Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006288.1 Hibiscus syriacus cultivar Beakdansim tig00015009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115756
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:224 original size:12 final size:12
Alignment explanation
Indices: 209--251 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
199 GAAATATAGT
209 ATGAACAGTACC
1 ATGAACAGTACC
221 ATGAACAGTA--
1 ATGAACAGTACC
*
231 ATGAACAATACC
1 ATGAACAGTACC
243 ATGAACAGT
1 ATGAACAGT
252 GCTACAGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:237 original size:22 final size:22
Alignment explanation
Indices: 209--251 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
199 GAAATATAGT
*
209 ATGAACAGTACCATGAACAGTA
1 ATGAACAATACCATGAACAGTA
231 ATGAACAATACCATGAACAGT
1 ATGAACAATACCATGAACAGT
252 GCTACAGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (22 bp):
ATGAACAATACCATGAACAGTA
Found at i:1093 original size:32 final size:31
Alignment explanation
Indices: 1021--1117 Score: 99
Period size: 31 Copynumber: 3.1 Consensus size: 31
1011 GAACCTCGAC
* * *
1021 AACTGTCCATAAGTCCCGAATA-ACCTAGGTA
1 AACTGTCCATATGTCCTGAA-AGACATAGGTA
* *
1052 AACTGTCCATATGTTCCTTAGA-ACATAGGTA
1 AACTGTCCATATG-TCCTGAAAGACATAGGTA
*
1083 ATCCTGTCCATATGTCCTGAAAGACATAGGTA
1 A-ACTGTCCATATGTCCTGAAAGACATAGGTA
1115 AAC
1 AAC
1118 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
31 29 0.54
32 25 0.46
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCTGAAAGACATAGGTA
Found at i:7047 original size:14 final size:14
Alignment explanation
Indices: 7024--7060 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7014 AGTAAAGCGT
*
7024 GCTCCTTGCCCCGC
1 GCTCCCTGCCCCGC
7038 GCTCCCTGCCCCGC
1 GCTCCCTGCCCCGC
7052 GCTCCCTGC
1 GCTCCCTGC
7061 TGATTTGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.00, C:0.59, G:0.22, T:0.19
Consensus pattern (14 bp):
GCTCCCTGCCCCGC
Found at i:7375 original size:17 final size:18
Alignment explanation
Indices: 7340--7380 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7330 ATAATATGTA
*
7340 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
*
7358 TTTACTTTATTT-ATTAT
1 TTTACTTTATTTAAGTAT
7375 TTTACT
1 TTTACT
7381 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:7537 original size:45 final size:48
Alignment explanation
Indices: 7474--7595 Score: 155
Period size: 53 Copynumber: 2.5 Consensus size: 48
7464 CGGTAACATT
7474 TTAAGAATT-ATTTGTAATAA-T-TTG-TTTAATGCATGATTATTAGA
1 TTAAGAATTAATTTGTAATAATTATTGTTTTAATGCATGATTATTAGA
7518 TTAAGAATTAATTTGTAATAATTTATTGATTTATTTAATGCATGATTATTAGA
1 TTAAGAATTAATTTGTAATAA-TTATTG---T-TTTAATGCATGATTATTAGA
*
7571 TTAAGAATTAATTTGT-GTAATTATT
1 TTAAGAATTAATTTGTAATAATTATT
7596 AATTTTTAGG
Statistics
Matches: 68, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
44 9 0.13
45 11 0.16
47 1 0.01
48 3 0.04
51 5 0.07
52 3 0.04
53 36 0.53
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (48 bp):
TTAAGAATTAATTTGTAATAATTATTGTTTTAATGCATGATTATTAGA
Found at i:7582 original size:26 final size:26
Alignment explanation
Indices: 7499--7582 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
7489 AATAATTTGT
7499 TTAATGCATGATTATTAGATTAAGAA
1 TTAATGCATGATTATTAGATTAAGAA
* * * *
7525 TTAATTTGTAATAATTTATT-GATT--TAT
1 TTAA--TG-CATGA-TTATTAGATTAAGAA
7552 TTAATGCATGATTATTAGATTAAGAA
1 TTAATGCATGATTATTAGATTAAGAA
7578 TTAAT
1 TTAAT
7583 TTGTGTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 5 0.12
24 7 0.16
25 2 0.05
26 10 0.23
27 5 0.12
28 2 0.05
29 7 0.16
30 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAATGCATGATTATTAGATTAAGAA
Found at i:9638 original size:26 final size:24
Alignment explanation
Indices: 9567--9638 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
9557 TTATATTTGT
9567 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
9592 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
9614 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
9639 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:13036 original size:12 final size:12
Alignment explanation
Indices: 13016--13049 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13006 AATAAGTATA
*
13016 ATAAAAAAAATT
1 ATAACAAAAATT
*
13028 ATAACAAAATTT
1 ATAACAAAAATT
13040 ATAACAAAAA
1 ATAACAAAAA
13050 ATCGCAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACAAAAATT
Found at i:13387 original size:51 final size:51
Alignment explanation
Indices: 13311--13425 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
13301 CCCCTACGTG
**
13311 GCGTATAGCGCGGAACAGGGGGCGCGCTATA-CCCACGTGTAAGCCATGTCA
1 GCGTATAGCGCGGAACAGGGGGCGCGCTATACCCCACGTG-AAGCCAAATCA
* *
13362 GCGTATAGCGCGGTACAGGGGGCGCGCTATACCCCACGTGACGCCAAATCA
1 GCGTATAGCGCGGAACAGGGGGCGCGCTATACCCCACGTGAAGCCAAATCA
*
13413 GCATATAGCGCGG
1 GCGTATAGCGCGG
13426 GGCAGAGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 50 0.86
52 8 0.14
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (51 bp):
GCGTATAGCGCGGAACAGGGGGCGCGCTATACCCCACGTGAAGCCAAATCA
Found at i:16417 original size:39 final size:39
Alignment explanation
Indices: 16382--16631 Score: 331
Period size: 39 Copynumber: 6.4 Consensus size: 39
16372 TGCTGAACAG
* * * *
16382 GAAGAGAAAGAGAAGAGATTGAAAGAAACTCCTGAACGA
1 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
* * ** *
16421 GAGGAGAATGAGAAGAAAGAGAAGGAAGCTTGTGAACGA
1 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
* *
16460 GAAGAGAACGAGAAGAGATTGAAGGAAGCTCGTGAACGT
1 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
* *
16499 GAAGAGAATGAGAAGAGATTGAAGGAAGCTTGTGAGCGA
1 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
*
16538 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAGCGA
1 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
* * *
16577 GAAGAGAATGAGAAGAAAGTGAAGGAAGCTCGAGAACGA
1 GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
16616 GAAGA-AAGTGAGAAGA
1 GAAGAGAA-TGAGAAGA
16632 TATGGAGAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 2 0.01
39 183 0.99
ACGTcount: A:0.46, C:0.07, G:0.36, T:0.11
Consensus pattern (39 bp):
GAAGAGAATGAGAAGAGATTGAAGGAAGCTCGTGAACGA
Found at i:16922 original size:39 final size:39
Alignment explanation
Indices: 16872--16969 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 39
16862 AATAAACTAA
* *
16872 AAGAGGCTTGTGAAAAAGAAGCA-ATTGACAAAG-GGCTTG
1 AAGAAGCTTGTGAAAAAGAAG-AGATTG-CAAAGAGACTTG
* *
16911 AGGAAGTTTGTGAAAAA-ATAGAGATTGCAAAGAGACTTG
1 AAGAAGCTTGTGAAAAAGA-AGAGATTGCAAAGAGACTTG
*
16950 AAGAAGCATGTGAAAAAGAA
1 AAGAAGCTTGTGAAAAAGAA
16970 AACATTGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
38 7 0.15
39 40 0.83
40 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.29, T:0.18
Consensus pattern (39 bp):
AAGAAGCTTGTGAAAAAGAAGAGATTGCAAAGAGACTTG
Found at i:21092 original size:71 final size:71
Alignment explanation
Indices: 21017--21249 Score: 216
Period size: 71 Copynumber: 3.3 Consensus size: 71
21007 ATACATATAT
* * *
21017 AATATATATAGTTTTGAAGACATATTTGAAACATTTATATATTATATAGTTTTTAAAACACTTTG
1 AATATATATAGTTTTAAAGACAT-TTTGAAACATTTATATATTATATAGTTTTCAAAACATTTTG
21082 AAAATAA
65 AAAATAA
* *
21089 ATATAATATATAGTTTTTAAA-ACGTTTTTGAAA-A--TATATATTATATGGTTTTCAAAACATT
1 A-AT-ATATATAG-TTTTAAAGAC-ATTTTGAAACATTTATATATTATATAGTTTTCAAAACATT
21150 TTGAAAAT-A
62 TTGAAAATAA
* *
21159 AATATA-AT--TTTTAAAAAGAAACATTTTGAAAACATTTATATATTATATAGTTTTGAAATCAT
1 AATATATATAGTTTT--AAAG--ACATTTTG-AAACATTTATATATTATATAGTTTTCAAAACAT
*
21221 TTTGAAAACTTAT
61 TTTGAAAA--TAA
21234 AATATATA-A-TTTTAAA
1 AATATATATAGTTTTAAA
21250 AAAACATTTT
Statistics
Matches: 133, Mismatches: 10, Indels: 34
0.75 0.06 0.19
Matches are distributed among these distances:
64 4 0.03
66 3 0.02
67 2 0.02
68 8 0.06
69 7 0.05
70 3 0.02
71 32 0.24
72 32 0.24
73 3 0.02
74 21 0.16
75 13 0.10
76 5 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (71 bp):
AATATATATAGTTTTAAAGACATTTTGAAACATTTATATATTATATAGTTTTCAAAACATTTTGA
AAATAA
Found at i:21100 original size:36 final size:36
Alignment explanation
Indices: 21020--21166 Score: 163
Period size: 36 Copynumber: 4.1 Consensus size: 36
21010 CATATATAAT
* * **
21020 ATATATAGTTTTGAAGACATATTTGAAACATTTATATA
1 ATATATAGTTTTTAAAACAT-TTTGAAA-ATAAATATA
* *
21058 TTATATAGTTTTTAAAACACTTTGAAAATAAATATA
1 ATATATAGTTTTTAAAACATTTTGAAAATAAATATA
*
21094 ATATATAGTTTTTAAAACGTTTTTGAAAAT--ATATA
1 ATATATAGTTTTTAAAAC-ATTTTGAAAATAAATATA
* * *
21129 TTATATGGTTTTCAAAACATTTTGAAAATAAATATA
1 ATATATAGTTTTTAAAACATTTTGAAAATAAATATA
21165 AT
1 AT
21167 TTTTAAAAAG
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
34 10 0.11
35 20 0.22
36 30 0.33
37 16 0.17
38 16 0.17
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATATAGTTTTTAAAACATTTTGAAAATAAATATA
Found at i:21222 original size:72 final size:74
Alignment explanation
Indices: 21036--21266 Score: 232
Period size: 72 Copynumber: 3.2 Consensus size: 74
21026 AGTTTTGAAG
* * * *
21036 ACATATTTG-AAACATTTATATATTATATAGTTTTTAAAACACTTTGAAAATAAATATAATATAT
1 ACATTTTTGAAAACATTTATATATTATATAGTTTTCAAAACATTTTG--AA-AACTATAATATAT
* *
21100 AGTTTT--TAAA
63 AATTTTAAAAAA
* * *
21110 ACGTTTTTG-AAA-A--TATATATTATATGGTTTTCAAAACATTTTGAAAA-TA-AATATA-ATT
1 ACATTTTTGAAAACATTTATATATTATATAGTTTTCAAAACATTTTGAAAACTATAATATATAAT
21168 TTTAAAAAGAA
66 TTT-AAAA-AA
* *
21179 ACA-TTTTGAAAACATTTATATATTATATAGTTTTGAAATCATTTTGAAAACTTATAATATATAA
1 ACATTTTTGAAAACATTTATATATTATATAGTTTTCAAAACATTTTGAAAAC-TATAATATATAA
21243 TTTTAAAAAA
65 TTTTAAAAAA
21253 ACATTTTTGAAAAC
1 ACATTTTTGAAAAC
21267 TATATAATTT
Statistics
Matches: 132, Mismatches: 12, Indels: 25
0.78 0.07 0.15
Matches are distributed among these distances:
65 5 0.04
66 6 0.05
67 2 0.02
68 8 0.06
69 9 0.07
70 1 0.01
71 27 0.20
72 31 0.23
73 1 0.01
74 17 0.13
75 20 0.15
76 5 0.04
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (74 bp):
ACATTTTTGAAAACATTTATATATTATATAGTTTTCAAAACATTTTGAAAACTATAATATATAAT
TTTAAAAAA
Found at i:21234 original size:36 final size:35
Alignment explanation
Indices: 21012--21350 Score: 172
Period size: 34 Copynumber: 9.5 Consensus size: 35
21002 TATACATACA
*
21012 TATATAATATATATAGTTTTGAAGACATATTTGAAACATT
1 TATAT-AT-TATATAGTTTTGAAAACAT-TTTGAAA-A-T
* *
21052 TATATATTATATAGTTTTTAAAACACTTTGAAAAT
1 TATATATTATATAGTTTTGAAAACATTTTGAAAAT
* * * *
21087 AAATATAATATATAGTTTTTAAAACGTTTTTGAAAA-
1 -TATATATTATATAGTTTTGAAAAC-ATTTTGAAAAT
* *
21123 TATATATTATATGGTTTTCAAAACATTTTGAAAA-
1 TATATATTATATAGTTTTGAAAACATTTTGAAAAT
* *
21157 TA-A-A-TATA-ATTTTTAAAAAGAAACATTTTGAAAACATT
1 TATATATTATATAGTTTT---GA-AAACATTTTG-AAA-A-T
*
21195 TATATATTATATAGTTTTGAAATCATTTTGAAAACT
1 TATATATTATATAGTTTTGAAAACATTTTGAAAA-T
* *
21231 TATA-A-TATATAATTTTAAAAAAACATTTTTG-AAA-
1 TATATATTATATAGTTTT--GAAAACA-TTTTGAAAAT
* * *
21265 -A-CTA-TATA-A-TTTTGAAAACGTTTTTAAAAAAAT
1 TATATATTATATAGTTTTGAAAAC-ATTTT--GAAAAT
* * *
21298 ATATATAATATATACTTTT-AAAATACTTTTGAAAA-
1 -TATATATTATATAGTTTTGAAAACA-TTTTGAAAAT
21333 TATATATTATATAGTTTT
1 TATATATTATATAGTTTT
21351 TAGAAAATAT
Statistics
Matches: 237, Mismatches: 32, Indels: 66
0.71 0.10 0.20
Matches are distributed among these distances:
29 9 0.04
30 4 0.02
31 8 0.03
32 5 0.02
33 8 0.03
34 47 0.20
35 26 0.11
36 44 0.19
37 27 0.11
38 36 0.15
39 8 0.03
40 6 0.03
41 4 0.02
42 5 0.02
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (35 bp):
TATATATTATATAGTTTTGAAAACATTTTGAAAAT
Found at i:21363 original size:104 final size:106
Alignment explanation
Indices: 21082--21363 Score: 267
Period size: 104 Copynumber: 2.7 Consensus size: 106
21072 AAACACTTTG
* * * * *
21082 AAAATAAATATAATATATAGTTTTTAAA-ACGTTTTTGAAAATATATATTATAT-GGTTTT-CAA
1 AAAATATATATAATATATAGTTTTAAAATAC-ATTTTGAAAATATATATTATATAGTTTTTAAAA
* *
21144 AACA-TTTTGAAAATAAATATAATTTTTAAAAAGAAACATTTTGAA
65 AACATTTTTGAAAAT-AATATAATTTTGAAAAAG--A-ATTTTAAA
* * * * * * *
21189 AACATTTATATATTATATAGTTTTGAAAT-CATTTTGAAAACT-TATAATATATAATTTTAAAAA
1 AAAATATATATAATATATAGTTTTAAAATACATTTTGAAAA-TATATATTATATAGTTTTTAAAA
* *
21252 AACATTTTTGAAAACT-ATATAATTTTGAAAACG-TTTTTAAA
65 AACATTTTTGAAAA-TAATATAATTTTGAAAAAGAATTTTAAA
* *
21293 AAAATATATATAATATATACTTTTAAAATAC-TTTTGAAAATATATATTATATAGTTTTTAGAAA
1 AAAATATATATAATATATAGTTTTAAAATACATTTTGAAAATATATATTATATAGTTTTTAAAAA
*
21357 ATATTTT
66 ACATTTT
21364 ATATTATTAT
Statistics
Matches: 142, Mismatches: 25, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
103 1 0.01
104 63 0.44
105 1 0.01
106 18 0.13
107 28 0.20
108 21 0.15
109 9 0.06
110 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (106 bp):
AAAATATATATAATATATAGTTTTAAAATACATTTTGAAAATATATATTATATAGTTTTTAAAAA
ACATTTTTGAAAATAATATAATTTTGAAAAAGAATTTTAAA
Found at i:21401 original size:14 final size:15
Alignment explanation
Indices: 21382--21419 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21372 ATTATTATCG
21382 TTTTTATTTA-TTTA
1 TTTTTATTTATTTTA
*
21396 TTTTTATTAATTTTA
1 TTTTTATTTATTTTA
*
21411 TTTTCATTT
1 TTTTTATTT
21420 TAATTGTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:27383 original size:165 final size:165
Alignment explanation
Indices: 26995--27918 Score: 1051
Period size: 165 Copynumber: 5.6 Consensus size: 165
26985 GCTCAAGGCC
* * * * *
26995 AGAAGGGCTACCTGCCACAAAGACCTTTGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTG
1 AGAAGGGTTATCTGCC-CAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTG
** * *
27060 CAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAG
65 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
27121 CTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCG
130 C-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *
27158 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTG-C--CCAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATT
* * *
27223 TGCAGCATAGCTTAGGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTC
63 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
* * *
27288 AACTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCG
128 AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *** * * *
27326 AGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTG
1 AGAAGGGTTATCTGCCCAAAGACCTTTGAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTG
* * * * *
27390 CAGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAG
65 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
27455 CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
130 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *** * *
27491 AGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTG
1 AGAAGGGTTATCTGCCCAAAGACCTTTGAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTG
* *
27555 CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
65 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
27620 CTCCAAGGCATATCATTTGCAGCACAACTTAAGTCT
130 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* * * *
27656 ACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTGCC--C-AAAGACCTTTGAGTTCGATTACACTCAGCTCCAA-GGCACATCAT
* * ** * *
27720 TTGTAGCATAGCTTAGGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACT
62 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
* * * * *
27781 CAGCTTCGAGGGCATATCATTTGCAGCACAACTTAAGTCT
127 CAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* * *
27821 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTTCACTCAGCTCCAAGGCCCATCATT
1 AGAAGGGTTATCTGCC--C-AAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATT
* * *
27886 TGCAGCGTAGCTTAAGGCAAGAAGGGCTATCTG
63 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
27919 TCAATAAAAT
Statistics
Matches: 677, Mismatches: 69, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
163 12 0.02
164 54 0.08
165 471 0.70
166 5 0.01
167 1 0.00
168 85 0.13
169 49 0.07
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (165 bp):
AGAAGGGTTATCTGCCCAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGC
AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
Found at i:27450 original size:249 final size:248
Alignment explanation
Indices: 26995--27918 Score: 1157
Period size: 249 Copynumber: 3.7 Consensus size: 248
26985 GCTCAAGGCC
* *
26995 AGAAGGGCTACCTGCCA-CAAAGACCTTTGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGCTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
27059 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
66 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
27124 CGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTG
131 CGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTG
27189 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAGGTCG
196 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAGGTCG
* * *
27242 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAACTCCAAAGCACATCATT
1 AGAAGGGCTATCTGCC-ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
27307 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
* *
27372 TCGAGGGCACATTATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTT
130 TCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
*
27437 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
195 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAGGTCG
*** * * * *
27491 AGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGCTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * ** * *
27553 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTC
* * * * * * * * *
27618 AGC-TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGAC
126 AGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGAC
*
27682 CTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGTAGCATAGCTTAGGTCG
191 CTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAGGTCG
*** * * * * *
27740 AGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATT
1 AGAAGGGCTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * * * *** *
27802 TGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTTCACTC
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACACTC
* * * ** * * * *
27867 AGC-TCCAAGGCCCATCATTTGCAGCGTAGCTTAAGGCAAGAAGGGCTATCTG
126 AGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTG
27919 TCAATAAAAT
Statistics
Matches: 610, Mismatches: 56, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
245 25 0.04
246 45 0.07
247 14 0.02
248 5 0.01
249 494 0.81
250 27 0.04
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (248 bp):
AGAAGGGCTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
CGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTG
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAGGTCG
Found at i:27782 original size:414 final size:414
Alignment explanation
Indices: 27012--27918 Score: 1528
Period size: 414 Copynumber: 2.2 Consensus size: 414
27002 CTACCTGCCA
*
27012 CAAAGACCTTTGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
27077 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
66 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
* *
27142 AGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC
131 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * *
27207 TCCAAGGCACATCATTTGCAGCATAGCTTAGGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
196 TCCAAGGCACATCATTTGCAGCACAACTTAAGTCGACAAGGGTTATCTGCCAACAAAAGACCTTT
27272 GAGTTCGACTACGCTCAACTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
261 GAGTTCGACTACGCTCAACTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
* * *
27337 CTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTGCAGTATAACTTA
326 CTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCACAACTTA
27402 AGTCGAGAAGGGTTATCTACCAAC
391 AGTCGAGAAGGGTTATCTACCAAC
27426 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
27491 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
66 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
27556 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
131 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
27621 TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTT
196 TCCAAGGCACATCATTTGCAGCACAACTTAAGTCGACAAGGGTTATCTGCCAACAAAAGACCTTT
* * * *
27686 GAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGTAGCATAGCTTAGGTCGAGAAGGGCTA
261 GAGTTCGACTACGCTCAACTCCAA-AGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
*
27750 TCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCACAACTT
325 TCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCACAACTT
* * *
27815 AAGTCTAGAAGGGTTGTCTGCCAAC
390 AAGTCGAGAAGGGTTATCTACCAAC
* * * * * * * *
27840 AAAAGACCTTTGAGTTCGATTTCACTCAGCTCCAAGGCCCATCATTTGCAGCGTAGCTTAAGGCA
1 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
27905 AGAAGGGCTATCTG
66 AGAAGGGCTATCTG
27919 TCAATAAAAT
Statistics
Matches: 462, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
413 3 0.01
414 459 0.99
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (414 bp):
CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGCAGCACAACTTAAGTCGACAAGGGTTATCTGCCAACAAAAGACCTTT
GAGTTCGACTACGCTCAACTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
CTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCACAACTTA
AGTCGAGAAGGGTTATCTACCAAC
Found at i:28432 original size:13 final size:13
Alignment explanation
Indices: 28414--28439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28404 TGTCCTATTT
28414 TTCGTTCCACGAA
1 TTCGTTCCACGAA
28427 TTCGTTCCACGAA
1 TTCGTTCCACGAA
28440 AAAGGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (13 bp):
TTCGTTCCACGAA
Found at i:28598 original size:71 final size:70
Alignment explanation
Indices: 28522--28754 Score: 205
Period size: 71 Copynumber: 3.3 Consensus size: 70
28512 ACATATATAT
* * *
28522 AATATATATAGTTTTGAAGACATATTTGAAACATTTATATATTATATAGTTTTTAAAACACTTTG
1 AATATATATAGTTTTAAAGACAT-TTTGAAACA-TTATATATTATATAGTTTTCAAAACATTTTG
28587 AAAATAA
64 AAAATAA
* *
28594 ATATAATATATAGTTTTTAAA-ACGTTTTTGAAA-A-TATATATTATATGGTTTTCAAAACATTT
1 A-AT-ATATATAG-TTTTAAAGAC-ATTTTGAAACATTATATATTATATAGTTTTCAAAACATTT
28656 TGAAAAT-A
62 TGAAAATAA
* *
28664 AATATA-AT--TTTTAAAAAGAAACATTTTGAAAACATATATATATTATATAGTTTTGAAATCAT
1 AATATATATAGTTTT--AAAG--ACATTTTG-AAACAT-TATATATTATATAGTTTTCAAAACAT
*
28726 TTTGAAAACTTAT
60 TTTGAAAA--TAA
28739 AATATATA-A-TTTTAAA
1 AATATATATAGTTTTAAA
28755 AAAAACATTT
Statistics
Matches: 133, Mismatches: 10, Indels: 34
0.75 0.06 0.19
Matches are distributed among these distances:
64 4 0.03
66 3 0.02
67 2 0.02
68 8 0.06
69 7 0.05
70 3 0.02
71 32 0.24
72 32 0.24
73 3 0.02
74 21 0.16
75 13 0.10
76 5 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (70 bp):
AATATATATAGTTTTAAAGACATTTTGAAACATTATATATTATATAGTTTTCAAAACATTTTGAA
AATAA
Found at i:28605 original size:36 final size:36
Alignment explanation
Indices: 28525--28671 Score: 163
Period size: 36 Copynumber: 4.1 Consensus size: 36
28515 TATATATAAT
* * **
28525 ATATATAGTTTTGAAGACATATTTGAAACATTTATATA
1 ATATATAGTTTTTAAAACAT-TTTGAAA-ATAAATATA
* *
28563 TTATATAGTTTTTAAAACACTTTGAAAATAAATATA
1 ATATATAGTTTTTAAAACATTTTGAAAATAAATATA
*
28599 ATATATAGTTTTTAAAACGTTTTTGAAAAT--ATATA
1 ATATATAGTTTTTAAAAC-ATTTTGAAAATAAATATA
* * *
28634 TTATATGGTTTTCAAAACATTTTGAAAATAAATATA
1 ATATATAGTTTTTAAAACATTTTGAAAATAAATATA
28670 AT
1 AT
28672 TTTTAAAAAG
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
34 10 0.11
35 20 0.22
36 30 0.33
37 16 0.17
38 16 0.17
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATATAGTTTTTAAAACATTTTGAAAATAAATATA
Found at i:28703 original size:34 final size:35
Alignment explanation
Indices: 28648--28788 Score: 110
Period size: 34 Copynumber: 3.9 Consensus size: 35
28638 ATGGTTTTCA
* *
28648 AAACATTTTGAAAATAAATATA-ATTTTTAAAAAG
1 AAACATTTTGAAAACATATATATATTTTTAAAAAG
* ****
28682 AAACATTTTGAAAACATATATATATTATATAGTTTTG
1 AAACATTTTGAAAACATATATATATT-TTTA-AAAAG
*
28719 AAATCATTTTGAAAACTTATAATATATAATTTTAAAAA-
1 AAA-CATTTTGAAAAC--AT-ATATATATTTTTAAAAAG
*
28757 AAACATTTTTGAAAAC-TATATA-ATTTTGAAAA
1 AAACA-TTTTGAAAACATATATATATTTTTAAAA
28789 CGTTTTTAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
33 8 0.10
34 25 0.30
35 4 0.05
36 3 0.04
37 6 0.07
38 25 0.30
40 5 0.06
41 8 0.10
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (35 bp):
AAACATTTTGAAAACATATATATATTTTTAAAAAG
Found at i:28767 original size:38 final size:38
Alignment explanation
Indices: 28647--28780 Score: 124
Period size: 38 Copynumber: 3.6 Consensus size: 38
28637 TATGGTTTTC
*
28647 AAAACATTTTG-AAA--ATA-AATATA-ATTTTTAAAA
1 AAAACATTTTGAAAACTATATAATATATAATTTTAAAA
* *
28680 AGAAACATTTTGAAAACATATATATATTATATAGTTTT---G
1 A-AAACATTTTGAAAAC-TATATA-A-TATATAATTTTAAAA
*
28719 AAATCATTTTGAAAACT-TATAATATATAATTTTAAAA
1 AAAACATTTTGAAAACTATATAATATATAATTTTAAAA
28756 AAAACATTTTTGAAAACTATATAAT
1 AAAACA-TTTTGAAAACTATATAAT
28781 TTTGAAAACG
Statistics
Matches: 81, Mismatches: 6, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
33 1 0.01
34 20 0.25
35 4 0.05
36 4 0.05
37 6 0.07
38 28 0.35
39 8 0.10
40 1 0.01
41 4 0.05
42 5 0.06
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (38 bp):
AAAACATTTTGAAAACTATATAATATATAATTTTAAAA
Found at i:28850 original size:105 final size:103
Alignment explanation
Indices: 28587--28856 Score: 264
Period size: 105 Copynumber: 2.6 Consensus size: 103
28577 AAACACTTTG
* * * * *
28587 AAAATAAATATAATATATAGTTTTTAAA-ACGTTTTTGAAAATATATATTATATGGTTTTCAAAA
1 AAAATATATATAATATATAGTTTTAAAATAC-ATTTTGAAAATATATATTATATAGTTTTAAAAA
* *
28651 CATTTTGAAAATAAATATAATTTTTAAAAAGAAACATTTTGAA
65 CATTTTGAAAAT-AATATAATTTTGAAAAAG--A-ATTTTAAA
* * * * *
28694 AACATATATATATTATATAGTTTTGAAAT-CATTTTGAAAACT-TATAATATATAATTTTAAAAA
1 AAAATATATATAATATATAGTTTTAAAATACATTTTGAAAA-TATATATTATATAGTTTT---AA
* *
28757 AAACATTTTTGAAAACT-ATATAATTTTGAAAACG-TTTTTAAA
62 AAACA-TTTTGAAAA-TAATATAATTTTGAAAAAGAATTTTAAA
*
28799 AAAATATATATAATATATACTTTTAAAATAC-TTTTGAAAATATATATTATATAGTTTT
1 AAAATATATATAATATATAGTTTTAAAATACATTTTGAAAATATATATTATATAGTTTT
28857 TAGAAAATAT
Statistics
Matches: 135, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
104 1 0.01
105 54 0.40
106 23 0.17
107 26 0.19
109 21 0.16
110 9 0.07
111 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.42
Consensus pattern (103 bp):
AAAATATATATAATATATAGTTTTAAAATACATTTTGAAAATATATATTATATAGTTTTAAAAAC
ATTTTGAAAATAATATAATTTTGAAAAAGAATTTTAAA
Found at i:28892 original size:23 final size:23
Alignment explanation
Indices: 28865--28919 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
28855 TTTAGAAAAT
28865 ATTTTATATTA-TTATTATTATCA
1 ATTTTAT-TTATTTATTATTATCA
* * *
28888 TTTTTATTTATTTATTTTTATTA
1 ATTTTATTTATTTATTATTATCA
28911 ATTTTATTT
1 ATTTTATTT
28920 TCATTTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTTTATTTATTTATTATTATCA
Found at i:28904 original size:14 final size:15
Alignment explanation
Indices: 28864--28925 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
28854 TTTTAGAAAA
28864 TATTTTATATTATTA-T
1 TATTTTAT-TT-TTATT
*
28880 TATTATCATTTTTATT
1 TATT-TTATTTTTATT
28896 TA-TTTATTTTTATT
1 TATTTTATTTTTATT
* *
28910 AATTTTATTTTCATT
1 TATTTTATTTTTATT
28925 T
1 T
28926 TAATTGTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 11 0.29
15 15 0.39
16 9 0.24
17 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTATTTTTATT
Found at i:30837 original size:2 final size:2
Alignment explanation
Indices: 30830--30864 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30820 ATACTGAATT
30830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30865 TGTCTAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:40318 original size:15 final size:14
Alignment explanation
Indices: 40300--40346 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
40290 ATCATATGAA
40300 ATGTGATAAAGAGCT
1 ATGTGA-AAAGAGCT
40315 ATGTGAAAA-AGCT
1 ATGTGAAAAGAGCT
*
40328 ATGTG-AAAGAACT
1 ATGTGAAAAGAGCT
40341 ATGTGA
1 ATGTGA
40347 TATAAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 3 0.10
13 17 0.59
14 3 0.10
15 6 0.21
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (14 bp):
ATGTGAAAAGAGCT
Found at i:43228 original size:21 final size:21
Alignment explanation
Indices: 43195--43255 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
43185 AGTCGAGAAT
* *
43195 TATGAGATTTTTCGGGACATA
1 TATGAGGTCTTTCGGGACATA
* *
43216 TATGAGGTCTTTCAGAACATA
1 TATGAGGTCTTTCGGGACATA
* *
43237 TACGAGGTCCTTCGGGACA
1 TATGAGGTCTTTCGGGACA
43256 AATTTCACAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (21 bp):
TATGAGGTCTTTCGGGACATA
Found at i:47597 original size:55 final size:55
Alignment explanation
Indices: 47432--48105 Score: 617
Period size: 56 Copynumber: 12.3 Consensus size: 55
47422 GGGATATCAG
*
47432 ACTCGAGA-AATCTTCTGA-AAATGGGTTCGCTCCCTATTCTTTTCAGGGAGTATAGA
1 ACTCGA-ACAATCTTCT-ACAAACGGGTTCGCTCCCTATT-TTTTCAGGGAGTATAGA
** * * * *
47488 ACTCGAACAATCCACTGCAAAGGGGTTCGCTCCCTATTCCTTTCAGGTAGTATAGA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATT-TTTTCAGGGAGTATAGA
* *
47544 ACTCGAACAATCTTCTGCAAAC-GGTTCGCTCCCTATTATTTTCAGGGAATATAGA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATT-TTTTCAGGGAGTATAGA
*
47599 ACTCGAACAATCTTCTACAAACAGGTTCGCTCCCTATTCTTTTCAGGGAGTATAGA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATT-TTTTCAGGGAGTATAGA
* * *
47655 ACTCGAAAAATCTTCTAAAAACGGGTTCGCTCCCTATTCCTTTCAGGGAGTATAGA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATT-TTTTCAGGGAGTATAGA
* * * * * *
47711 ACTCAAACAA---TCAACAATCGTGTAT-GCTCCCTATTTCTTCAGAGAGTATA-A
1 ACTCGAACAATCTTCTACAAACGGGT-TCGCTCCCTATTTTTTCAGGGAGTATAGA
* * **** * *
47762 GACTCGGACAATCTTCAACAATTATG-TCTGCTCCCTATTTCTTCAGAGAGTATA-A
1 -ACTCGAACAATCTTCTACAAACGGGTTC-GCTCCCTATTTTTTCAGGGAGTATAGA
* * * * *
47817 GACTC-AGACGATCTTCTACAAATGGGTTCGCTCCCTCTTTCTTTCAGGAATTATAGA
1 -ACTCGA-ACAATCTTCTACAAACGGGTTCGCTCCCTATTT-TTTCAGGGAGTATAGA
* * * * *
47874 ACTCGAATAATTTTCTGCAAACGGGTTCGCTCCCTATTTCTTTCAGGAAGTATAAA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATTT-TTTCAGGGAGTATAGA
* * * * *
47930 ACTCGAATAATCTTCTTCATACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATTTTTTCAGGGAGTATAGA
* * * * * *
47985 ACTTGAA-AATCTT-T--AAACGGGCTCGATCCCTCTTTCTTTCAAGAAGTATAGA
1 ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATTT-TTTCAGGGAGTATAGA
* * *
48037 ACTCGAATAATCTTATGA-AAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGA
1 ACTCGAACAATCTTCT-ACAAACGGGTTCGCTCCCTATTT-TTTCAGGGAGTATAGA
48092 ACTCGAACAATCTT
1 ACTCGAACAATCTT
48106 TATTTTCCTC
Statistics
Matches: 526, Mismatches: 72, Indels: 41
0.82 0.11 0.06
Matches are distributed among these distances:
51 19 0.04
52 39 0.07
53 27 0.05
54 8 0.02
55 158 0.30
56 273 0.52
57 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (55 bp):
ACTCGAACAATCTTCTACAAACGGGTTCGCTCCCTATTTTTTCAGGGAGTATAGA
Found at i:47773 original size:52 final size:53
Alignment explanation
Indices: 47683--47822 Score: 167
Period size: 55 Copynumber: 2.6 Consensus size: 53
47673 AAACGGGTTC
* * *
47683 GCTCCCTATTCCTTTCAGGGAGTAT-AGAACTCAAACAA-TCAACAATCGTGTAT
1 GCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCAAACAATTCAACAATCATGTAT
** * *
47736 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGGACAATCTTCAACAATTATGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACAA--TTCAACAATCATGTAT
47791 GCTCCCTATTTCTTCAGAGAGTATAAGACTCA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCA
47823 GACGATCTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
52 19 0.25
53 13 0.17
55 43 0.57
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (53 bp):
GCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATTCAACAATCATGTAT
Found at i:48040 original size:107 final size:108
Alignment explanation
Indices: 47462--48107 Score: 401
Period size: 111 Copynumber: 5.9 Consensus size: 108
47452 ATGGGTTCGC
* * * * * * * *
47462 TCCCTA-TTCTTTTCAGGGAGTATAGAACTCGAACAATC-CACTGCAAAGGGGTTCGCTCCCTAT
1 TCCCTATTTC-TTTCAAGAAGTATAAAACTCGAATAATCTTA-TGAAAACGGGTTCGCTCCCTCT
* * * *
47525 TCCTTTCAGGTAGTATAGAACTCGAACAATCTTCTGCAAAC-GGTTCGC
64 TTC-TTCAGGGAGTATAGAACTCGAACAATCTT-T--AAACGGGCTCGA
* * * * * *
47573 TCCCTATTAT-TTTCAGGGAA-TATAGAACTCGAACAATCTTCT-ACAAACAGGTTCGCTCCCTA
1 TCCCTATT-TCTTTCA-AGAAGTATAAAACTCGAATAATCTTATGA-AAACGGGTTCGCTCCCTC
* * * *
47635 TTCTTTTCAGGGAGTATAGAACTCGAAAAATCTTCTAAAAACGGGTTCGC
63 TT-TCTTCAGGGAGTATAGAACTCGAACAATCTT-T--AAACGGGCTCGA
* * * * * * * * *
47685 TCCCTATTCCTTTCAGGGAGTATAGAACTCAAACAATC--A--ACAATCGTGTAT-GCTCCCTAT
1 TCCCTATTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGA-AAACGGGT-TCGCTCCCTCT
* * * *** *
47745 TTCTTCAGAGAGTATA-AGACTCGGACAATCTTCAACAATTATG-TCTGC
64 TTCTTCAGGGAGTATAGA-ACTCGAACAATCTT-TA-AA-CGGGCTC-GA
* ** * *
47793 TCCCTATTTC-TTC-AGAGAGTATAAGACTC-AGACGATCTTCT-ACAAATGGGTTCGCTCCCTC
1 TCCCTATTTCTTTCAAGA-AGTATAAAACTCGA-ATAATCTTATGA-AAACGGGTTCGCTCCCTC
* * * * * *
47854 TTTCTTTCAGGAATTATAGAACTCGAATAATTTTCTGCAAACGGGTTCGC
63 TTTC-TTCAGGGAGTATAGAACTCGAACAATCTT-T--AAACGGGCTCGA
* * ** *
47904 TCCCTATTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTTCATACGGGTTCGCTCCCTCTTT
1 TCCCTATTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGAAAACGGGTTCGCTCCCTCTTT
*
47969 CTTCAGGGAGTATAGAACTTGAA-AATCTTTAAACGGGCTCGA
66 CTTCAGGGAGTATAGAACTCGAACAATCTTTAAACGGGCTCGA
* *
48011 TCCCTCTTTCTTTCAAGAAGTATAGAACTCGAATAATCTTATGAAAACGGGTTCGCTCCCTCTTT
1 TCCCTATTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGAAAACGGGTTCGCTCCCTCTTT
*
48076 CTTTAGGGAGTATAGAACTCGAACAATCTTTA
66 CTTCAGGGAGTATAGAACTCGAACAATCTTTA
48108 TTTTCCTCAC
Statistics
Matches: 435, Mismatches: 70, Indels: 63
0.77 0.12 0.11
Matches are distributed among these distances:
106 3 0.01
107 112 0.26
108 46 0.11
109 19 0.04
110 24 0.06
111 138 0.32
112 88 0.20
113 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (108 bp):
TCCCTATTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGAAAACGGGTTCGCTCCCTCTTT
CTTCAGGGAGTATAGAACTCGAACAATCTTTAAACGGGCTCGA
Found at i:48065 original size:219 final size:217
Alignment explanation
Indices: 47432--48105 Score: 676
Period size: 219 Copynumber: 3.1 Consensus size: 217
47422 GGGATATCAG
* *
47432 ACTCGAGAAATCTTCTGAAAATGGGTTCGCTCCCTA-TTCTTTTCAGGGAGTATAGAACTCGAAC
1 ACTCGAAAAATCTTCTGAAAACGGGTTCGCTCCCTATTTC-TTTCAGGGAGTATAGAACTCGAAC
* * * * *
47496 AATCCACTGCAAAGGGGTTCGCTCCCTATTCCTTTCAGGTAGTATAGAACTCGAACAATCTTCTG
65 AATCAACT-CATACGGGTTCGCTCCCTATTTC-TTCAGGGAGTATAGAACTCGAA-AATCTTCT-
* *
47561 CAAACGGTTCGCTCCCTATTAT-TTTCAGGGAA-TATAGAACTCGAACAATCTTCTACAAACAGG
126 -AAACGG-TCGCTCCCTATT-TCTTTCA-AGAAGTATAGAACTCGAACAATCTTCTACAAACGGG
*
47624 TTCGCTCCCT-ATTCTTTTCAGGGAGTATAGA
187 TTCGCTCCCTCTTTC-TTTCAGGGAGTATAGA
* * *
47655 ACTCGAAAAATCTTCTAAAAACGGGTTCGCTCCCTATTCCTTTCAGGGAGTATAGAACTCAAACA
1 ACTCGAAAAATCTTCTGAAAACGGGTTCGCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACA
* * * * *
47720 ATCAAC-AAT-CGTGTAT-GCTCCCTATTTCTTCAGAGAGTATA-AGACTCGGACAATCTTCAAC
66 ATCAACTCATACGGGT-TCGCTCCCTATTTCTTCAGGGAGTATAGA-ACTC-GAAAATCTTCTA-
** * *
47781 AATTATGTCTGCTCCCTATTTC-TTC-AGAGAGTATA-AGACTC-AGACGATCTTCTACAAATGG
127 AA--CGGTC-GCTCCCTATTTCTTTCAAGA-AGTATAGA-ACTCGA-ACAATCTTCTACAAACGG
* *
47842 GTTCGCTCCCTCTTTCTTTCAGGAATTATAGA
186 GTTCGCTCCCTCTTTCTTTCAGGGAGTATAGA
* * * * * *
47874 ACTCGAATAATTTTCTGCAAACGGGTTCGCTCCCTATTTCTTTCAGGAAGTATAAAACTCGAATA
1 ACTCGAAAAATCTTCTGAAAACGGGTTCGCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACA
** * *
47939 ATCTTCTTCATACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTT-TAAAC
66 ATCAAC-TCATACGGGTTCGCTCCCTATTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTAAAC
* * * *
48003 GGGCTCGATCCCTCTTTCTTTCAAGAAGTATAGAACTCGAATAATCTTATGA-AAACGGGTTCGC
130 -GG-TCGCTCCCTATTTCTTTCAAGAAGTATAGAACTCGAACAATCTTCT-ACAAACGGGTTCGC
48067 TCCCTCTTTCTTT-AGGGAGTATAGA
192 TCCCTCTTTCTTTCAGGGAGTATAGA
*
48092 ACTCGAACAATCTT
1 ACTCGAAAAATCTT
48106 TATTTTCCTC
Statistics
Matches: 371, Mismatches: 54, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
217 3 0.01
218 39 0.11
219 184 0.50
220 37 0.10
221 13 0.04
222 30 0.08
223 63 0.17
224 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (217 bp):
ACTCGAAAAATCTTCTGAAAACGGGTTCGCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACA
ATCAACTCATACGGGTTCGCTCCCTATTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTAAACG
GTCGCTCCCTATTTCTTTCAAGAAGTATAGAACTCGAACAATCTTCTACAAACGGGTTCGCTCCC
TCTTTCTTTCAGGGAGTATAGA
Found at i:48126 original size:107 final size:107
Alignment explanation
Indices: 47840--48107 Score: 320
Period size: 107 Copynumber: 2.4 Consensus size: 107
47830 TTCTACAAAT
* * * ** *
47840 GGGTTCGCTCCCTCTTTCTTTCAGGAATTATAGAACTCGAATAATTTTCTGCAAACGGGTTCGCT
1 GGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA-AATCTT-T--AAACGGCCTCGAT
* * * * ** *
47905 CCCTATTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTTCATAC
61 ACCTCTTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGAAAAC
* * *
47952 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTTAAACGGGCTCGATCCCTC
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTAAACGGCCTCGATACCTC
*
48017 TTTCTTTCAAGAAGTATAGAACTCGAATAATCTTATGAAAAC
66 TTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGAAAAC
*
48059 GGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTTA
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTTA
48108 TTTTCCTCAC
Statistics
Matches: 140, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
107 89 0.64
108 8 0.06
109 1 0.01
110 5 0.04
111 19 0.14
112 18 0.13
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (107 bp):
GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTAAACGGCCTCGATACCTC
TTTCTTTCAAGAAGTATAAAACTCGAATAATCTTATGAAAAC
Found at i:48513 original size:37 final size:37
Alignment explanation
Indices: 48456--48641 Score: 243
Period size: 37 Copynumber: 5.1 Consensus size: 37
48446 CTGATGATAT
* * *
48456 GATGG-TTTGCTCTAAC-ACTCTTCTGAGAAGGCTTAA
1 GATGGATTTGCT-TCACTACTCTTCAGTGAAGGCTTAA
*
48492 AATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
1 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
*
48529 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAG
1 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
* * ** * *
48566 GAT-AAATCACTTCACTATTCTTCGGTGAAGGCTTAA
1 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
48602 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
1 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
48639 GAT
1 GAT
48642 TGACTTTTCC
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
36 36 0.28
37 92 0.72
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (37 bp):
GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAA
Found at i:48594 original size:73 final size:73
Alignment explanation
Indices: 48502--48637 Score: 254
Period size: 73 Copynumber: 1.9 Consensus size: 73
48492 AATGGATTTG
48502 CTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAGG
1 CTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAGG
48567 ATAAATCA
66 ATAAATCA
* *
48575 CTTCACTATTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTA
1 CTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTA
48638 AGATTGACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (73 bp):
CTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAGG
ATAAATCA
Found at i:51439 original size:10 final size:10
Alignment explanation
Indices: 51424--51458 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
51414 TCATTTCCAA
51424 TTTTTTTTCT
1 TTTTTTTTCT
*
51434 TTTTTTCATCT
1 TTTTTT-TTCT
51445 TTTTTTTTCT
1 TTTTTTTTCT
51455 TTTT
1 TTTT
51459 CTCTTTCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:51447 original size:18 final size:18
Alignment explanation
Indices: 51426--51464 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51416 ATTTCCAATT
51426 TTTTTTCTT-TTTTTCATC
1 TTTTTTCTTCTTTTTC-TC
*
51444 TTTTTTTTTCTTTTTCTC
1 TTTTTTCTTCTTTTTCTC
51462 TTT
1 TTT
51465 CCACATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTCTTTTTCTC
Found at i:53677 original size:4 final size:4
Alignment explanation
Indices: 53668--53699 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
53658 TGAGGAACAA
53668 AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG
53700 GTCTTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:53817 original size:7 final size:6
Alignment explanation
Indices: 53784--53826 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
53774 AAGAAAATAC
*
53784 ATGC-A ATGCAA ATACAA ATGCAA ATGCTAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGC-AA ATGCAA ATGCAA A
53827 AGGTGTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
7 6 0.18
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (6 bp):
ATGCAA
Found at i:53820 original size:19 final size:18
Alignment explanation
Indices: 53784--53826 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
53774 AAGAAAATAC
53784 ATGC-AATGCAAATACAA
1 ATGCAAATGCAAATACAA
*
53801 ATGCAAATGCTAAATGCAA
1 ATGCAAATGC-AAATACAA
53820 ATGCAAA
1 ATGCAAA
53827 AGGTGTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (18 bp):
ATGCAAATGCAAATACAA
Found at i:54091 original size:21 final size:21
Alignment explanation
Indices: 54067--54161 Score: 138
Period size: 21 Copynumber: 4.5 Consensus size: 21
54057 ATGCTAAGTA
*
54067 GTCTTCAT-GTCTTTGTGAATG
1 GTCTTC-TCGTCTTTATGAATG
54088 GTCTTCTCGTCTTTATGAATG
1 GTCTTCTCGTCTTTATGAATG
54109 GTCTTCTCGTCTTTATGAATG
1 GTCTTCTCGTCTTTATGAATG
* * *
54130 ATCTTCTCGTCCTTGTGAATG
1 GTCTTCTCGTCTTTATGAATG
54151 GTCTTCTCGTC
1 GTCTTCTCGTC
54162 CTTGGTATGG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
20 1 0.01
21 67 0.99
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (21 bp):
GTCTTCTCGTCTTTATGAATG
Found at i:60360 original size:20 final size:21
Alignment explanation
Indices: 60335--60395 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
60325 TTTTGGTACA
60335 GAGGGAATCGATACCCCC-AT
1 GAGGGAATCGATACCCCCTAT
* * *
60355 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATACCCCCTAT
*
60376 GAAGGGGAATCGATGCCCCC
1 G-A-GGGAATCGATACCCCC
60396 CTGGGGTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
22 1 0.03
23 14 0.42
ACGTcount: A:0.25, C:0.31, G:0.28, T:0.16
Consensus pattern (21 bp):
GAGGGAATCGATACCCCCTAT
Found at i:62039 original size:12 final size:12
Alignment explanation
Indices: 62022--62047 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62012 TGAGCCTGAA
62022 CAGCCCGAGGAG
1 CAGCCCGAGGAG
62034 CAGCCCGAGGAG
1 CAGCCCGAGGAG
62046 CA
1 CA
62048 AGCACAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.38, T:0.00
Consensus pattern (12 bp):
CAGCCCGAGGAG
Found at i:64225 original size:46 final size:45
Alignment explanation
Indices: 64169--64279 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 45
64159 TATCTACCCC
64169 CATACTTTGTTATTCAAAAAAATCCTAACCGCATGATATCTAATTCG
1 CATAC-TTGTTATTCAAAAAAA-CCTAACCGCATGATATCTAATTCG
* **** * *
64216 CATGCTTGTTCGAGAAAATAAACCTAACCGCATGATTTCTAGTTCG
1 CATACTTGTTATTCAAAA-AAACCTAACCGCATGATATCTAATTCG
*
64262 CATACAT-TTATTCAAAAA
1 CATACTTGTTATTCAAAAA
64280 GCGAAAATAA
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
44 1 0.02
45 6 0.12
46 36 0.72
47 7 0.14
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (45 bp):
CATACTTGTTATTCAAAAAAACCTAACCGCATGATATCTAATTCG
Found at i:69499 original size:15 final size:15
Alignment explanation
Indices: 69475--69506 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
69465 TGGCAGATCG
*
69475 AAATCTAGAACGGGA
1 AAATCAAGAACGGGA
69490 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
69505 AA
1 AA
69507 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.12, G:0.25, T:0.09
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:72969 original size:14 final size:15
Alignment explanation
Indices: 72950--72984 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
72940 AGAAACACAA
72950 AGAAAAGC-TTAGAG
1 AGAAAAGCTTTAGAG
*
72964 AGAAAAGCTTTAGTG
1 AGAAAAGCTTTAGAG
72979 AGAAAA
1 AGAAAA
72985 TTGAGAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17
Consensus pattern (15 bp):
AGAAAAGCTTTAGAG
Found at i:78002 original size:2 final size:2
Alignment explanation
Indices: 77995--78045 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
77985 ATTTAAACAA
*
77995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
78037 AT TT AT AT A
1 AT AT AT AT A
78046 AAATAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:78063 original size:12 final size:12
Alignment explanation
Indices: 78046--78072 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78036 TATTTATATA
78046 AAATAATAATTT
1 AAATAATAATTT
78058 AAATAATAATTT
1 AAATAATAATTT
78070 AAA
1 AAA
78073 CATATCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATAATAATTT
Found at i:79414 original size:3 final size:3
Alignment explanation
Indices: 79393--79454 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
79383 GGTCTGTTTT
* * *
79393 TAA TAA TAT TAA TAG TAA TAA TAA TAT TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79440 T-A TAA -AA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA
79455 AAAATGGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 8 0.16
3 42 0.84
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:80052 original size:28 final size:28
Alignment explanation
Indices: 79993--80050 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
79983 TAATTCTTTC
* *
79993 TTTTCAAAATGTTTATATATACTTATTA
1 TTTTCATAATATTTATATATACTTATTA
*
80021 TTTTCATAATATTTATATGTA--TATTA
1 TTTTCATAATATTTATATATACTTATTA
80047 TTTT
1 TTTT
80051 TTATTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTTCATAATATTTATATATACTTATTA
Found at i:80609 original size:46 final size:49
Alignment explanation
Indices: 80534--80624 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 49
80524 TTTATTTTCT
* * *
80534 TTTTTCCTAAATAAATGCATGCGAACTAGAAATCATGCA-GTTAGGTTAA
1 TTTTTCCTAAACAAATGCATGCAAACTAGAAAGCATG-AGGTTAGGTTAA
80583 TTTTTCC-AAACAAA-GCATG-AAACTAGAAAGCATGAGGTTAGG
1 TTTTTCCTAAACAAATGCATGCAAACTAGAAAGCATGAGGTTAGG
80625 ATTTATACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 1 0.03
46 19 0.50
47 5 0.13
48 6 0.16
49 7 0.18
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (49 bp):
TTTTTCCTAAACAAATGCATGCAAACTAGAAAGCATGAGGTTAGGTTAA
Found at i:81516 original size:43 final size:44
Alignment explanation
Indices: 81449--81535 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
81439 TGGCTTTAGA
* * *
81449 GAAGTTAGGAGGGAAAGTTATCCCCTATATGT-AAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTACATGTAAAAGTTTTGTT
* *
81492 GAAGTTAGGACTGAAAGATGTCCCCTACATGTAAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTACATGTAAAAGTTTTGTT
81536 TGATGCACGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.33
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGATATCCCCTACATGTAAAAGTTTTGTT
Found at i:81641 original size:8 final size:7
Alignment explanation
Indices: 81610--81650 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
81600 TTTTCATACA
81610 TGCA-TT
1 TGCATTT
81616 TGCATTT
1 TGCATTT
81623 TGCATTT
1 TGCATTT
81630 TGCATCTT
1 TGCAT-TT
81638 TGCATTT
1 TGCATTT
81645 T-CATTT
1 TGCATTT
81651 ATACTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 9 0.27
7 17 0.52
8 7 0.21
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:88806 original size:22 final size:22
Alignment explanation
Indices: 88781--88855 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
88771 CTACATTCTC
*
88781 CAAAGATGATAGATTCTATCTT
1 CAAAGATGATAGATTCTCTCTT
88803 CAAAGATGATAGATTCTCTCTT
1 CAAAGATGATAGATTCTCTCTT
* *
88825 TAAAGATGATAGATTCTCTTTT
1 CAAAGATGATAGATTCTCTCTT
88847 CAAAGATGA
1 CAAAGATGA
88856 AAGCTTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (22 bp):
CAAAGATGATAGATTCTCTCTT
Found at i:89575 original size:45 final size:45
Alignment explanation
Indices: 89510--89633 Score: 221
Period size: 45 Copynumber: 2.8 Consensus size: 45
89500 CTATTTCCCA
89510 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
89555 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAATCTTTGGGT
1 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGT
89600 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAA
1 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAA
89634 CATTTCCATG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (45 bp):
CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:89827 original size:112 final size:112
Alignment explanation
Indices: 89630--90033 Score: 438
Period size: 123 Copynumber: 3.4 Consensus size: 112
89620 CATGATGTTT
89630 TCAACATTTCCATGTAG--AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 TCAACATTTCCA-G-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
89693 AATGAGAATAACTTGTTCAACCTTTTGCTCGAATCCATCAC-TCGATGGA
64 AATGAGAAGAACTTGTTCAACCTTTTGCT-GAATCCATCACAGCGATAGA
*
89742 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGATGAAGTTCATAA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* *
89807 TGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGCGATAGA
66 TGAGAAGAACTTGTTCAACCTTTTGC-TGAATCCATCAC---A-GCGATAGA
* *
89859 TCAACACCAACACTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
1 T------CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
* * *
89924 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGAGATAGATCAGCA
60 TCATAATGAGAAGAACTTGTTCAACCTTTTGC-TGAATCCATCAC------AG--CGAT-AG-A
**
89988 TCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
90034 AAGAGAAGAA
Statistics
Matches: 254, Mismatches: 17, Indels: 32
0.84 0.06 0.11
Matches are distributed among these distances:
110 2 0.01
111 1 0.00
112 93 0.37
113 1 0.00
117 7 0.03
122 30 0.12
123 109 0.43
125 1 0.00
126 3 0.01
127 3 0.01
128 2 0.01
129 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (112 bp):
TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTGAATCCATCACAGCGATAGA
Found at i:89965 original size:123 final size:123
Alignment explanation
Indices: 89743--90033 Score: 485
Period size: 123 Copynumber: 2.4 Consensus size: 123
89733 CTCGATGGAT
*
89743 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGATGAAGTTCATAAT
1 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
*
89808 GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGCGATAGATCAACAC
66 GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACAC
* *
89866 CAACACTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
1 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * * *
89931 GAGAAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGAGATAGATCAGCAT
66 GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACAC
**
89989 CAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGA
1 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
90034 AAGAGAAGAA
Statistics
Matches: 156, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 30 0.19
123 126 0.81
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (123 bp):
CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACAC
Found at i:90435 original size:3 final size:3
Alignment explanation
Indices: 90417--90469 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
90407 TATCCATTTT
* * * *
90417 TTA TTA TTT TTA -TA TTA TTA TTA TTA ATA TTA TTA TTA CTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
90464 TTA TTA
1 TTA TTA
90470 CAAACATGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:90452 original size:18 final size:18
Alignment explanation
Indices: 90429--90469 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
90419 ATTATTTTTA
*
90429 TATTATTATTATTAATAT
1 TATTATTACTATTAATAT
90447 TATTATTACTATTAATAT
1 TATTATTACTATTAATAT
90465 TATTA
1 TATTA
90470 CAAACATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTACTATTAATAT
Found at i:91827 original size:12 final size:12
Alignment explanation
Indices: 91810--91834 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91800 GATATGTTTA
91810 AATTATTATTTT
1 AATTATTATTTT
91822 AATTATTATTTT
1 AATTATTATTTT
91834 A
1 A
91835 TATAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTATTATTTT
Found at i:91848 original size:20 final size:22
Alignment explanation
Indices: 91825--91875 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
91815 TTATTTTAAT
*
91825 TATTATTTTATAT-A-AATATA
1 TATTATTTTAAATAATAATATA
*
91845 TATT-TGTTTAAATAATAATATT
1 TATTAT-TTTAAATAATAATATA
91867 TATTATTTT
1 TATTATTTT
91876 TTTAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.04
20 10 0.40
21 1 0.04
22 12 0.48
23 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTATTTTAAATAATAATATA
Found at i:95205 original size:15 final size:15
Alignment explanation
Indices: 95185--95214 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95175 CACCATCGAA
95185 CTTCTCAATTTTCAC
1 CTTCTCAATTTTCAC
95200 CTTCTCAATTTTCAC
1 CTTCTCAATTTTCAC
95215 TTTCCCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTCTCAATTTTCAC
Found at i:101471 original size:18 final size:18
Alignment explanation
Indices: 101437--101470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101427 CAAATATATA
*
101437 TATTAAAATTTATAAAAT
1 TATTAAAATATATAAAAT
101455 TATTAAAA-ATATAAAA
1 TATTAAAATATATAAAA
101471 AAATTGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAAAATATATAAAAT
Found at i:105055 original size:2 final size:2
Alignment explanation
Indices: 105048--105073 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105038 TGCTCATGCC
105048 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
105074 ATAACCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105286 original size:2 final size:2
Alignment explanation
Indices: 105279--105347 Score: 110
Period size: 2 Copynumber: 36.5 Consensus size: 2
105269 ATATCAGATA
105279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105319 AT A- AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105348 GTTTAGTGAG
Statistics
Matches: 63, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 4 0.06
2 59 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105313 original size:31 final size:30
Alignment explanation
Indices: 105276--105347 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 30
105266 CAAATATCAG
105276 ATAATATATATATATATATATATATATATAT
1 ATAATATATATATATA-ATATATATATATAT
105307 ATAATATAT-TATATAATATATATATATAT
1 ATAATATATATATATAATATATATATATAT
*
105336 ATTATATATATA
1 ATAATATATATA
105348 GTTTAGTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 22 0.56
30 8 0.21
31 9 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATAATATATATATATAATATATATATATAT
Found at i:105626 original size:2 final size:2
Alignment explanation
Indices: 105619--105667 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
105609 CTTCTGCTAC
105619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105661 TA TA TA T
1 TA TA TA T
105668 CAGTATACTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:107894 original size:14 final size:14
Alignment explanation
Indices: 107852--107897 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
107842 AAATATAGAT
107852 AATATAAAAATTAA
1 AATATAAAAATTAA
* * *
107866 ATTTTACAAATTTAA
1 AATATA-AAAATTAA
107881 AATATAAAAATTAA
1 AATATAAAAATTAA
107895 AAT
1 AAT
107898 TTGAAATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AATATAAAAATTAA
Done.