 TT-TATTTAT
94777 TTATTTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 5 0.08
63 49 0.80
64 7 0.11
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (62 bp):
TTTATTTATGTATATTCATAAAATAATAAATAAATAAATAAATAAAAAAATTAATATTTTAT
Found at i:94795 original size:18 final size:18
Alignment explanation
Indices: 94760--94795 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94750 ACAAAATTAA
*
94760 TATTTATTTATATTTATT
1 TATTTATTTATATATATT
*
94778 TATTTATTTATGTATATT
1 TATTTATTTATATATATT
94796 AATAAAATGA
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:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTATTTATATATATT
Found at i:94809 original size:67 final size:68
Alignment explanation
Indices: 94635--94812 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 68
94625 GTAATTTGGG
* * *
94635 TTTA-TTATTTATTTATTTATATTCATAAAATAATAAATAAATAATTAAATAAAATTATTATTAT
1 TTTATTTATTTATTTA-TTATATTAATAAAATAATAAAT-AATAA-TAAACAAAATTAATATTAT
94699 TTTACA
63 TTTACA
* * *
94705 TTTATTTATGTGTATTCA-TACAATAAT-AAATAAATAAATAAT-A-AAACAAAATTAATATT-T
1 TTTATTTAT-T-TATTTATTATATTAATAAAAT-AATAAATAATAATAAACAAAATTAATATTAT
*
94765 ATTTATA
63 -TTTACA
*
94772 TTTATTTATTTATTTATGTATATTAATAAAATGATAAATAA
1 TTTATTTATTTATTTAT-TATATTAATAAAATAATAAATAA
94813 AATGATAAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
65 5 0.06
66 2 0.02
67 43 0.48
68 4 0.04
69 1 0.01
70 11 0.12
71 17 0.19
72 1 0.01
73 5 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (68 bp):
TTTATTTATTTATTTATTATATTAATAAAATAATAAATAATAATAAACAAAATTAATATTATTTT
ACA
Found at i:94813 original size:12 final size:12
Alignment explanation
Indices: 94796--94826 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
94786 TATGTATATT
94796 AATAAAATGATA
1 AATAAAATGATA
94808 AATAAAATGATA
1 AATAAAATGATA
94820 AATAAAA
1 AATAAAA
94827 AGTAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
AATAAAATGATA
Found at i:95593 original size:40 final size:39
Alignment explanation
Indices: 95443--95615 Score: 186
Period size: 40 Copynumber: 4.4 Consensus size: 39
95433 AGCTTAAGGA
* *
95443 GTAAAAGATTGGATCGCTTCAATCTGCCCCATGGTAGGG
1 GTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGG
* * * ** **
95482 GTAAGAGATCGGATGGTCTTCAATCTGTCCTC-TAATTAGG
1 GTAAAAGATTGGATGG-CTTCAATCTG-CCCCATGGTCGGG
* * * *
95522 GTAAAAGACTGGATTGCTTCAACCTGGCCCATGGTCGGG
1 GTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGG
95561 GTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCGGG
1 GTAAAAGATTGGATGG-CTTCAATCTGCCCCATGGTCGGG
*
95601 GCAAAAGATTGGATG
1 GTAAAAGATTGGATG
95616 TGGTGACTTC
Statistics
Matches: 106, Mismatches: 24, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
38 2 0.02
39 40 0.38
40 61 0.58
41 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (39 bp):
GTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGG
Found at i:95607 original size:79 final size:79
Alignment explanation
Indices: 95445--95614 Score: 207
Period size: 79 Copynumber: 2.2 Consensus size: 79
95435 CTTAAGGAGT
* *
95445 AAAAGATTGGATCGCTTCAATCTGCCCCATGGTAGGGGTAAGAGATCGGATGGTCTTCAATCTGT
1 AAAAGATTGGATCGCTTCAACCTGCCCCATGGTAGGGGTAAAAGATCGGATGGTCTTCAATCTGT
* * *
95510 CCTCTAATTAGGGT
66 CCCCTAATCAGGGC
* * * * *
95524 AAAAGACTGGATTGCTTCAACCTGGCCCATGGTCGGGGTAAAAGATTGGATGGTCTTCAATCTG-
1 AAAAGATTGGATCGCTTCAACCTGCCCCATGGTAGGGGTAAAAGATCGGATGGTCTTCAATCTGT
** *
95588 CCCCATGGTCGGGGC
66 CCCC-TAATCAGGGC
95603 AAAAGATTGGAT
1 AAAAGATTGGAT
95615 GTGGTGACTT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 3 0.04
79 73 0.96
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
AAAAGATTGGATCGCTTCAACCTGCCCCATGGTAGGGGTAAAAGATCGGATGGTCTTCAATCTGT
CCCCTAATCAGGGC
Found at i:96137 original size:28 final size:28
Alignment explanation
Indices: 96106--96213 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 28
96096 TTTGGATGCC
96106 CGAGGGTAAAATGGTAATTTTGGACACT
1 CGAGGGTAAAATGGTAATTTTGGACACT
** * *
96134 CGAGGG-AAAATTTTTAATTTTGGGAAAGT
1 CGAGGGTAAAA-TGGTAATTTT-GGACACT
** * * *
96163 TTAGGGTCAAAAATAG-AATTTTTAGACATT
1 CGAGGGT--AAAATGGTAA-TTTTGGACACT
96193 CGAGGGTAAAATGGTAATTTT
1 CGAGGGTAAAATGGTAATTTT
96214 TGGAAAGATC
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
27 4 0.07
28 24 0.41
29 11 0.19
30 11 0.19
31 5 0.08
32 4 0.07
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (28 bp):
CGAGGGTAAAATGGTAATTTTGGACACT
Found at i:96303 original size:118 final size:118
Alignment explanation
Indices: 96167--96449 Score: 337
Period size: 118 Copynumber: 2.4 Consensus size: 118
96157 GAAAGTTTAG
* * * *
96167 GGTCAAAAATAGAATTTTTAGACA-TTCGA-GGGTAAAATGGTAATTTTTGGAAAGA-TCGTGGT
1 GGTCAAAAATGGAATTTTTAGAAAGTT-GAGGGGTAAAATGGTAA-TTTTGGAAAAATTAG-GGT
* * *
96229 CAAAAATGGAGTTTTTGGAAGTTTG-GGGGTAAAATGGTAATTTTGGAAAA-AATCGA
63 CAAAAATAGAATTTTTGGAAGTTCGAGGGG-AAAATGGTAATTTTGGAAAAGAAT-GA
* ** *
96285 GGTCAAAAATGGATTTTTTTTAAAGTTTAGGGGTAAAATGGTAATTTTGGAAAAATTAGGGTCAA
1 GGTCAAAAATGGAATTTTTAGAAAGTTGAGGGGTAAAATGGTAATTTTGGAAAAATTAGGGTCAA
* *
96350 AAATAGAATTTTTGGAAGTTCGAGGGGAAAATGGTAATTTTTGAAAAGAATGG
66 AAATAGAATTTTTGGAAGTTCGAGGGGAAAATGGTAATTTTGGAAAAGAATGA
*
96403 GGTCAAAAATGGAA-TTTTAGAAAGTTTAGGGGTAAAAAT-GTAATTTT
1 GGTCAAAAATGGAATTTTTAGAAAGTTGAGGGGT-AAAATGGTAATTTT
96450 TAGATAGTTT
Statistics
Matches: 143, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
117 25 0.17
118 93 0.65
119 25 0.17
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.33
Consensus pattern (118 bp):
GGTCAAAAATGGAATTTTTAGAAAGTTGAGGGGTAAAATGGTAATTTTGGAAAAATTAGGGTCAA
AAATAGAATTTTTGGAAGTTCGAGGGGAAAATGGTAATTTTGGAAAAGAATGA
Found at i:96332 original size:29 final size:30
Alignment explanation
Indices: 96196--96460 Score: 142
Period size: 29 Copynumber: 9.0 Consensus size: 30
96186 AGACATTCGA
* *
96196 GGGT-AAAATGGTAATTTTTGGAAAG-ATCG
1 GGGTAAAAATGGTAATTTTT-GAAAGTTTAG
* * * *
96225 TGGTCAAAAATGG-AGTTTTTGGAAGTTTGG
1 GGGT-AAAAATGGTAATTTTTGAAAGTTTAG
* *** *
96255 GGGT-AAAATGGTAATTTTGGAAAAAATCG
1 GGGTAAAAATGGTAATTTTTGAAAGTTTAG
* * *
96284 AGGTCAAAAATGG-ATTTTTTTTAAAGTTTAG
1 GGGT-AAAAATGGTA-ATTTTTGAAAGTTTAG
* **
96315 GGGT-AAAATGGTAATTTTGGAAAAATTA-
1 GGGTAAAAATGGTAATTTTTGAAAGTTTAG
* * *
96343 GGGTCAAAAATAG-AATTTTTGGAAGTTCGAG
1 GGGT-AAAAATGGTAATTTTTGAAAGTT-TAG
**
96374 GGG--AAAATGGTAATTTTTGAAAAGAAT-G
1 GGGTAAAAATGGTAATTTTTG-AAAGTTTAG
*
96402 GGGTCAAAAATGG-AATTTTAGAAAGTTTAG
1 GGGT-AAAAATGGTAATTTTTGAAAGTTTAG
*
96432 GGGTAAAAAT-GTAATTTTTAGATAGTTTA
1 GGGTAAAAATGGTAATTTTT-GAAAGTTTA
96461 AGGACCTTTA
Statistics
Matches: 173, Mismatches: 43, Indels: 39
0.68 0.17 0.15
Matches are distributed among these distances:
28 22 0.13
29 72 0.42
30 43 0.25
31 36 0.21
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (30 bp):
GGGTAAAAATGGTAATTTTTGAAAGTTTAG
Found at i:96428 original size:59 final size:59
Alignment explanation
Indices: 96166--96450 Score: 287
Period size: 59 Copynumber: 4.8 Consensus size: 59
96156 GGAAAGTTTA
* * * *
96166 GGGTCAAAAATAGAATTTTTAGACA-TTCGA-GGGTAAAATGGTAATTTTTGGAAAGATCG
1 GGGTCAAAAATGGAATTTTT-GAAAGTT-GAGGGGTAAAATGGTAATTTTTGAAAAAATCG
* * * *
96225 TGGTCAAAAATGGAGTTTTTGGAAGTTTG-GGGGTAAAATGGTAATTTTGGAAAAAATCG
1 GGGTCAAAAATGGAATTTTTGAAAG-TTGAGGGGTAAAATGGTAATTTTTGAAAAAATCG
* * * * * **
96284 AGGTCAAAAATGGATTTTTTTTAAAGTTTAGGGGTAAAATGGTAA-TTTTGGAAAAATTA
1 GGGTCAAAAATGGA-ATTTTTGAAAGTTGAGGGGTAAAATGGTAATTTTTGAAAAAATCG
* *
96343 GGGTCAAAAATAGAATTTTTGGAAGTTCGAGGGG-AAAATGGTAATTTTTGAAAAGAAT-G
1 GGGTCAAAAATGGAATTTTTGAAAGTT-GAGGGGTAAAATGGTAATTTTTGAAAA-AATCG
* *
96402 GGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAAAT-GTAATTTTT
1 GGGTCAAAAATGGAATTTTTGAAAGTTGAGGGGT-AAAATGGTAATTTTT
96451 AGATAGTTTA
Statistics
Matches: 187, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
58 27 0.14
59 127 0.68
60 33 0.18
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.33
Consensus pattern (59 bp):
GGGTCAAAAATGGAATTTTTGAAAGTTGAGGGGTAAAATGGTAATTTTTGAAAAAATCG
Found at i:96763 original size:29 final size:29
Alignment explanation
Indices: 96730--96842 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 29
96720 GAATGGAGTC
*
96730 AAAAATGGAAATTTTGGAAGTTTAGGGGT
1 AAAAATGGAAATTTTGGAAGTTTAGAGGT
* * * *
96759 AAAAATGTAATTTTTGGAAG-ATCGAGGT
1 AAAAATGGAAATTTTGGAAGTTTAGAGGT
* *
96787 CAAAAATGG-AATTTTAGAAAGTTCAGAGGT
1 -AAAAATGGAAATTTT-GGAAGTTTAGAGGT
* *
96817 AAAAATGTAATTTTTGGATAGTTTAG
1 AAAAATGGAAATTTTGGA-AGTTTAG
96843 GGACCTTTAG
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
28 10 0.16
29 38 0.59
30 16 0.25
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (29 bp):
AAAAATGGAAATTTTGGAAGTTTAGAGGT
Found at i:98749 original size:11 final size:11
Alignment explanation
Indices: 98733--98772 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
98723 ACTTTCAAAT
98733 TTTAAATTTAA
1 TTTAAATTTAA
* *
98744 TTTAAAATAAA
1 TTTAAATTTAA
98755 TTTAAATTTAA
1 TTTAAATTTAA
*
98766 ATTAAAT
1 TTTAAAT
98773 CCAAACTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:98760 original size:6 final size:6
Alignment explanation
Indices: 98733--98836 Score: 60
Period size: 6 Copynumber: 18.5 Consensus size: 6
98723 ACTTTCAAAT
* **
98733 TTTAAA TTT-AA TTTAAA -ATAAA TTTAAA TTTAAA -TTAAA TCCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * ** *
98778 CTCAAA -ATAAG TTTAAA TTTAAA -GCAAA TTCAAA TTTAAA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
98822 TTTAGA TTTAAA TTT
1 TTTAAA TTTAAA TTT
98837 TAAAAATGGG
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
4 4 0.05
5 19 0.26
6 51 0.69
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:98764 original size:17 final size:17
Alignment explanation
Indices: 98735--98833 Score: 94
Period size: 17 Copynumber: 5.9 Consensus size: 17
98725 TTTCAAATTT
98735 TAAATTT-AATTTAAAA
1 TAAATTTAAATTTAAAA
*
98751 TAAATTTAAATTTAAAT
1 TAAATTTAAATTTAAAA
** * *
98768 TAAATCCAAACTCAAAA
1 TAAATTTAAATTTAAAA
* *
98785 TAAGTTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
* *
98802 CAAATTCAAATTT-AAA
1 TAAATTTAAATTTAAAA
*
98818 TAAATTTAGATTTAAA
1 TAAATTTAAATTTAAA
98834 TTTTAAAAAT
Statistics
Matches: 62, Mismatches: 19, Indels: 3
0.74 0.23 0.04
Matches are distributed among these distances:
16 19 0.31
17 43 0.69
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:98786 original size:34 final size:33
Alignment explanation
Indices: 98747--98835 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 33
98737 AATTTAATTT
98747 AAAATAAATTTAAATTTAAATTAAATCCAAACTC
1 AAAATAAATTTAAATTTAAATTAAATCCAAA-TC
* ** * *
98781 AAAATAAGTTTAAATTTAAAGCAAATTCAAATT
1 AAAATAAATTTAAATTTAAATTAAATCCAAATC
* *
98814 TAAATAAATTTAGATTTAAATT
1 AAAATAAATTTAAATTTAAATT
98836 TTAAAAATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 18 0.40
34 27 0.60
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (33 bp):
AAAATAAATTTAAATTTAAATTAAATCCAAATC
Found at i:99496 original size:39 final size:39
Alignment explanation
Indices: 99418--99547 Score: 138
Period size: 39 Copynumber: 3.3 Consensus size: 39
99408 AGTGGTGATT
* * * *
99418 TGCCCCAGGCTCGAGATAAGAGATCGGATAGCT-GCAATC
1 TGCCCCAGGCTCGAGGTAAGAGATCGGCTA-ATGGTAATC
*
99457 TGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGTAATC
1 TGCCCCAGGCTCGAGGTAAGAGATCGGCTAATGGTAATC
* * * *
99496 TGCCCCAGACTCGGGGTGAA-AGATCGACTAATGGTGATC
1 TGCCCCAGGCTCGAGGT-AAGAGATCGGCTAATGGTAATC
*
99535 TGCCCCAAGCTCG
1 TGCCCCAGGCTCG
99548 GGATAAAAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 74 0.96
40 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.20
Consensus pattern (39 bp):
TGCCCCAGGCTCGAGGTAAGAGATCGGCTAATGGTAATC
Found at i:99548 original size:39 final size:38
Alignment explanation
Indices: 99453--99559 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 38
99443 GGATAGCTGC
* * * *
99453 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTAATGGT
1 AATCTGCCCCAAGCTCGGGGTAA-AGATCGACTAATGGT
99492 AATCTGCCCC-AGACTCGGGGTGAAAGATCGACTAATGGT
1 AATCTGCCCCAAG-CTCGGGGT-AAAGATCGACTAATGGT
* *
99531 GATCTGCCCCAAGCTCGGGATAAAAGATC
1 AATCTGCCCCAAGCTCGGGGT-AAAGATC
99560 AGAATCTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 53 0.91
40 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (38 bp):
AATCTGCCCCAAGCTCGGGGTAAAGATCGACTAATGGT
Found at i:100063 original size:97 final size:96
Alignment explanation
Indices: 99962--100365 Score: 533
Period size: 97 Copynumber: 4.2 Consensus size: 96
99952 TTTGTTATAG
* * * * *
99962 CTTAAATCTTTCCCTTGTGTCTACGTTGTATTGGATCCGCCGTTGCGGTTTAGATCTTTCCCTTC
1 CTTAAATCTTTCCCTTGTGTCTTCATGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTC
100027 ATGTCTCTGAGGTACTAGG-TTCGCCATTGCGA
66 ATGTCT-TGAGGTACT-GGATTCGCCATTGCGA
* * *
100059 CTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTT
1 CTTAAATCTTTCCCTTGTGTCTTCATGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTC
100124 ATGTCTCTGAGGTACTAGG-TTCGCCATTGCGA
66 ATGTCT-TGAGGTACT-GGATTCGCCATTGCGA
* *
100156 CTTAAACCTTTCCCTTGTGTCTTCATGGTACTGGATCCGTCGTTGCGGCTTAGATCTTTCCCTTC
1 CTTAAATCTTTCCCTTGTGTCTTCATGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTC
* * * *
100221 ATGTCTTCATGGTACTGGATCCACCATTGCGG
66 ATGTCTTGA-GGTACTGGATTCGCCATTGCGA
* * * **
100253 CTTAGATCTTTCCCTTCATGTCTTCATGGTACTGGATCTGCCGTTATGGCTTAGATCTTTCCCTT
1 CTTAAATCTTTCCCTT-GTGTCTTCATGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTT
* * *
100318 CATGTCTTCGTGGTACTGGATTCGCCGTTGTGA
65 CATGTCTT-GAGGTACTGGATTCGCCATTGCGA
100351 CTTAAATCTTTCCCT
1 CTTAAATCTTTCCCT
100366 CCATATCTTC
Statistics
Matches: 275, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
96 4 0.01
97 189 0.69
98 82 0.30
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (96 bp):
CTTAAATCTTTCCCTTGTGTCTTCATGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTC
ATGTCTTGAGGTACTGGATTCGCCATTGCGA
Found at i:100129 original size:146 final size:144
Alignment explanation
Indices: 99853--100381 Score: 483
Period size: 146 Copynumber: 3.6 Consensus size: 144
99843 GTACTAGATT
* * *
99853 CGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGG-TTCGTCGTTGCGACTTA
1 CGCCGTTGCGGCTTAAATCTTTCCCTTCATG-TCTTGAGGTAC-TGGATTCGCCGTTGCGACTTA
* ** *** *** * *
99917 AACCTTTCCTTTTAAATCTTCGTGGTACTGGATCCTTTGTTATAGCTTAAATCTTTCCC-TTGTG
64 AACCTTTCC-CTTATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTTATG
*
99981 TCTACGTTGTATTGGATC
128 TCT-CGTGGTATTGGATC
* * *
99999 CGCCGTTGCGGTTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGG-TTCGCCATTGCGACTTA
1 CGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCT-TGAGGTACT-GGATTCGCCGTTGCGACTTA
* *
100063 AACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGT
64 AACCTTTCCCTTATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTTATGT
* * *
100128 CTCTGAGGTACTAGG-TT
129 CTC-GTGGTA-TTGGATC
* * * * * * * * *
100145 CGCCATTGCGACTTAAACCTTTCCCTT-GTGTCTTCATGGTACTGGATCCGTCGTTGCGGCTTAG
1 CGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTGA-GGTACTGGATTCGCCGTTGCGACTTAA
* * * *
100209 ATCTTTCCCTTCATGTCTTCATGGTACTGGATCCACCATTGCGGCTTAGATCTTTCCCTTCATGT
65 ACCTTTCCCTT-ATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTTATGT
* *
100274 CTTCATGGTACTGGATC
129 C-TCGTGGTATTGGATC
* ** * * *
100291 TGCCGTTATGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGTGACTTAA
1 CGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTT-GAGGTACTGGATTCGCCGTTGCGACTTAA
* * *
100356 ATCTTTCCCTCCATATCTTCGTGGTA
65 ACCTTTCCCT-TATGTCTTCGTGGTA
100382 ATGAAACCTA
Statistics
Matches: 307, Mismatches: 63, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
144 4 0.01
145 77 0.25
146 171 0.56
147 55 0.18
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (144 bp):
CGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTGAGGTACTGGATTCGCCGTTGCGACTTAAA
CCTTTCCCTTATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGATCTTTCCCTTTATGTCT
CGTGGTATTGGATC
Found at i:100375 original size:49 final size:49
Alignment explanation
Indices: 99793--100381 Score: 478
Period size: 49 Copynumber: 12.1 Consensus size: 49
99783 ATGTTTCTAA
* * * ** **
99793 GGTACCGGATTCGCCGTTGCGG-TCATAACCTTTCCCTTCAAATCTTCAA
1 GGTACTGGATTCGCCGTTGCGGCTTA-AATCTTTCCCTTCATGTCTTCGT
* * * *
99842 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTTTGA
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * * * * **
99891 GGTACAAGG-TTCGTCGTTGCGACTTAAACCTTTCCTTTTAAATCTTCGT
1 GGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* *** *** * *
99940 GGTACTGGATCCTTTGTTATAGCTTAAATCTTTCCCTT-GTGTCTACGT
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * * * *
99988 TGTATTGGATCCGCCGTTGCGGTTTAGATCTTTCCCTTCATGTC-TCTGA
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTC-GT
* * * *
100037 GGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCCTT-GTGTCTTCGT
1 GGTACT-GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * *
100085 GGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGTC-TCTGA
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTC-GT
* * * * *
100134 GGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCCTT-GTGTCTTCAT
1 GGTACT-GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * *
100182 GGTACTGGATCCGTCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCAT
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * * *
100231 GGTACTGGATCCACCATTGCGGCTTAGATCTTTCCCTTCATGTCTTCAT
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
** *
100280 GGTACTGGA-TCTGCCGTTATGGCTTAGATCTTTCCCTTCATGTCTTCGT
1 GGTACTGGATTC-GCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * *
100329 GGTACTGGATTCGCCGTTGTGACTTAAATCTTTCCCTCCATATCTTCGT
1 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
100378 GGTA
1 GGTA
100382 ATGAAACCTA
Statistics
Matches: 430, Mismatches: 94, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
47 4 0.01
48 108 0.25
49 309 0.72
50 9 0.02
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (49 bp):
GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
Found at i:101265 original size:6 final size:6
Alignment explanation
Indices: 101256--101350 Score: 65
Period size: 6 Copynumber: 16.0 Consensus size: 6
101246 CCTCGACCTC
* * * *
101256 TCTTTT TCTTTT CCTTTT TCTTCT CCTTTT T-TGTGTT TCTTTT T-TTTC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT-T-TT TCTTTT TCTTTT
* *
101304 T-TTTT TCTTTT GCTTTT TCTTCT TCTTCTT AT-TTTT TC-TTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT -TCTTTT TCTTTT TCTTTT
101351 ATTCATTGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
5 15 0.22
6 45 0.65
7 7 0.10
8 2 0.03
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:101309 original size:22 final size:22
Alignment explanation
Indices: 101258--101327 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
101248 TCGACCTCTC
*
101258 TTTTTCTTTTCCTTTTTCTTCT
1 TTTTTCTTTTGCTTTTTCTTCT
* *
101280 CCTTTTT-TGTGTTTCTTTTTTTTCT
1 --TTTTTCT-T-TTGCTTTTTCTTCT
101305 TTTTTCTTTTGCTTTTTCTTCT
1 TTTTTCTTTTGCTTTTTCTTCT
101327 T
1 T
101328 CTTCTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 13 0.33
23 7 0.18
24 7 0.18
25 12 0.31
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTTCTTTTGCTTTTTCTTCT
Found at i:101322 original size:19 final size:18
Alignment explanation
Indices: 101292--101353 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
101282 TTTTTTGTGT
101292 TTCTT-TTTTTTCTTTT-
1 TTCTTATTTTTTCTTTTC
*
101308 TTCTTTTGCTTTTTCTTCTTC
1 TTCTTAT--TTTTTCTT-TTC
101329 TTCTTATTTTTTCTTTTC
1 TTCTTATTTTTTCTTTTC
101347 TT-TTATT
1 TTCTTATT
101354 CATTGAATCC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 5 0.12
17 6 0.15
18 5 0.12
19 16 0.40
20 2 0.05
21 6 0.15
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTATTTTTTCTTTTC
Found at i:101342 original size:47 final size:48
Alignment explanation
Indices: 101258--101350 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
101248 TCGACCTCTC
101258 TTTTTCTTTTCCTTTTTCTTCTCCTTTTTTGTGTTTCTTTT-TTTTCT
1 TTTTTCTTTTCCTTTTTCTTCTCCTTTTTTGTGTTTCTTTTCTTTTCT
* *
101305 TTTTTCTTTTGCTTTTTCTTCTTCTTCTTATT-T-TTTCTTTTCTTTT
1 TTTTTCTTTTCCTTTTTCTTCTCCTT-TT-TTGTGTTTCTTTTCTTTT
101351 ATTCATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
47 32 0.78
48 7 0.17
49 2 0.05
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.77
Consensus pattern (48 bp):
TTTTTCTTTTCCTTTTTCTTCTCCTTTTTTGTGTTTCTTTTCTTTTCT
Found at i:106459 original size:29 final size:30
Alignment explanation
Indices: 106428--106810 Score: 229
Period size: 29 Copynumber: 13.1 Consensus size: 30
106418 TAGACATCCG
*
106428 GGGGT-AAAATGGTAATTTTTGGAAAGAT-
1 GGGGTAAAAATGGTAATTTTTGGAAAGTTA
* ** *
106456 GGGGTAAAAAATGG-AGTTTTTGGAATTTTT
1 GGGGT-AAAAATGGTAATTTTTGGAAAGTTA
*** **
106486 GGGGT-AAAATGGTAATTTTACAAAAAAATA
1 GGGGTAAAAATGGTAATTTT-TGGAAAGTTA
*
106516 GGGTTAAAAATGG-AATTTTTGG-AAGTTCA
1 GGGGTAAAAATGGTAATTTTTGGAAAGTT-A
* *
106545 AGGG-AAAAATGGTAA-TTTTGGAAAATTTA
1 GGGGTAAAAATGGTAATTTTTGG-AAAGTTA
*
106574 -GGGTCAAAAATAG-AATTTTTGG-AAGTTTA
1 GGGGT-AAAAATGGTAATTTTTGGAAAG-TTA
*
106603 GGGGT-AAAATGGTAATTTTTAGAAAGATT-
1 GGGGTAAAAATGGTAATTTTTGGAAAG-TTA
*
106632 GGGGTCAAAAATGG-AATTTTT-AAAAGTTTA
1 GGGGT-AAAAATGGTAATTTTTGGAAAG-TTA
* * * *
106662 AGGGTAAAAAT-GTAATTTTTAGAAAGATC
1 GGGGTAAAAATGGTAATTTTTGGAAAGTTA
* * *
106691 GAGGTAAAAAAT-G-AAATTTTGGAAATTTTA
1 GGGGT-AAAAATGGTAATTTTTGGAAA-GTTA
*
106721 GGGGT-AAAAT-GTAATTTTTGAAAAGTTTA
1 GGGGTAAAAATGGTAATTTTTGGAAAG-TTA
*
106750 -GGGTCAAAATGG-AA-TTTTGGAAAGTTTA
1 GGGGTAAAAATGGTAATTTTTGGAAAG-TTA
* *
106778 AGGGTAAAAAT-GTAATTTTTGGACAGTTTA
1 GGGGTAAAAATGGTAATTTTTGGAAAG-TTA
106808 GGG
1 GGG
106811 ACCTTTAGGG
Statistics
Matches: 277, Mismatches: 47, Indels: 60
0.72 0.12 0.16
Matches are distributed among these distances:
28 65 0.23
29 104 0.38
30 94 0.34
31 14 0.05
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTGGAAAGTTA
Found at i:106490 original size:58 final size:58
Alignment explanation
Indices: 106428--106797 Score: 335
Period size: 59 Copynumber: 6.3 Consensus size: 58
106418 TAGACATCCG
* * * *
106428 GGGGTAAAATGGTAATTTTTGGAAAGATGGGGTAAAAAATGGAGTTTTTGGAATTTTT
1 GGGGTAAAATGGTAATTTTTAGAAAGATGGGGTAAAAAATGGAATTTTTGGAAGTTTA
* * * * * *
106486 GGGGTAAAATGGTAATTTTACAAAAAAATAGGGTTAAAAATGGAATTTTTGGAAGTTCA
1 GGGGTAAAATGGTAATTTT-TAGAAAGATGGGGTAAAAAATGGAATTTTTGGAAGTTTA
* * * * * *
106545 AGGGAAAAATGGTAA-TTTTGGAAA-ATTTAGGGTCAAAAATAGAATTTTTGGAAGTTTA
1 GGGGTAAAATGGTAATTTTTAGAAAGA--TGGGGTAAAAAATGGAATTTTTGGAAGTTTA
* **
106603 GGGGTAAAATGGTAATTTTTAGAAAGATTGGGGTCAAAAATGGAATTTTTAAAAGTTTA
1 GGGGTAAAATGGTAATTTTTAGAAAGA-TGGGGTAAAAAATGGAATTTTTGGAAGTTTA
* * * *
106662 AGGGTAAAAAT-GTAATTTTTAGAAAGATCGAGGTAAAAAAT-GAAATTTTGGAAATTTTA
1 GGGGT-AAAATGGTAATTTTTAGAAAGAT-GGGGTAAAAAATGGAATTTTTGG-AAGTTTA
* * *
106721 GGGGTAAAAT-GTAATTTTT-GAAAAGTTTAGGGT-CAAAATGGAA-TTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTAG-AAAG-ATGGGGTAAAAAATGGAATTTTTGG-AAGTTTA
*
106778 AGGGTAAAAAT-GTAATTTTT
1 GGGGT-AAAATGGTAATTTTT
106798 GGACAGTTTA
Statistics
Matches: 261, Mismatches: 39, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.00
57 26 0.10
58 109 0.42
59 119 0.46
60 6 0.02
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTAGAAAGATGGGGTAAAAAATGGAATTTTTGGAAGTTTA
Found at i:106535 original size:117 final size:115
Alignment explanation
Indices: 106429--106800 Score: 380
Period size: 117 Copynumber: 3.2 Consensus size: 115
106419 AGACATCCGG
* *
106429 GGGTAAAATGGTAATTTTTGGAAAGATGGGGTAAAAAATGGAGTTTTTGGAATTTTTGGGGTAAA
1 GGGTAAAATGGTAATTTTTGGAAAGATGGGGTAAAAAAT-GAATTTTTGGAATTTTAGGGGTAAA
* *
106494 ATGGTAATTTTACAAAAAAATAGGGTTAAAAATGGAATTTTTGGAAGTTCAA
65 ATGGTAATTTTA-AAAAAAATAGGGTCAAAAATGGAATTTTTAGAAGTTCAA
* * * *
106546 GGGAAAAATGGTAA-TTTTGGAAA-ATTTAGGGTCAAAAATAGAATTTTTGGAAGTTTAGGGGTA
1 GGGTAAAATGGTAATTTTTGGAAAGA--TGGGGTAAAAAAT-GAATTTTTGGAATTTTAGGGGTA
* * * * * *
106609 AAATGGTAATTTTTAGAAAGATTGGGGTCAAAAATGGAATTTTTAAAAGTTTAA
63 AAATGGTAA-TTTTAAAAAAAATAGGGTCAAAAATGGAATTTTTAGAAGTTCAA
* * *
106663 GGGTAAAAAT-GTAATTTTTAGAAAGATCGAGGTAAAAAATGAAATTTTGGAAATTTTAGGGGTA
1 GGGT-AAAATGGTAATTTTTGGAAAGAT-GGGGTAAAAAATGAATTTTTGG-AATTTTAGGGGTA
* *** * *
106727 AAAT-GTAATTTTTGAAAAGTTTAGGGTC-AAAATGGAA-TTTTGGAAAGTTTAA
63 AAATGGTAA-TTTTAAAAAAAATAGGGTCAAAAATGGAATTTTTAG-AAGTTCAA
106779 GGGTAAAAAT-GTAATTTTTGGA
1 GGGT-AAAATGGTAATTTTTGGA
106801 CAGTTTAGGG
Statistics
Matches: 217, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
115 5 0.02
116 47 0.22
117 121 0.56
118 43 0.20
119 1 0.00
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (115 bp):
GGGTAAAATGGTAATTTTTGGAAAGATGGGGTAAAAAATGAATTTTTGGAATTTTAGGGGTAAAA
TGGTAATTTTAAAAAAAATAGGGTCAAAAATGGAATTTTTAGAAGTTCAA
Found at i:108704 original size:17 final size:17
Alignment explanation
Indices: 108677--108773 Score: 99
Period size: 17 Copynumber: 5.8 Consensus size: 17
108667 TCAAATTTTG
108677 AATTT-AATTTAAAATA
1 AATTTAAATTTAAAATA
*
108693 AATTTAAATTTAAATTA
1 AATTTAAATTTAAAATA
*** * *
108710 AACCCAAACTCAAAATA
1 AATTTAAATTTAAAATA
* *
108727 AGTTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
*
108744 AATTCAAATTT-AAATA
1 AATTTAAATTTAAAATA
108760 AATTTAAATTTAAA
1 AATTTAAATTTAAA
108774 TTTTAAAAAT
Statistics
Matches: 61, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
16 19 0.31
17 42 0.69
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:108725 original size:34 final size:33
Alignment explanation
Indices: 108687--108775 Score: 115
Period size: 34 Copynumber: 2.7 Consensus size: 33
108677 AATTTAATTT
108687 AAAATAAATTTAAATTTAAATTAAACCCAAACTC
1 AAAATAAATTTAAATTTAAATTAAACCCAAA-TC
* * ** *
108721 AAAATAAGTTTAAATTTAAAGTAAATTCAAATT
1 AAAATAAATTTAAATTTAAATTAAACCCAAATC
*
108754 TAAATAAATTTAAATTTAAATT
1 AAAATAAATTTAAATTTAAATT
108776 TTAAAAATGG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 20 0.43
34 27 0.57
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (33 bp):
AAAATAAATTTAAATTTAAATTAAACCCAAATC
Found at i:108780 original size:7 final size:6
Alignment explanation
Indices: 108677--108776 Score: 61
Period size: 6 Copynumber: 17.8 Consensus size: 6
108667 TCAAATTTTG
* *** * *
108677 AATTT- AATTTA AA-ATA AATTTA AATTTA AA-TTA AACCCA AACTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * *
108722 AA-ATA AGTTTA AATTTA AA-GTA AATTCA AATTTA AA--TA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
108766 AATTTA AATTT
1 AATTTA AATTT
108777 TAAAAATGGG
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
4 4 0.05
5 20 0.27
6 50 0.68
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (6 bp):
AATTTA
Found at i:109268 original size:15 final size:15
Alignment explanation
Indices: 109248--109290 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
109238 TCATAAAATG
109248 ATAAATAAAAAATAA
1 ATAAATAAAAAATAA
109263 ATAAATAAAATAATAA
1 ATAAATAAAA-AATAA
109279 A-AAATAAGAAAA
1 ATAAATAA-AAAA
109291 ATGGAGTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
ATAAATAAAAAATAA
Found at i:109290 original size:8 final size:7
Alignment explanation
Indices: 109250--109290 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 7
109240 ATAAAATGAT
109250 AAATAAA
1 AAATAAA
109257 AAATAAA
1 AAATAAA
109264 TAAATAAA
1 -AAATAAA
109272 ATAATAAA
1 A-AATAAA
109280 AAATAAGA
1 AAATAA-A
109288 AAA
1 AAA
109291 ATGGAGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:111245 original size:20 final size:20
Alignment explanation
Indices: 111217--111265 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
111207 TTTATTTTTA
111217 TTAATTTAACCAATTTTATTT
1 TTAATTTAA-CAATTTTATTT
* *
111238 TT-ATTTAATATTTTTATTT
1 TTAATTTAACAATTTTATTT
111257 TTAATTTAA
1 TTAATTTAA
111266 TTTTATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 12 0.48
21 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAATTTAACAATTTTATTT
Found at i:111258 original size:25 final size:25
Alignment explanation
Indices: 111230--111288 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
111220 ATTTAACCAA
* * *
111230 TTTTATTTTTATTTAATATTTTTAT
1 TTTTATTTTAATTTAATATTCTAAT
* *
111255 TTTTAATTTAATTTTATATTCTAAT
1 TTTTATTTTAATTTAATATTCTAAT
111280 TTTTCATTT
1 TTTT-ATTT
111289 GTTTGTTTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATTTTAATTTAATATTCTAAT
Found at i:111274 original size:19 final size:19
Alignment explanation
Indices: 111229--111274 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
111219 AATTTAACCA
111229 ATTT-TATTTTTATTTAAT
1 ATTTATATTTTTATTTAAT
*
111247 ATTTTTATTTTTAATTTAAT
1 ATTTATATTTTT-ATTTAAT
111267 -TTTATATT
1 ATTTATATT
111275 CTAATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 4 0.16
19 14 0.56
20 7 0.28
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTATATTTTTATTTAAT
Found at i:112638 original size:21 final size:21
Alignment explanation
Indices: 112614--112660 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
112604 CGATTCAAAG
112614 GCTTGAAAATCAAATTGGACA
1 GCTTGAAAATCAAATTGGACA
112635 GCTTGAAAATCAAATTGGACA
1 GCTTGAAAATCAAATTGGACA
112656 GCTTG
1 GCTTG
112661 CAAACTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (21 bp):
GCTTGAAAATCAAATTGGACA
Found at i:115584 original size:18 final size:18
Alignment explanation
Indices: 115558--115595 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
115548 TTTTAGAAAA
*
115558 TTCTTATTTATAAAATAT
1 TTCTCATTTATAAAATAT
115576 TTCTCATTTATAAAATAT
1 TTCTCATTTATAAAATAT
115594 TT
1 TT
115596 TAACTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCTCATTTATAAAATAT
Found at i:116184 original size:9 final size:9
Alignment explanation
Indices: 116172--116220 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
116162 TAAAAAATAT
116172 TTTTTATAA
1 TTTTTATAA
116181 TTTTTATACA
1 TTTTTATA-A
116191 --TTT-TAA
1 TTTTTATAA
*
116197 TTTTTAATAG
1 TTTTT-ATAA
116207 TTTTTATAA
1 TTTTTATAA
116216 TTTTT
1 TTTTT
116221 TTCAATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
6 1 0.03
7 2 0.06
8 6 0.18
9 16 0.48
10 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:116220 original size:26 final size:26
Alignment explanation
Indices: 116170--116219 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
116160 AATAAAAAAT
*
116170 ATTTTTTATAATTTTTATACATTTTA
1 ATTTTTAATAATTTTTATACATTTTA
*
116196 ATTTTTAATAGTTTTTATA-ATTTT
1 ATTTTTAATAATTTTTATACATTTT
116220 TTTCAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
ATTTTTAATAATTTTTATACATTTTA
Found at i:118616 original size:28 final size:28
Alignment explanation
Indices: 118584--118637 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
118574 TAGGCACTTG
*
118584 ATCAAATTAG-TCTCTTTACTATTAAAGT
1 ATCAAATTAGTTC-CTATACTATTAAAGT
*
118612 ATCAATTTAGTTCCTATACTATTAAA
1 ATCAAATTAGTTCCTATACTATTAAA
118638 AAAAACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (28 bp):
ATCAAATTAGTTCCTATACTATTAAAGT
Found at i:127348 original size:17 final size:17
Alignment explanation
Indices: 127328--127369 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
127318 CTCCCTTGAC
*
127328 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
127345 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
127362 CTTGTAAC
1 CTT-TAAC
127370 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:127353 original size:24 final size:24
Alignment explanation
Indices: 127308--127355 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
127298 ATGGATGTTC
* *
127308 AACCTTTCATCTCCCTTGACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
* *
127332 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
127356 CATATTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (24 bp):
AACCTTCCATCTCCCTTAACCTTT
Found at i:129234 original size:17 final size:17
Alignment explanation
Indices: 129199--129240 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
129189 GGAAAAAGTA
*
129199 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
129217 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
129234 GTTAAAG
1 GTTAAAG
129241 GTCAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:129240 original size:24 final size:24
Alignment explanation
Indices: 129213--129260 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
129203 CAAGAATATG
* *
129213 AAAGGTTAAAGAAGATGGAAGGTT
1 AAAGGTCAAAGAAGATGAAAGGTT
* *
129237 AAAGGTCAAGGGAGATGAAAGGTT
1 AAAGGTCAAAGAAGATGAAAGGTT
129261 GAACATCCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (24 bp):
AAAGGTCAAAGAAGATGAAAGGTT
Found at i:137028 original size:7 final size:7
Alignment explanation
Indices: 137016--137051 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
137006 GAAAGCTCAT
137016 AAAAAGC
1 AAAAAGC
137023 AAAAAGC
1 AAAAAGC
137030 AAAAAGC
1 AAAAAGC
137037 AAAAAGC
1 AAAAAGC
137044 AAAAAGC
1 AAAAAGC
137051 A
1 A
137052 GTAGTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.72, C:0.14, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGC
Found at i:138343 original size:22 final size:22
Alignment explanation
Indices: 138316--138358 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
138306 TTTCTTAAAT
138316 TTAGGTTTTAGTTTTTTCTTTC
1 TTAGGTTTTAGTTTTTTCTTTC
138338 TTAGGTTTTAGTTTTTTCTTT
1 TTAGGTTTTAGTTTTTTCTTT
138359 TCGTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.07, G:0.14, T:0.70
Consensus pattern (22 bp):
TTAGGTTTTAGTTTTTTCTTTC
Found at i:141596 original size:21 final size:22
Alignment explanation
Indices: 141544--141597 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
141534 CTTATGATAG
141544 TTCTACCGATACAAGTAAGACA
1 TTCTACCGATACAAGTAAGACA
* *
141566 TT-TACTGATACAAGTCATG-C-
1 TTCTACCGATACAAGT-AAGACA
141586 TTCTACCGATAC
1 TTCTACCGATAC
141598 TAGAAGCTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 21 0.78
22 4 0.15
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (22 bp):
TTCTACCGATACAAGTAAGACA
Found at i:164111 original size:20 final size:20
Alignment explanation
Indices: 164078--164116 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
164068 TCAACGCATT
164078 TTCACATTTTCTTGTTTTGC
1 TTCACATTTTCTTGTTTTGC
164098 TTCAC-TTTTACTTGTTTTG
1 TTCACATTTT-CTTGTTTTG
164117 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.10, C:0.18, G:0.10, T:0.62
Consensus pattern (20 bp):
TTCACATTTTCTTGTTTTGC
Found at i:166847 original size:12 final size:12
Alignment explanation
Indices: 166805--166862 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
166795 AGTCACTTCA
166805 AAAAGGAAAATGAG
1 AAAA-GAAAA-GAG
166819 AAAA-ATAAAGA-
1 AAAAGA-AAAGAG
166830 AAAAGAAAAGAG
1 AAAAGAAAAGAG
166842 AAAAGAAAAGAAG
1 AAAAGAAAAG-AG
166855 AAAA-AAAA
1 AAAAGAAAA
166863 ATGTTTGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
11 9 0.22
12 18 0.45
13 9 0.22
14 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAGAG
Found at i:166851 original size:23 final size:24
Alignment explanation
Indices: 166804--166862 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
166794 TAGTCACTTC
166804 AAAAAGGAAAATGAGAAAAATAAAG
1 AAAAA-GAAAATGAGAAAAATAAAG
166829 AAAAAGAAAA-GAGAAAAGA-AAAG
1 AAAAAGAAAATGAGAAAA-ATAAAG
*
166852 AAGAAAAAAAA
1 AA-AAAGAAAA
166863 ATGTTTGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 13 0.42
24 13 0.42
25 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (24 bp):
AAAAAGAAAATGAGAAAAATAAAG
Found at i:166855 original size:15 final size:13
Alignment explanation
Indices: 166826--166863 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
166816 GAGAAAAATA
166826 AAGAAAAAGAAAAG
1 AAGAAAAA-AAAAG
*
166840 -AGAAAAGAAAAG
1 AAGAAAAAAAAAG
166852 AAGAAAAAAAAA
1 AAGAAAAAAAAA
166864 TGTTTGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAG
Found at i:167624 original size:30 final size:30
Alignment explanation
Indices: 167588--167712 Score: 132
Period size: 30 Copynumber: 4.2 Consensus size: 30
167578 TTAGGGCATA
* *
167588 ATTTTTGTAAAGTTTGAGGGTTAAATTCAT
1 ATTTTTGGAAAGTTTGAGGGTCAAATTCAT
* *
167618 ATTTTTGGAAAGTTT-AGGGTCACATTTGA-
1 ATTTTTGGAAAGTTTGAGGGTCA-AATTCAT
* * *
167647 ATTTTTGGAATGTTTGAGGGTCAAATTTAA
1 ATTTTTGGAAAGTTTGAGGGTCAAATTCAT
167677 ATTTTTGGAAAGTTTTG-GGGTCAAA-TCAT
1 ATTTTTGGAAAG-TTTGAGGGTCAAATTCAT
167706 AATTTTT
1 -ATTTTT
167713 AAATAAAGCA
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
29 26 0.32
30 50 0.62
31 4 0.05
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.45
Consensus pattern (30 bp):
ATTTTTGGAAAGTTTGAGGGTCAAATTCAT
Found at i:169457 original size:79 final size:80
Alignment explanation
Indices: 169324--169639 Score: 395
Period size: 79 Copynumber: 4.0 Consensus size: 80
169314 TATAACTTTA
** ** * *
169324 GGGGTAAAAGATTGGATGGTCTTCAATTTGCCCTCTGGTTAGGGTAAGAGATTGGATTGT-TTCA
1 GGGGTAAAAGATTAAATGGTCTTCAATCCGCCCTCTGATTAGGGTAAAAGATTGGATTGTCTTCA
169388 ATCTGCCCCATGGTC
66 ATCTGCCCCATGGTC
** * *
169403 GGGGTAAAAGATTAAATGGTCTTCAATTTGCCCTCTGATTATGGTAAAATATTGGATT-TCTTCA
1 GGGGTAAAAGATTAAATGGTCTTCAATCCGCCCTCTGATTAGGGTAAAAGATTGGATTGTCTTCA
* *
169467 ATCTGCCCCACGGCC
66 ATCTGCCCCATGGTC
* *
169482 GGGGTAAAAGATTAAATGGTCTTTAATCCGCCCTCTAATTAGGGTAAAAGATTGGATTG-CTTCA
1 GGGGTAAAAGATTAAATGGTCTTCAATCCGCCCTCTGATTAGGGTAAAAGATTGGATTGTCTTCA
*
169546 ATCTGTCCCATGGTC
66 ATCTGCCCCATGGTC
* *** * *
169561 GGGGTAAGAGATCGGATGATCTTCAATCCGCCCTCTGATTAAGGTAAAAGATTGGATGATGTCTT
1 GGGGTAAAAGATTAAATGGTCTTCAATCCGCCCTCTGATTAGGGTAAAAGATTGGAT--TGTCTT
*
169626 CAATCTACCCCATG
64 CAATCTGCCCCATG
169640 ATCAAGGTAA
Statistics
Matches: 205, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.00
79 187 0.91
81 2 0.01
82 15 0.07
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (80 bp):
GGGGTAAAAGATTAAATGGTCTTCAATCCGCCCTCTGATTAGGGTAAAAGATTGGATTGTCTTCA
ATCTGCCCCATGGTC
Found at i:169647 original size:42 final size:41
Alignment explanation
Indices: 169324--169815 Score: 251
Period size: 40 Copynumber: 12.4 Consensus size: 41
169314 TATAACTTTA
* * * *
169324 GGGGTAAAAGATTGGATGGT-CTTCAATTTGCCCTC-TGGTT
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCC-CATGATC
* * * *
169364 AGGGTAAGAGATTGGAT--TGTTTCAATCTGCCCCATGGTC
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCCCATGATC
** * * *
169403 GGGGTAAAAGATTAAATGGT-CTTCAATTTGCCCTC-TGATT
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCC-CATGATC
** * * * **
169443 ATGGTAAAATATTGGAT--TTCTTCAATCTGCCCCACGGCC
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCCCATGATC
** * * * * *
169482 GGGGTAAAAGATTAAATGGT-CTTTAATCCGCCCTC-TAATT
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCC-CATGATC
* * *
169522 AGGGTAAAAGATTGGAT--TGCTTCAATCTGTCCCATGGTC
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCCCATGATC
* * * *
169561 GGGGTAAGAGATCGGATGAT-CTTCAATCCGCCCTC-TGATT
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCC-CATGATC
** *
169601 AAGGTAAAAGATTGGATGATGTCTTCAATCTACCCCATGATC
1 GGGGTAAAAGATTGGATGATG-CTTCAATCTGCCCCATGATC
** * * * * *
169643 AAGGTAAGAGATTGGATGATGCCTTCCATCTGCTCCACGACC
1 GGGGTAAAAGATTGGATGATG-CTTCAATCTGCCCCATGATC
* * *
169685 AGGGTAAGAGA-TCGA-G-TGCTTCAATCTGCCCCATGATC
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCCCATGATC
* * *
169723 GAGGT--AAGA---GAT--TG-GTCAATCTACCCCATGATC
1 GGGGTAAAAGATTGGATGATGCTTCAATCTGCCCCATGATC
* * * *
169756 GGGGTAAGAGATTGGATGATGTCTTTAATCTGTCTCATGATC
1 GGGGTAAAAGATTGGATGATG-CTTCAATCTGCCCCATGATC
*
169798 GGGGTAAAAGATTAGATG
1 GGGGTAAAAGATTGGATG
169816 GTGATGCAAC
Statistics
Matches: 339, Mismatches: 85, Indels: 54
0.71 0.18 0.11
Matches are distributed among these distances:
33 21 0.06
34 4 0.01
35 3 0.01
36 3 0.01
38 28 0.08
39 81 0.24
40 99 0.29
41 10 0.03
42 90 0.27
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
GGGGTAAAAGATTGGATGATGCTTCAATCTGCCCCATGATC
Found at i:169750 original size:33 final size:33
Alignment explanation
Indices: 169705--169770 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
169695 ATCGAGTGCT
*
169705 TCAATCTGCCCCATGATCGAGGTAAGAGATTGG
1 TCAATCTACCCCATGATCGAGGTAAGAGATTGG
*
169738 TCAATCTACCCCATGATCGGGGTAAGAGATTGG
1 TCAATCTACCCCATGATCGAGGTAAGAGATTGG
169771 ATGATGTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (33 bp):
TCAATCTACCCCATGATCGAGGTAAGAGATTGG
Found at i:170032 original size:95 final size:97
Alignment explanation
Indices: 169920--170148 Score: 302
Period size: 97 Copynumber: 2.4 Consensus size: 97
169910 ATCTAGTGCT
* * *
169920 TCACTCCACTCCACTGTAACCTTAGGGACATTGAGCTCTTCTAC-CTGTTTTGACCTACTTCTCT
1 TCACTCCACTCCACTGTAACCTTAGGGACATTGAGCTCTACTACACTCTTTTGACCCACTTCTCT
169984 GTACCT-TACAAGGAAGAT-GAGATTCAAAATC
66 GTACCTCTACAA-GAAGATGGAGATTCAAAATC
* * * *
170015 TCACTCCACTCCACTGTAACCTTAGGGGCGTTGAGCTCTACTTCATTCTTTTGACCCACTTCTCT
1 TCACTCCACTCCACTGTAACCTTAGGGACATTGAGCTCTACTACACTCTTTTGACCCACTTCTCT
* * * * *
170080 GTACCTCTCCAAGAAGATGGGGTTTTAAAGTC
66 GTACCTCTACAAGAAGATGGAGATTCAAAATC
* *
170112 TCACTCCACTCCATTGTAACCTTAAGGACATTGAGCT
1 TCACTCCACTCCACTGTAACCTTAGGGACATTGAGCT
170149 TCGCTTCATA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 40 0.35
96 29 0.25
97 46 0.40
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (97 bp):
TCACTCCACTCCACTGTAACCTTAGGGACATTGAGCTCTACTACACTCTTTTGACCCACTTCTCT
GTACCTCTACAAGAAGATGGAGATTCAAAATC
Found at i:170545 original size:49 final size:49
Alignment explanation
Indices: 170492--170614 Score: 108
Period size: 49 Copynumber: 2.5 Consensus size: 49
170482 CAGCTTTAAT
* *
170492 CTTTCTCTTCACATCTCTAGGGTATAAGGGTCG-CTGTTGCGGCTT-CCAC
1 CTTTCTCTTCACATCTCTAGGGTATAAGGGTCGTC-ATTGCGG-TTACAAC
* * * * *
170541 CTTTC-CTATCACGTCTTTAAGGTACAAGGTTCGTCATTGCGGTTACAAC
1 CTTTCTCT-TCACATCTCTAGGGTATAAGGGTCGTCATTGCGGTTACAAC
* * *
170590 CTTTCTCTCCATATCTCTTGGGTAT
1 CTTTCTCTTCACATCTCTAGGGTAT
170615 CAGATTTGGC
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
48 4 0.07
49 49 0.88
50 3 0.05
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (49 bp):
CTTTCTCTTCACATCTCTAGGGTATAAGGGTCGTCATTGCGGTTACAAC
Found at i:171252 original size:114 final size:112
Alignment explanation
Indices: 171032--171252 Score: 273
Period size: 112 Copynumber: 2.0 Consensus size: 112
171022 CCTTATATCG
* * * * *
171032 TTAGACCACTAACCGTCATTTCAATGTAAAAATGCTTGAATAGGATTGTAAAGTGAATAAAATTG
1 TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTTGAACAGGATTATAAAGTGAAAAAAATTA
171097 AATTTGATTGGAGGCAAAACTCACATGAAAGAAAAGATTAAAAATCA
66 AATTTGATTGGAGGCAAAACTCACATGAAAGAAAAGATTAAAAATCA
* * * * * *
171144 TTAGTCCACTAACCGTCATTTTAATGCAAAAATGCTTGAACGGGGTTATGAGGTGGATAAAAAAT
1 TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTTGAACAGGATTATAAAGT-GA-AAAAAAT
* * * *
171209 TAAATTTTATTGGAGGCAAAGCTCGCATGAATGAGAAA-ATTAAA
64 TAAATTTGATTGGAGGCAAAACTCACATGAAAGA-AAAGATTAAA
171253 CATTGATCAA
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
112 45 0.49
113 2 0.02
114 41 0.45
115 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (112 bp):
TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTTGAACAGGATTATAAAGTGAAAAAAATTA
AATTTGATTGGAGGCAAAACTCACATGAAAGAAAAGATTAAAAATCA
Found at i:176095 original size:17 final size:17
Alignment explanation
Indices: 176073--176106 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
176063 ACATATACAT
*
176073 AAAAAAAAGATTAATAA
1 AAAAAAAAGATAAATAA
176090 AAAAAAAAGATAAATAA
1 AAAAAAAAGATAAATAA
176107 GAAAGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAAAAGATAAATAA
Found at i:176210 original size:30 final size:30
Alignment explanation
Indices: 176169--176355 Score: 157
Period size: 30 Copynumber: 6.3 Consensus size: 30
176159 CATTAAAATC
* *
176169 GGGTCACATTTGGATTTTTGGAAAGTTTAA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
*
176199 GGGTCAAATTTGAATTTTTGGAAAGTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
* * *
176229 GGGTTAAATTTTAATTTTTAGAAAGTTT-A
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
* ** **
176258 GGGTTAAATTCAAATTTTTGGAAA-TTTTG
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
* * * *
176287 GGGTCACATTTCG-ATTTTTAGTATGTTTGAA
1 GGGTCAAATTT-GAATTTTTGGAAAGTTT-AA
* * * *
176318 -GGTTAAATTTTAATTTTTGGAATGTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
176347 GGGTCAAAT
1 GGGTCAAAT
176356 CATAATTTTG
Statistics
Matches: 124, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
28 3 0.02
29 38 0.31
30 83 0.67
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAGTTTAA
Found at i:176274 original size:59 final size:60
Alignment explanation
Indices: 176182--176364 Score: 201
Period size: 59 Copynumber: 3.1 Consensus size: 60
176172 TCACATTTGG
* * * *
176182 ATTTTTGGAAAGTTTAAGGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTTAAATTTTA
1 ATTTTTAGAAAGTTTAAGGGTTAAATTTAAATTTTTGGAAAGTTTAGGGGTCAAATTTTA
* * * **
176242 ATTTTTAGAAAGTTT-AGGGTTAAATTCAAATTTTTGGAAA-TTTTGGGGTCACATTTCG
1 ATTTTTAGAAAGTTTAAGGGTTAAATTTAAATTTTTGGAAAGTTTAGGGGTCAAATTTTA
* * * * **
176300 ATTTTTAGTATGTTTGAA-GGTTAAATTTTAATTTTTGGAATGTTTAGGGGTCAAATCATA
1 ATTTTTAGAAAGTTT-AAGGGTTAAATTTAAATTTTTGGAAAGTTTAGGGGTCAAATTTTA
176360 ATTTT
1 ATTTT
176365 GAAATAAAGA
Statistics
Matches: 100, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
58 26 0.26
59 42 0.42
60 32 0.32
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (60 bp):
ATTTTTAGAAAGTTTAAGGGTTAAATTTAAATTTTTGGAAAGTTTAGGGGTCAAATTTTA
Found at i:176305 original size:88 final size:89
Alignment explanation
Indices: 176182--176348 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
176172 TCACATTTGG
* *
176182 ATTTTTGGAAAGTTTAAGGGTCAAATTTGAATTTTTGGAAAGTTT-AGGGGTTAAATTTTAATTT
1 ATTTTTGGAAAGTTTAAGGGTCAAATTTGAATTTTTAGAAAGTTTGA-AGGTTAAATTTTAATTT
176246 TTAGAAAGTTTAGGGTTAAATTCAA
65 TTAGAAAGTTTAGGGTTAAATTCAA
** * * *
176271 ATTTTTGGAAA-TTTTGGGGTCACATTTCG-ATTTTTAGTATGTTTGAAGGTTAAATTTTAATTT
1 ATTTTTGGAAAGTTTAAGGGTCAAATTT-GAATTTTTAGAAAGTTTGAAGGTTAAATTTTAATTT
* *
176334 TTGGAATGTTTAGGG
65 TTAGAAAGTTTAGGG
176349 GTCAAATCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
88 54 0.81
89 13 0.19
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (89 bp):
ATTTTTGGAAAGTTTAAGGGTCAAATTTGAATTTTTAGAAAGTTTGAAGGTTAAATTTTAATTTT
TAGAAAGTTTAGGGTTAAATTCAA
Found at i:177343 original size:10 final size:10
Alignment explanation
Indices: 177310--177352 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
177300 TTTGTTTAAT
177310 TTTATTATTTA
1 TTTA-TATTTA
*
177321 TTTATTCTTTA
1 TTTA-TATTTA
*
177332 TTTGTATTTA
1 TTTATATTTA
177342 TTTATATTTA
1 TTTATATTTA
177352 T
1 T
177353 AAATAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTATATTTA
Found at i:177358 original size:4 final size:4
Alignment explanation
Indices: 177351--177386 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
177341 ATTTATATTT
*
177351 ATAA AT-A ATAA ATAG ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
177387 ATTAAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:179744 original size:190 final size:193
Alignment explanation
Indices: 179332--179772 Score: 480
Period size: 190 Copynumber: 2.3 Consensus size: 193
179322 GAAATCGACG
* ** *
179332 CGATGGCTGGGGTATCGCATATGTTGCGAGTCCTTGACAGCTCGTGCAAGCAGCATCATGAGTAG
1 CGATGGCTGGGGTATCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTAC
* * * *
179397 GAAAATGAGTAAAGAATCCAAGAATGGATTACATGACCTACGATGGCTGAGATTTATGCATAAGT
66 GAAAAAGAGTAAAGAATCC-AGAATGAATTACAGGACCTACGATGGCTGAGATTTATGCATAAAT
* *** * * *
179462 GCATATTCTCGACAGCTCGTGTGAGCAACGTCGTTAGGGAACAGTTATATGCACAGATACTTAT
130 GCATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTATACAAACAAACACTTAC
* * * * * * * * *
179526 TGATGACTGCGGTACCGTATATGTTGCGAATCCTCGACAGCTCGTGTGAGGAGCGTCGTGAGT-C
1 CGATGGCTGGGGTATCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTAC
* * * * * **
179590 GAAAAAGAG-ATAAGAATCC-TATTGAATTATAGGCCCTACGATGG-TGGGATTTATGTTTAAAT
66 GAAAAAGAGTA-AAGAATCCAGAATGAATTACAGGACCTACGATGGCTGAGATTTATGCATAAAT
*
179652 GCATATTCTCGACAGCTCGTGTGAGCAGCATCGTTAGAGG-ACAGTT-TACAAACAAACACTGTA
130 GCATATTCTCGACAGCTCGTGTGAGCAACATCGTTAG-GGAACAGTTATACAAACAAACACT-TA
179715 C
193 C
* * * *
179716 CGATGGTTGGGGTATCGCATACGTTGCGAGTCCTCGACAACTTGTGTGAGCAGCATC
1 CGATGGCTGGGGTATCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATC
179773 GAGTACTGGT
Statistics
Matches: 200, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
189 9 0.05
190 102 0.51
191 21 0.10
192 1 0.00
193 16 0.08
194 51 0.25
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (193 bp):
CGATGGCTGGGGTATCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTAC
GAAAAAGAGTAAAGAATCCAGAATGAATTACAGGACCTACGATGGCTGAGATTTATGCATAAATG
CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTATACAAACAAACACTTAC
Found at i:182925 original size:38 final size:38
Alignment explanation
Indices: 182865--182940 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
182855 AAAATGATGA
* *
182865 AAACGTACAAAGATTAGCATGAGAAATT-ACCATTGCTT
1 AAACCTACAAAGATTAGAATGAGAAATTGA-CATTGCTT
182903 AAACCTACAAAGATTAGAATGAGAAATTGACATTGCTT
1 AAACCTACAAAGATTAGAATGAGAAATTGACATTGCTT
182941 TCTACGCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (38 bp):
AAACCTACAAAGATTAGAATGAGAAATTGACATTGCTT
Found at i:184842 original size:100 final size:99
Alignment explanation
Indices: 184474--185101 Score: 347
Period size: 100 Copynumber: 6.3 Consensus size: 99
184464 GATGGATCAG
* * * * * *
184474 TACAACACCAAATCCTATATCCCTAAAGTTGCA-AGGATC-GAATTAAAACTACAGTAGCAAATC
1 TACAACATCAAATCCTATACCCCTAAAGTTGTAGTGGGTCAG-ATTAAAGCTACA-TAGCAAATC
* * * *
184537 TTTATCTACATAAAGATGCAGTGGAGCAAGATGAAGC
64 -TTATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
* * * * * * * * * * **
184574 TACGACATCAAATCTTATATCCTTGAGGTTGAAGTGGATCGGATGAAAATTACAATAGCAAATCT
1 TACAACATCAAATCCTATACCCCTAAAGTTGTAGTGGGTCAGATTAAAGCTAC-ATAGCAAATCT
** * **
184639 CGTCTCCCTAAAGATATAATGGAGCAA-ATGAAGC
65 TATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
* * * * * ** * * ** * * * *
184673 TACAACAACAATTCC-AGTCCCCCTGAGGTTACAATGCGTTGGAATGAAA-TTACAAACAACAAA
1 TACAACATCAAATCCTA-TACCCCTAAAGTTGTAGTGGGTCAG-ATTAAAGCTAC--ATAGCAAA
* ** *
184736 TGTTATCTCCCTGAAGACACAATGGAGTAAGATGAAGC
62 TCTTATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
* * * *
184774 TATAACACCAAATCCTATACCCCTAAAGCTGTAGTGGGTCGGATTAAAGCTACATCAGCAAATCT
1 TACAACATCAAATCCTATACCCCTAAAGTTGTAGTGGGTCAGATTAAAGCTACAT-AGCAAATCT
* * * *
184839 TATCTCCTTGAAGTTGTAGTGGAGCAAGATGAA--
65 TATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
* *** * * * * *
184872 -ACAACATTAAATCCTATTTTCCTGAAGTTGCAG-GGATCAGATTAAAACTACAGTAGCAAATAT
1 TACAACATCAAATCCTATACCCCTAAAGTTGTAGTGGGTCAGATTAAAGCTACA-TAGCAAAT-C
** * * * *
184935 TTATCTCTTTGAAGTTGCAATAGAGCAAGATAAAAC
64 TTATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
* * * * * * *
184971 TACCACATCAAATCCTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGTTATAGAAGCAAATCT
1 TACAACATCAAATCCTATACCCCTAAAGTTGTAGTGGGTCAGATTAAAGCTACA-TAGCAAATCT
* * *
185036 TATCTCCCTGAAGATGTAATGGAGTAAGATGAAGT
65 TATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
* * *
185071 TACGACATCAAATCCTATATCCTTAAAGTTG
1 TACAACATCAAATCCTATACCCCTAAAGTTG
185102 CAGTAAATCG
Statistics
Matches: 403, Mismatches: 109, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
96 23 0.06
97 54 0.13
98 1 0.00
99 39 0.10
100 200 0.50
101 83 0.21
102 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (99 bp):
TACAACATCAAATCCTATACCCCTAAAGTTGTAGTGGGTCAGATTAAAGCTACATAGCAAATCTT
ATCTCCCTGAAGATGCAATGGAGCAAGATGAAGC
Found at i:185182 original size:100 final size:100
Alignment explanation
Indices: 184830--185203 Score: 246
Period size: 100 Copynumber: 3.8 Consensus size: 100
184820 AAGCTACATC
* * * * * * **
184830 AGCAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAAGAT-GAA--ACAACATTAAATCCTATTTT
1 AGCAAATCTTATCTCCCTGAAGATGTAATGAAGCAAGATAAAATTACAACATCAAATCCTATCAT
* ** * * * *
184892 CCTGAAGTTGCAG-GGATC-AGATTAAAACTACAGT
66 CCTAAAGTTGCAGTAAATCGA-ATTGAAATTATAGA
* ** * * * *
184926 AGCAAATATTTATCTCTTTGAAGTTGCAAT-AGAGCAAGATAAAACTACCACATCAAATCCTAT-
1 AGCAAAT-CTTATCTCCCTGAAGATGTAATGA-AGCAAGATAAAATTACAACATCAAATCCTATC
* * * *** *
184989 ACCTCTGAAGTTGTAGTGGGTC-AGATTGAAGTTATAGA
64 ATC-CTAAAGTTGCAGTAAATCGA-ATTGAAATTATAGA
* * * * *
185027 AGCAAATCTTATCTCCCTGAAGATGTAATGGAGTAAGATGAAGTTACGACATCAAATCCTAT-AT
1 AGCAAATCTTATCTCCCTGAAGATGTAATGAAGCAAGATAAAATTACAACATCAAATCCTATCAT
**
185091 CCTTAAAGTTGCAGTAAATCGAATTGAAATTATATT
66 CC-TAAAGTTGCAGTAAATCGAATTGAAATTATAGA
* ** * *
185127 AGCAAAT-TCTATCTCCCTGAAGATGTAGTGAAGCAAGATAAAATTACAATGTCAAATCCTGTCT
1 AGCAAATCT-TATCTCCCTGAAGATGTAATGAAGCAAGATAAAATTACAACATCAAATCCTATCA
185191 TCCTAAAGTTGCA
65 TCCTAAAGTTGCA
185204 TTGAAGTGGA
Statistics
Matches: 219, Mismatches: 47, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
96 7 0.03
97 26 0.12
98 2 0.01
99 3 0.01
100 155 0.71
101 26 0.12
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (100 bp):
AGCAAATCTTATCTCCCTGAAGATGTAATGAAGCAAGATAAAATTACAACATCAAATCCTATCAT
CCTAAAGTTGCAGTAAATCGAATTGAAATTATAGA
Found at i:187028 original size:9 final size:9
Alignment explanation
Indices: 186995--187032 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
186985 AATTCAGTGC
186995 TTTATTT-T
1 TTTATTTAT
187003 TTTATTTAT
1 TTTATTTAT
187012 CTTT-TTTAT
1 -TTTATTTAT
187021 TTTATTTAT
1 TTTATTTAT
187030 TTT
1 TTT
187033 CTAGCACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 10 0.37
9 14 0.52
10 3 0.11
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTATTTAT
Found at i:187189 original size:19 final size:19
Alignment explanation
Indices: 187165--187218 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
187155 ATTTTATCAT
187165 TTTTTTGTTATTATTGTTA
1 TTTTTTGTTATTATTGTTA
** * *
187184 TTTTTTACTATCATTTTTA
1 TTTTTTGTTATTATTGTTA
*
187203 TTATTGTGTTATTATT
1 TT-TTTTGTTATTATT
187219 TACTATAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTGTTATTATTGTTA
Found at i:194019 original size:3 final size:3
Alignment explanation
Indices: 194011--194049 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
194001 AGAATAAATG
*
194011 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
194050 CTACGTGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:195583 original size:17 final size:17
Alignment explanation
Indices: 195537--195587 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
195527 TTTTATAGTT
195537 TGTTTGTTATTTATTTTTTA
1 TGTTTGTT-TTTA--TTTTA
* *
195557 TCTTTATTTTTATTTTA
1 TGTTTGTTTTTATTTTA
195574 TGTTTG-TTTTATTT
1 TGTTTGTTTTTATTT
195588 ATATTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 8 0.30
17 9 0.33
19 4 0.15
20 6 0.22
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (17 bp):
TGTTTGTTTTTATTTTA
Found at i:199576 original size:20 final size:21
Alignment explanation
Indices: 199537--199588 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
199527 TACATTATGG
199537 AGGA-GTTTCCTATAGTTTTT
1 AGGACGTTTCCTATAGTTTTT
199557 AGGACGTTTCCTATAGTTTTT
1 AGGACGTTTCCTATAGTTTTT
*
199578 AGGACTTTTCC
1 AGGACGTTTCC
199589 AAAGTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (21 bp):
AGGACGTTTCCTATAGTTTTT
Found at i:201509 original size:13 final size:13
Alignment explanation
Indices: 201476--201513 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
201466 ATTTCACCAA
201476 AAAAAGAGAGAAAAG
1 AAAAAGA-A-AAAAG
201491 -AAAAGAAAAAAG
1 AAAAAGAAAAAAG
201503 AAAAAGAAAAA
1 AAAAAGAAAAA
201514 GGAGAGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 11 0.50
14 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:201514 original size:19 final size:20
Alignment explanation
Indices: 201476--201512 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
201466 ATTTCACCAA
201476 AAAAAGAGAGAAAAGAAAAG
1 AAAAAGAGAGAAAAGAAAAG
201496 AAAAA-AGA-AAAAGAAAA
1 AAAAAGAGAGAAAAGAAAA
201513 AGGAGAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAGAAAAGAAAAG
Found at i:202691 original size:101 final size:101
Alignment explanation
Indices: 202438--202907 Score: 405
Period size: 101 Copynumber: 4.7 Consensus size: 101
202428 GCGGATCTCA
* *** * * * * *
202438 ATCTCCCTGAAGTTGCAGTGGAATTAGGTGAAGTTACAACATCAAATCCTATATCTTTGATGTTG
1 ATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATACCATTGAAGTTG
* * * *
202503 TAGTGGATCAGATTGAAACTACAGT-GACAAAT-ATT
66 CAGTGGGTCAGATTGAAGCTACAGTAG-CAAATCTTT
* * * * * * *
202538 ATCTCCTTAAAGTTGTAGTGGAGCAAAATGAGGCTACAAAACCAAATTCTATACCATTGAAGTTG
1 ATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATACCATTGAAGTTG
* *
202603 TAGTGGGTC-GAATTGAAGCCACAGTAGCAAATCTTT
66 CAGTGGGTCAG-ATTGAAGCTACAGTAGCAAATCTTT
* * ** *
202639 ATCTCCCTGAAGTTTTAGTGGAGCAAGATGAAGTTACGTCATCAAGTCCTATACCCA-TGAAGTT
1 ATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATA-CCATTGAAGTT
* * *
202703 ACAGTGGGTCAGATTGAAGCTATA-TAATCAAATCTTT
65 GCAGTGGGTCAGATTGAAGCTACAGT-AGCAAATCTTT
* * * * ** ** *
202740 GTCTCCGTAAAGTTGTAGTGGAGCAAGATGAAGCTACGACATCAAATAATATACCCCTAAAGTTG
1 ATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATACCATTGAAGTTG
** * *
202805 CAGTGGGTTGGATTGAAGCTATAGAAGCAAATCTTT
66 CAGTGGGTCAGATTGAAGCTACAGTAGCAAATCTTT
* * * **
202841 ATCTCCCTGAAGGTT-TAGTGGAACAAGATGAAGCTATC-ACATCAGATCATATACCCCTGAAGT
1 ATCTCCCTGAA-GTTGTAGTGGAGCAAGATGAAGCTA-CAACATCAAATCCTATACCATTGAAGT
202904 TGCA
64 TGCA
202908 ATGGTTGGAT
Statistics
Matches: 300, Mismatches: 60, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
99 1 0.00
100 77 0.26
101 214 0.71
102 8 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (101 bp):
ATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATACCATTGAAGTTG
CAGTGGGTCAGATTGAAGCTACAGTAGCAAATCTTT
Found at i:202896 original size:202 final size:202
Alignment explanation
Indices: 202539--202904 Score: 493
Period size: 202 Copynumber: 1.8 Consensus size: 202
202529 ACAAATATTA
* * ** * * *
202539 TCTCCTTAAAGTTGTAGTGGAGCAAAATGAGGCTACAAAACCAAATTCTATACCATTGAAGTTGT
1 TCTCCGTAAAGTTGTAGTGGAGCAAAATGAAGCTACAAAACCAAATAATATACCACTAAAGTTGC
* * *
202604 AGTGGGTCGAATTGAAGCCACAGTAGCAAATCTTTATCTCCCTGAAGTTTTAGTGGAGCAAGATG
66 AGTGGGTCGAATTGAAGCCACAGAAGCAAATCTTTATCTCCCTGAAGGTTTAGTGGAACAAGATG
* * *
202669 AAGTTACGTCATCAAGTCCTATACCCATGAAGTTACAGTGGGTCAGATTGAAGCTATATAATCAA
131 AAGCTACGACATCAAGTCATATACCCATGAAGTTACAGTGGGTCAGATTGAAGCTATATAATCAA
202734 ATCTTTG
196 ATCTTTG
* * * * *
202741 TCTCCGTAAAGTTGTAGTGGAGCAAGATGAAGCTACGACATCAAATAATATACCCCTAAAGTTGC
1 TCTCCGTAAAGTTGTAGTGGAGCAAAATGAAGCTACAAAACCAAATAATATACCACTAAAGTTGC
* * * *
202806 AGTGGGTTGGATTGAAGCTATAGAAGCAAATCTTTATCTCCCTGAAGGTTTAGTGGAACAAGATG
66 AGTGGGTCGAATTGAAGCCACAGAAGCAAATCTTTATCTCCCTGAAGGTTTAGTGGAACAAGATG
*
202871 AAGCTATC-ACATC-AGATCATATACCCCTGAAGTT
131 AAGCTA-CGACATCAAG-TCATATACCCATGAAGTT
202905 GCAATGGTTG
Statistics
Matches: 139, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
201 2 0.01
202 136 0.98
203 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (202 bp):
TCTCCGTAAAGTTGTAGTGGAGCAAAATGAAGCTACAAAACCAAATAATATACCACTAAAGTTGC
AGTGGGTCGAATTGAAGCCACAGAAGCAAATCTTTATCTCCCTGAAGGTTTAGTGGAACAAGATG
AAGCTACGACATCAAGTCATATACCCATGAAGTTACAGTGGGTCAGATTGAAGCTATATAATCAA
ATCTTTG
Found at i:202926 original size:20 final size:20
Alignment explanation
Indices: 202901--202944 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
202891 ATACCCCTGA
202901 AGTTGCAATGGTTGGATTGG
1 AGTTGCAATGGTTGGATTGG
202921 AGTTGCAATGGTTGGATTGG
1 AGTTGCAATGGTTGGATTGG
202941 AGTT
1 AGTT
202945 ACAAAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.05, G:0.39, T:0.36
Consensus pattern (20 bp):
AGTTGCAATGGTTGGATTGG
Found at i:203022 original size:119 final size:121
Alignment explanation
Indices: 202800--203026 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 121
202790 ATACCCCTAA
* * * * * ** **
202800 AGTTGCAGTGGGTTGGATTGAAGCTATAGAAGCAAATCTTTATCTCCCTGAAGGTTTAGTGGAAC
1 AGTTGCAATGGGTTGGATTGAAGCTACAAAAGCAAATCTTTATCTCCCTAAAGATGCAGCAGAAC
*
202865 AAGATGAAGCTATCACATCAGATCATATACCCCTGAAGTTGCAATGGTTGGATTGG
66 AAGATGAAGCTATCACATCAAATCATATACCCCTGAAGTTGCAATGGTTGGATTGG
* *
202921 AGTTGCAAT-GGTTGGATTGGAGTTACAAAAGCAAAT-TTTATCTCCCTAAAGATGCAGCAGAAC
1 AGTTGCAATGGGTTGGATTGAAGCTACAAAAGCAAATCTTTATCTCCCTAAAGATGCAGCAGAAC
* * * * *
202984 AAGATGAAGTTATGACATCAAATCCTATATCTCTGAAGTTGCA
66 AAGATGAAGCTATCACATCAAATCATATACCCCTGAAGTTGCA
203027 GTGGATCAGA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
119 58 0.65
120 23 0.26
121 8 0.09
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (121 bp):
AGTTGCAATGGGTTGGATTGAAGCTACAAAAGCAAATCTTTATCTCCCTAAAGATGCAGCAGAAC
AAGATGAAGCTATCACATCAAATCATATACCCCTGAAGTTGCAATGGTTGGATTGG
Found at i:203449 original size:22 final size:23
Alignment explanation
Indices: 203424--203466 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
203414 AAAAACCCAA
203424 CCAATAAATAAA-AAAATAAAGC
1 CCAATAAATAAATAAAATAAAGC
203446 CCAATAAATAAATAAAATAAA
1 CCAATAAATAAATAAAATAAA
203467 TTAAAAGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.16
Consensus pattern (23 bp):
CCAATAAATAAATAAAATAAAGC
Found at i:204341 original size:25 final size:25
Alignment explanation
Indices: 204293--204343 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
204283 CACTTGAGAG
*
204293 AAAAAAAGGAAATAAAAAAGTTTTT
1 AAAAAAAGGAAAGAAAAAAGTTTTT
* * *
204318 AAAAAAAGGGAAGAAGAAATTTTTT
1 AAAAAAAGGAAAGAAAAAAGTTTTT
204343 A
1 A
204344 TTTTATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (25 bp):
AAAAAAAGGAAAGAAAAAAGTTTTT
Found at i:204774 original size:17 final size:17
Alignment explanation
Indices: 204754--204818 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
204744 TTTAGTCCCT
204754 TTTATTGTTTT-TATTTA
1 TTTATT-TTTTATATTTA
*
204771 TTTATTTTTTATCTTTA
1 TTTATTTTTTATATTTA
*
204788 TTT-TTATTTTATGTTTA
1 TTTATT-TTTTATATTTA
*
204805 -TTA-TGTTTATATTT
1 TTTATTTTTTATATTT
204819 TTAGTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.20
16 9 0.22
17 24 0.59
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTATTTTTTATATTTA
Found at i:204778 original size:13 final size:12
Alignment explanation
Indices: 204753--204821 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 12
204743 ATTTAGTCCC
204753 TTTTATTGTT-TT
1 TTTTATT-TTATT
204765 TATTTA-TTTATT
1 T-TTTATTTTATT
204777 TTTTATCTTTA-T
1 TTTTAT-TTTATT
204789 TTTTATTTTATGT
1 TTTTATTTTAT-T
204802 TTATTATGTTTATAT
1 TT-TTAT-TTTAT-T
204817 TTTTA
1 TTTTA
204822 GTATTTTTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
11 10 0.21
12 12 0.25
13 11 0.23
14 7 0.15
15 8 0.17
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:204993 original size:15 final size:14
Alignment explanation
Indices: 204970--205007 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
204960 GATTGATATC
*
204970 ATTTATATTATTTTT
1 ATTTTTATTA-TTTT
204985 ATTTTTATTATTTT
1 ATTTTTATTATTTT
204999 ATTTTTATT
1 ATTTTTATT
205008 TAATTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTTATTATTTT
Found at i:205017 original size:19 final size:20
Alignment explanation
Indices: 204972--205023 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
204962 TTGATATCAT
* *
204972 TTATATTATTTTTATTTTTA
1 TTATTTTATTTTTATTTTAA
204992 TTATTTTATTTTTA-TTTAA
1 TTATTTTATTTTTATTTTAA
*
205011 TTGTTTTATTTTT
1 TTATTTTATTTTT
205024 TATATTCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
TTATTTTATTTTTATTTTAA
Found at i:208078 original size:2 final size:2
Alignment explanation
Indices: 208063--208106 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
208053 GGAAAATAAA
* * * *
208063 AG AG AG GG AA AG AG AG AG AG AG AG AG AG AG GG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
208105 AG
1 AG
208107 CGCTAAGTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
AG
Found at i:211565 original size:90 final size:92
Alignment explanation
Indices: 211416--211602 Score: 256
Period size: 90 Copynumber: 2.1 Consensus size: 92
211406 TATTAAGATT
* * *
211416 AAGTACCATAATAAAATATATATTGATAGTTTAGATATCACATTGGATATTTTCAAAGTA-CAAG
1 AAGTACCATAATAAAATATATATTGATAATTTAGATATCACATTAGACATTTTCAAAGTATCAA-
* * *
211480 TACTACATTAAATATTTTATGAAAGTAC
65 TACAACATTAAATATTTCATAAAAGTAC
*
211508 AAGTACCATAATAAAA-ATATATTGATAATTTATG-TAT-ACATTAGACATTTTTAAAGTATCAA
1 AAGTACCATAATAAAATATATATTGATAATTTA-GATATCACATTAGACATTTTCAAAGTATCAA
*
211570 TACAACATTAGATATTTCATAAAAGTAC
65 TACAACATTAAATATTTCATAAAAGTAC
211598 AAGTA
1 AAGTA
211603 GTGAATGTCT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
90 47 0.55
91 21 0.25
92 17 0.20
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (92 bp):
AAGTACCATAATAAAATATATATTGATAATTTAGATATCACATTAGACATTTTCAAAGTATCAAT
ACAACATTAAATATTTCATAAAAGTAC
Found at i:211821 original size:21 final size:24
Alignment explanation
Indices: 211789--211848 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 24
211779 TAAAAATGAT
* *
211789 AAATTTTAATTTAATCCT-TCA-A
1 AAATTATAATTTAATACTATCATA
*
211811 AAATTAT-ATTT-TTACTATCATA
1 AAATTATAATTTAATACTATCATA
211833 AAATTATAATTTAATA
1 AAATTATAATTTAATA
211849 TCCACACCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 14 0.47
23 4 0.13
24 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTATAATTTAATACTATCATA
Done.