Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007755.1 Hibiscus syriacus cultivar Beakdansim tig00110021_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: 350557
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:1151 original size:21 final size:21
Alignment explanation
Indices: 1125--1187 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
1115 ATTTTGTGCA
*
1125 GAGGGAATCGATTCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
* **
1146 GAGGGAACCGATTCCTCCTTT
1 GAGGGAACCGATTCCCCCCCT
1167 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1188 ACAGGGGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.53
22 1 0.03
23 15 0.44
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Found at i:1195 original size:21 final size:21
Alignment explanation
Indices: 1169--1208 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1159 CCTCCTTTGA
*
1169 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1190 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1209 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3451 original size:19 final size:22
Alignment explanation
Indices: 3427--3470 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
3417 GGGAGAAGAA
3427 TAAGTGTT-AAGT-A-GGGGAG
1 TAAGTGTTAAAGTAAGGGGGAG
3446 TAAGTGTTAAAGTAAGGGGGAG
1 TAAGTGTTAAAGTAAGGGGGAG
3468 TAA
1 TAA
3471 TTCTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 1 0.05
22 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (22 bp):
TAAGTGTTAAAGTAAGGGGGAG
Found at i:7775 original size:84 final size:80
Alignment explanation
Indices: 7522--8524 Score: 886
Period size: 84 Copynumber: 12.2 Consensus size: 80
7512 ATTTGTCAAT
* *
7522 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATATCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
7587 AGAAGGGTTATCTGC
66 AGAAGGGTTATCTGC
* * * * *** * * *
7602 CAAAGACC-CCTGAGTTTGATTACACTCAGCTTCGGGGGCACATCATTTACAGCATAACTCAAGG
1 CAAAGACCTTC-GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
7666 CTAGAAGGGTTATATGTCAC
64 CGAGAAGGGTTATCTG---C
* * * *
7686 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCT
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *
7751 ATAAGGGTTGTCTGCC
66 AGAAGGGTTATCTG-C
* * * * *
7767 AACAAAAGACATTTGAGTTCTACTACGCTCAGCT-CAACGGCACATCATTTGCAACATAGCTTAA
1 --C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAA
* *
7831 GTCGAGAAGGGCTATATGC
62 GTCGAGAAGGGTTATCTGC
** * * * * * *
7850 CAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACACCATTTGCAGCATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
7915 GAGAAGGGTTATCTGC
65 GAGAAGGGTTATCTGC
* * *
7931 CAATAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCATTTGCAGCATAGCTTA
1 C----AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTA
* *
7995 AGTCGAGAATGGCTATCTGC
61 AGTCGAGAAGGGTTATCTGC
** * * * * * * * *
8015 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGAGCACATTATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-GCACATCATTTGCAGCATAACTTAAGTC
*
8080 TAGAAGGGTTATCTATGAC
65 GAGAAGGGTTATC--TG-C
* * * * * *
8099 CAAAAGACCTTTGAGTTCGACTACGTTCAGCTCTAAGGCACATCATTTACAGTATAGCTTAAGTC
1 C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
8164 GAGAAGGGTTATTTGC
65 GAGAAGGGTTATCTGC
** * * * *
8180 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
8245 AAGAAGGGTTATATGCCAAC
65 GAGAAGGGTTATCTG----C
* * *
8265 CAAAGACCTTTGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* * *
8330 AGAATGGCTATCTTC
66 AGAAGGGTTATCTGC
* * * * * * * * *
8345 CAAAGACC-CCTGAGTTCGATTACACTCAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGG
1 CAAAGACCTTC-GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
8409 CTAGAAGGGTTATCTATTAC
64 CGAGAAGGGTTATC---TGC
* * **
8429 CAAAGACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATGGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
*
8494 AGAAGGGCTATCTGC
66 AGAAGGGTTATCTGC
8509 C--A-ACCTTCGAGTTCGA
1 CAAAGACCTTCGAGTTCGA
8525 TTATATTCAA
Statistics
Matches: 727, Mismatches: 162, Indels: 71
0.76 0.17 0.07
Matches are distributed among these distances:
77 13 0.02
78 1 0.00
79 1 0.00
80 122 0.17
81 199 0.27
82 3 0.00
83 82 0.11
84 230 0.32
85 76 0.10
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
AGAAGGGTTATCTGC
Found at i:7932 original size:165 final size:164
Alignment explanation
Indices: 7522--8511 Score: 1139
Period size: 165 Copynumber: 6.0 Consensus size: 164
7512 ATTTGTCAAT
** * * * * *
7522 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATATCTTAAGTC
1 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
* ** * * * **
7586 GAGAAGGGTTATCTG-C--C-AAAGACCCCTGAGTTTGATTACACTCAGCTTCGGGGGCACATCA
66 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TC-AAGGCACATCA
* * * * * * *
7647 TTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAC
129 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---C
** * * * * * * *
7686 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGTAGCACAACTTAAGTC
1 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
* * * *
7750 TATAAGGGTTGTCTGCCAACAAAAGACATTTGAGTTCTACTACGCTCAGCTCAACGGCACATCAT
66 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-GGCACATCAT
* *
7815 TTGCAACATAGCTTAAGTCGAGAAGGGCTATATGC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
* *
7850 CAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACACCATTTGCAGCATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
* * *
7915 GAGAAGGGTTATCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCAT
66 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-GGCACATCAT
*
7980 TTGCAGCATAGCTTAAGTCGAGAATGGCTATCTGC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
* * * * *
8015 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGAGCACATTATTTACAGCATAACTCAAGGC
1 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
*** * *
8080 TAGAAGGGTTATCTATGACCAAAAGACCTTTGAGTTCGACTACGTTCAGCTCTAAGGCACATCAT
66 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC-AAGGCACATCAT
* * * *
8145 TTACAGTATAGCTTAAGTCGAGAAGGGTTATTTGC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
8180 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
* * * *
8245 AAGAAGGGTTATATGCCAACCAAAGACCTTTGAGTTCGACTATGCTCAGCTCCAAGGCACATCAT
66 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACATCAT
* * * *
8310 TTGCAGCACAACTTAAGTCGAGAATGGCTATCTTC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
* * * * *
8345 CAAAGACCCCTGAGTTCGATTACACTCAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGGC
1 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
*** * * * *
8410 TAGAAGGGTTATCT-ATTACCAAAGACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCACATCAT
66 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACATCAT
*
8474 TTGCAGCATGGCTTAAGTCGAGAAGGGCTATCTGC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
8509 CAA
1 CAA
8512 CCTTCGAGTT
Statistics
Matches: 712, Mismatches: 106, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
164 173 0.24
165 474 0.67
166 3 0.00
167 40 0.06
168 22 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (164 bp):
CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAGGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
Found at i:9865 original size:15 final size:15
Alignment explanation
Indices: 9847--10072 Score: 60
Period size: 15 Copynumber: 14.8 Consensus size: 15
9837 AATTTAACAA
9847 TTTATTATTTTTATT
1 TTTATTATTTTTATT
9862 TTTATT-TCTATTTGATT
1 TTTATTAT-T-TTT-ATT
9879 TTT-TTATTCTTT-TAT
1 TTTATTATT-TTTAT-T
* *
9894 TTTATTTTTTCTTAAT
1 TTTATTATTT-TTATT
* *
9910 TTCACTTATCTTTATTT
1 TTTA-TTATTTTTA-TT
*
9927 TTTATTATTGTTA-T
1 TTTATTATTTTTATT
* *
9941 TTTAATATTCTTT-TA
1 TTTATTATT-TTTATT
9956 TTTATTTATTTATT-TAT
1 TTTA-TTATTT-TTAT-T
* *
9973 TTAATT-TTTTTCTT
1 TTTATTATTTTTATT
* * *
9987 TTGACCTA-TTTT-CT
1 TTTA-TTATTTTTATT
*
10001 TTTATTTATTTTTCTT
1 TTTA-TTATTTTTATT
* * *
10017 TTTTTTCTTTTGATT
1 TTTATTATTTTTATT
*
10032 TATT-TTATTTTT-TA
1 T-TTATTATTTTTATT
* *
10046 CTTATTATTATTATT
1 TTTATTATTTTTATT
*
10061 ATTATTATTTTT
1 TTTATTATTTTT
10073 CCTTTTTCCT
Statistics
Matches: 153, Mismatches: 35, Indels: 46
0.65 0.15 0.20
Matches are distributed among these distances:
13 2 0.01
14 31 0.20
15 58 0.38
16 44 0.29
17 18 0.12
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTATTTTTATT
Found at i:9873 original size:21 final size:20
Alignment explanation
Indices: 9849--9902 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
9839 TTTAACAATT
9849 TATTATTTTTATTTTTATTTC
1 TATTATTTTTATTTTTA-TTC
**
9870 TATT-TGATT-TTTTTATTC
1 TATTATTTTTATTTTTATTC
*
9888 TTTTA-TTTTATTTTT
1 TATTATTTTTATTTTT
9903 TCTTAATTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 3 0.12
21 4 0.15
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.78
Consensus pattern (20 bp):
TATTATTTTTATTTTTATTC
Found at i:9895 original size:16 final size:16
Alignment explanation
Indices: 9855--10044 Score: 65
Period size: 16 Copynumber: 11.7 Consensus size: 16
9845 AATTTATTAT
*
9855 TTTTATTTTTAT-TTC
1 TTTTATTTTTTTATTC
9870 TATTTGATTTTTTTATTC
1 T-TTT-ATTTTTTTATTC
*
9888 TTTTATTTTATTTTTTC
1 TTTTATTTT-TTTATTC
* **
9905 -TTAATTTCACTTA-TC
1 TTTTATTT-TTTTATTC
*
9920 -TTTA-TTTTTTATTA
1 TTTTATTTTTTTATTC
**
9934 TTGTTATTTTAATATTC
1 TT-TTATTTTTTTATTC
*
9951 TTTTATTTATTTATT-
1 TTTTATTTTTTTATTC
*
9966 TATTTATTTAATTTTTTTC
1 T-TTTATTT--TTTTATTC
** *
9985 TTTTGA-CCTATT-TTC
1 TTTT-ATTTTTTTATTC
*
10000 TTTTATTTATTT-TTC
1 TTTTATTTTTTTATTC
* *
10015 TTTTTTTTCTTTTGATTTA
1 TTTTATTT-TTTT-A-TTC
10034 TTTTATTTTTT
1 TTTTATTTTTT
10045 ACTTATTATT
Statistics
Matches: 127, Mismatches: 29, Indels: 35
0.66 0.15 0.18
Matches are distributed among these distances:
13 3 0.02
14 4 0.03
15 27 0.21
16 42 0.33
17 25 0.20
18 15 0.12
19 11 0.09
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTTTATTC
Found at i:9896 original size:13 final size:12
Alignment explanation
Indices: 9846--10072 Score: 51
Period size: 13 Copynumber: 17.5 Consensus size: 12
9836 AAATTTAACA
*
9846 ATTTATTATTTT
1 ATTTTTTATTTT
9858 -TATTTTTATTTCT
1 AT-TTTTTATTT-T
9871 ATTTGATTT-TTTT
1 ATTT--TTTATTTT
9884 ATTCTTTTATTTT
1 ATT-TTTTATTTT
* *
9897 ATTTTTT-CTTA
1 ATTTTTTATTTT
*
9908 ATTTCACTTATCTTT
1 ATTT--TTTAT-TTT
9923 ATTTTTTATTATT
1 ATTTTTTATT-TT
*
9936 GTTATTTTAATATTCT
1 ATT-TTTT-AT-TT-T
9952 -TTTATTTA-TTT
1 ATTT-TTTATTTT
*
9963 ATTTATTTATTTA
1 ATTT-TTTATTTT
*
9976 ATTTTTTTCTTTT
1 A-TTTTTTATTTT
* *
9989 GACCTATTTTCTTTT
1 -A--TTTTTTATTTT
10004 ATTTATTT-TTCTT
1 ATTT-TTTATT-TT
*
10017 -TTTTTTCTTTT
1 ATTTTTTATTTT
10028 GA---TTTATTTT
1 -ATTTTTTATTTT
10038 ATTTTTTACTTATT
1 ATTTTTTA-TT-TT
10052 ATTATTATTATTATT
1 ATT-TT-TTATT-TT
10067 ATTTTT
1 ATTTTT
10073 CCTTTTTCCT
Statistics
Matches: 166, Mismatches: 15, Indels: 67
0.67 0.06 0.27
Matches are distributed among these distances:
9 1 0.01
10 7 0.04
11 13 0.08
12 39 0.23
13 41 0.25
14 23 0.14
15 37 0.22
16 5 0.03
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:9903 original size:21 final size:22
Alignment explanation
Indices: 9851--9903 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
9841 TAACAATTTA
*
9851 TTATTTTTATTTTTATTTCTATT
1 TTATTTTT-TTATTATTTCTATT
* *
9874 TGATTTTTTTATTCTTT-TATT
1 TTATTTTTTTATTATTTCTATT
9895 TTATTTTTT
1 TTATTTTTT
9904 CTTAATTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 12 0.46
22 7 0.27
23 7 0.27
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (22 bp):
TTATTTTTTTATTATTTCTATT
Found at i:10042 original size:24 final size:24
Alignment explanation
Indices: 9995--10044 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
9985 TTTTGACCTA
*
9995 TTTTCTTTTATTTATTTTTCTTTT
1 TTTTCTTTTATTTATTTTTATTTT
10019 TTTTCTTTTGATTTA-TTTTATTTT
1 TTTTCTTTT-ATTTATTTTTATTTT
10043 TT
1 TT
10045 ACTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTCTTTTATTTATTTTTATTTT
Found at i:31508 original size:54 final size:53
Alignment explanation
Indices: 31440--31579 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 53
31430 GGTGCTTGAT
*
31440 TTTAGATTGTAGCACAGAGGTGCTCAATCAT-TCCAATGCACAGAGGTGCCAG
1 TTTAGATTGAAGCACAGAGGTGCTCAATCATATCCAATGCACAGAGGTGCCAG
* **** *
31492 AATTTAGATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAG
1 --TTTAGATTGAAGCACAGAGGTGCTCAATCATA-TCCAATGCACAGAGGTGCCAG
* *
31548 TCCTCGATTGAAGCACAGAGGTGCTCAATCAT
1 T-TTAGATTGAAGCACAGAGGTGCTCAATCAT
31580 CTTAGCTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
54 30 0.41
55 27 0.37
56 16 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (53 bp):
TTTAGATTGAAGCACAGAGGTGCTCAATCATATCCAATGCACAGAGGTGCCAG
Found at i:31563 original size:27 final size:27
Alignment explanation
Indices: 31500--31632 Score: 114
Period size: 27 Copynumber: 4.9 Consensus size: 27
31490 AGAATTTAGA
*
31500 TTGAAGCACAGAGGTGCTCAGTCATAG
1 TTGAAGCACAGAGGTGCTCAGTCATCG
** *
31527 TTGGCTGCACAGAGGTG-TCAGTCCTCG
1 TT-GAAGCACAGAGGTGCTCAGTCATCG
*
31554 ATTGAAGCACAGAGGTGCTCAATCATC-
1 -TTGAAGCACAGAGGTGCTCAGTCATCG
*
31581 TTAGCTA-CACAGAGGTG-TCAGCTC-TCGG
1 TT-G-AAGCACAGAGGTGCTCAG-TCATC-G
*
31609 CTGAAGCACAGAGGTGCTCAGTCA
1 TTGAAGCACAGAGGTGCTCAGTCA
31633 ATTTTTTTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
26 8 0.10
27 48 0.58
28 27 0.33
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (27 bp):
TTGAAGCACAGAGGTGCTCAGTCATCG
Found at i:31568 original size:55 final size:55
Alignment explanation
Indices: 31444--31746 Score: 308
Period size: 55 Copynumber: 5.5 Consensus size: 55
31434 CTTGATTTTA
* ** * * * * * *
31444 GATTGTAGCACAGAGGTGCTCAATCA-TTCCA-ATGCACAGAGGTGCCAGAATTTA
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAG-CTCTC
* ** * *
31498 GATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAG-TCCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCT-CTC
*
31553 GATTGAAGCACAGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCTC
** * * * *
31607 GGCTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAACTACACAGATGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATC-A---TTTTT-AGCTACACAGAGGTGTCAGCTCTC
* *
31667 GATTGAAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCTC
31722 GATTGAAGCACAGAGGTGCTCAATC
1 GATTGAAGCACAGAGGTGCTCAATC
31747 GTTAATTCTA
Statistics
Matches: 208, Mismatches: 31, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
54 69 0.33
55 73 0.35
56 19 0.09
59 4 0.02
60 43 0.21
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (55 bp):
GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCTC
Found at i:31739 original size:27 final size:28
Alignment explanation
Indices: 31498--31743 Score: 104
Period size: 27 Copynumber: 8.8 Consensus size: 28
31488 CCAGAATTTA
*
31498 GATTGAAGCACAGAGGTGCTCAG-TCATA
1 GATTGAAGCACAGAGGTGCTCAGCTC-TC
**
31526 G-TTGGCTGCACAGAGGTG-TCAG-TCCTC
1 GATT-GAAGCACAGAGGTGCTCAGCT-CTC
*
31553 GATTGAAGCACAGAGGTGCTCA-ATCATC
1 GATTGAAGCACAGAGGTGCTCAGCTC-TC
*
31581 --TTAGCTA-CACAGAGGTG-TCAGCTCTC
1 GATT-G-AAGCACAGAGGTGCTCAGCTCTC
** * *
31607 GGCTGAAGCACAGAGGTGCTCAGTCAATTTT
1 GATTGAAGCACAGAGGTGCTCAG-C--TCTC
** * * * *
31638 TTTTAAACTACACAGATGTG-TCAGTTCTC
1 GATTGAA--GCACAGAGGTGCTCAGCTCTC
* *
31667 GATTGAAGCACAGAGGTGCTCA-ATCAC
1 GATTGAAGCACAGAGGTGCTCAGCTCTC
** *
31694 TTTTGGCTA-CACAGAGGTG-TCAGCTCTC
1 GATT-G-AAGCACAGAGGTGCTCAGCTCTC
31722 GATTGAAGCACAGAGGTGCTCA
1 GATTGAAGCACAGAGGTGCTCA
31744 ATCGTTAATT
Statistics
Matches: 159, Mismatches: 35, Indels: 48
0.66 0.14 0.20
Matches are distributed among these distances:
26 9 0.06
27 74 0.47
28 50 0.31
29 8 0.05
31 5 0.03
32 4 0.03
33 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (28 bp):
GATTGAAGCACAGAGGTGCTCAGCTCTC
Found at i:31743 original size:115 final size:114
Alignment explanation
Indices: 31534--31743 Score: 357
Period size: 115 Copynumber: 1.8 Consensus size: 114
31524 TAGTTGGCTG
31534 CACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGT
1 CACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGT
*
31599 CAGCTCTCGGCTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAACTA
66 CAGCTCTCGACTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAACTA
* * * *
31648 CACAGATGTGTCAGTTCTCGATTGAAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTG
1 CACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTG
*
31713 TCAGCTCTCGATTGAAGCACAGAGGTGCTCA
65 TCAGCTCTCGACTGAAGCACAGAGGTGCTCA
31744 ATCGTTAATT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 43 0.48
115 46 0.52
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (114 bp):
CACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGT
CAGCTCTCGACTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAACTA
Found at i:39895 original size:19 final size:20
Alignment explanation
Indices: 39873--39913 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
39863 CTTGTTTTCT
39873 TAAAAAATTTAAAT-TTTTA
1 TAAAAAATTTAAATATTTTA
* *
39892 TAAATAATTTAAGTATTTTA
1 TAAAAAATTTAAATATTTTA
39912 TA
1 TA
39914 TTAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAAAAATTTAAATATTTTA
Found at i:46732 original size:20 final size:20
Alignment explanation
Indices: 46707--46744 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46697 GAATGCTAGA
*
46707 GGGGAATCGATACCCCCAAG
1 GGGGAACCGATACCCCCAAG
*
46727 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
46745 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.29, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAAG
Found at i:47196 original size:23 final size:23
Alignment explanation
Indices: 47163--47214 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
47153 ATTATTATAT
*
47163 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTAAGC
* *
47186 GGCACTCCGGTGCAATTCTAAGT
1 GGCACTACGGTGCAATTCTAAGC
47209 GGCACT
1 GGCACT
47215 TAGCTGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTAAGC
Found at i:47222 original size:23 final size:23
Alignment explanation
Indices: 47173--47225 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
47163 GGCACTACGG
* * *
47173 TGCAATTCTACGCGGCACTCCGG
1 TGCAATTCTAAGCGGCACTCAGC
* *
47196 TGCAATTCTAAGTGGCACTTAGC
1 TGCAATTCTAAGCGGCACTCAGC
47219 TGCAATT
1 TGCAATT
47226 ATACGAGCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
TGCAATTCTAAGCGGCACTCAGC
Found at i:53306 original size:21 final size:21
Alignment explanation
Indices: 53267--53306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53257 CTGGGCTAGG
*
53267 GGAATCGATACCCATTCAAGA
1 GGAATCGATACCCACTCAAGA
*
53288 GGAATCGATACCCCCTCAA
1 GGAATCGATACCCACTCAA
53307 ACGAATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (21 bp):
GGAATCGATACCCACTCAAGA
Found at i:53359 original size:20 final size:20
Alignment explanation
Indices: 53334--53371 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53324 GAACGCTAGA
*
53334 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
53354 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
53372 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:54036 original size:103 final size:103
Alignment explanation
Indices: 53856--54069 Score: 392
Period size: 103 Copynumber: 2.1 Consensus size: 103
53846 AGGGTCTATG
* *
53856 TGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACCTACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
*
53921 TCCTTGGTATATGTATATGATTCTTAAGGAATGATATA
66 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATA
53959 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
*
54024 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
66 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATA
54062 TGGTCCTT
1 TGGTCCTT
54070 ATGGACATTA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (103 bp):
TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
TCCTTGGCATATGTATATGATTCTTAAGGAATGATATA
Found at i:54119 original size:23 final size:23
Alignment explanation
Indices: 54086--54137 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
54076 ATTATTATAT
*
54086 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTAAGC
* *
54109 GGCACTCCGGTGCAATTCTAAGT
1 GGCACTACGGTGCAATTCTAAGC
54132 GGCACT
1 GGCACT
54138 TAGCTGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTAAGC
Found at i:54145 original size:23 final size:23
Alignment explanation
Indices: 54096--54148 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
54086 GGCACTACGG
* * *
54096 TGCAATTCTACGCGGCACTCCGG
1 TGCAATTCTAAGCGGCACTCAGC
* *
54119 TGCAATTCTAAGTGGCACTTAGC
1 TGCAATTCTAAGCGGCACTCAGC
54142 TGCAATT
1 TGCAATT
54149 ATATGAGCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
TGCAATTCTAAGCGGCACTCAGC
Found at i:58656 original size:14 final size:15
Alignment explanation
Indices: 58631--58659 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58621 TAATTAAATT
58631 TTTTATAAATATATA
1 TTTTATAAATATATA
58646 TTTTA-AAATATATA
1 TTTTATAAATATATA
58660 ATAGACTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTATAAATATATA
Found at i:59275 original size:12 final size:12
Alignment explanation
Indices: 59258--59299 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
59248 AGTTTTGAAA
59258 ATAAAAATTAAT
1 ATAAAAATTAAT
* *
59270 ATAAAAA-GAAA
1 ATAAAAATTAAT
59281 ATAAAAATTAAT
1 ATAAAAATTAAT
*
59293 AGAAAAA
1 ATAAAAA
59300 GAATAGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (12 bp):
ATAAAAATTAAT
Found at i:59280 original size:23 final size:23
Alignment explanation
Indices: 59254--59302 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
59244 AATGAGTTTT
*
59254 GAAAATAAAAATTAATATAAAAA
1 GAAAATAAAAATTAATAGAAAAA
59277 GAAAATAAAAATTAATAGAAAAA
1 GAAAATAAAAATTAATAGAAAAA
59300 GAA
1 GAA
59303 TAGAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (23 bp):
GAAAATAAAAATTAATAGAAAAA
Found at i:59309 original size:23 final size:23
Alignment explanation
Indices: 59254--59309 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
59244 AATGAGTTTT
* *
59254 GAAAATAAAAATTAATATAAAAA
1 GAAAAGAAAAATTAATAGAAAAA
*
59277 GAAAATAAAAATTAATAGAAAAA
1 GAAAAGAAAAATTAATAGAAAAA
*
59300 GAATAGAAAA
1 GAAAAGAAAA
59310 GAGAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (23 bp):
GAAAAGAAAAATTAATAGAAAAA
Found at i:61212 original size:23 final size:23
Alignment explanation
Indices: 61186--61244 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
61176 ATCAAGTACA
* *
61186 ATAACATATTAGGTAGCGCTTGT
1 ATAACATAATAGGTAGCGCTTAT
** *
61209 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
61232 ATAATAAAATAGG
1 ATAACATAATAGG
61245 CATTTAACCG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:61320 original size:87 final size:86
Alignment explanation
Indices: 61159--61320 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 86
61149 TATGTTATAT
* * * *
61159 CATTTAACCATAAATTTATCAAGTACAATAACATATTAGGTAGCGCTTGTATAATGTAATATGTA
1 CATTTAACCAGAAATTTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGTA
61224 GCGCTTATATAATAAAATAGG
66 GCGCTTATATAATAAAATAGG
*
61245 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGT
1 CATTTAACCAGAAAT-TTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGT
61310 AGCGCTTATAT
65 AGCGCTTATAT
61321 TGACATATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 13 0.19
87 57 0.81
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (86 bp):
CATTTAACCAGAAATTTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAAGTA
GCGCTTATATAATAAAATAGG
Found at i:61766 original size:199 final size:199
Alignment explanation
Indices: 61315--62037 Score: 942
Period size: 200 Copynumber: 3.6 Consensus size: 199
61305 TAAGTAGCGC
* * * *
61315 TTATATTGACATATTTTCTAAGT-AAACCGGTATATTTATACCGGTAACATTGTAAATTTACATA
1 TTATGTTGACATATTTTCTAA-TAAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* *
61379 TTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACACT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACT
* * * * *
61442 TTATGCTTGCACTTCG-TTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGT
129 TTATGCGTGCACCTCGTTTGG-CATTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGT
*
61506 TGATACA
193 CGATACA
* * *
61513 TTAT-TTAGACATATTTTCTTATAAAAACGGTATATCTATACCGGGTACATTGTAAATTTACCTA
1 TTATGTT-GACATATTTTCTAATAAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * * * *
61577 TCACATTGTAATTTTC-GTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTC
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
* *
61641 TATGCGTGCACCCCGTTTGGCATTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTC
130 TATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAA-GTATCGACACAAATTTAACAAGTGTC
*
61706 GATACT
194 GATACA
* * * * *
61712 TTATGCTGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
1 TTATGTTGACATATTTTCTAATAAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * *
61777 TATATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACATTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* **
61842 ATGTGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTC
131 ATGCGTGCACCTCGTTT-GGCATTCATTCTGGACAA-AAGTATCGACACAAATTTAACAAGTGTC
61907 GATACA
194 GATACA
* * * * *
61913 TTATGTTGACATGTTTTCTAAT-TAACCGATATATTTATACCGGTTACATTGTTAATTTACCTAT
1 TTATGTTGACATATTTTCTAATAAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
61977 TACATTATAATTATTGGTTTCGATTTTTTTGGG-TCGATACTTTTAGA-AAATGTATCGACAC
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
62038 ATATTTAGGT
Statistics
Matches: 457, Mismatches: 57, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
196 3 0.01
197 26 0.06
198 110 0.24
199 123 0.27
200 130 0.28
201 63 0.14
202 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (199 bp):
TTATGTTGACATATTTTCTAATAAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
ATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGA
TACA
Found at i:64062 original size:21 final size:22
Alignment explanation
Indices: 64027--64067 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
64017 AACACGCGAT
64027 ATTTAAAAATGTATCGACACAA
1 ATTTAAAAATGTATCGACACAA
64049 ATTTAAAAAT-TATCGACAC
1 ATTTAAAAATGTATCGACAC
64068 TTTATGCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (22 bp):
ATTTAAAAATGTATCGACACAA
Found at i:64622 original size:200 final size:200
Alignment explanation
Indices: 64031--65198 Score: 1558
Period size: 200 Copynumber: 5.8 Consensus size: 200
64021 CGCGATATTT
* * * * * *
64031 AAAAATGTATCGACACAAATTTA-AAAATTATCGACACTTTATGCT-GACCTATTTTGTCATAAA
1 AAAAA-GTATCGACACAAA-TTACAAAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAA
* * * *
64094 ACCAGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATGATTAT-GAGTTTCGAT
63 ACCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCG-GTTTCGAT
* * * *
64158 GTTTTTGAGATCGACACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCTTTTGGGCATTC
127 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTC
* *
64223 CTTCTAGAC
192 ATTCTGGAC
* * * * * *
64232 AAAAAGTATCGAAACAAAATACACAA--GT-GATATATTTTGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * *
64294 GATATATTTATGCCGGTTACATTGTAAATTTACCTATTACATTATAATTATAATTATCCGTTTCG
66 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTAC------ATTATAATTATCGGTTTCG
*
64359 ATGTTTTTGTGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCAT
125 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCAT
*
64424 TCATTCTTGAC
190 TCATTCTGGAC
* * *
64435 AAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAGATC
1 AAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
** * *
64500 GGTATAGTTATACTTGTTACATTGTAAATTTACCTATTACATTATAATTATCGGCTTCGATATTT
66 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * * * *
64565 TTAGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCTTTTTGGGCATTCCTTC
131 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTC
64630 TGGAC
196 TGGAC
* ** **
64635 AAAAAGTATCGACACAGATT-CTAAAAGTGTCGATACATTATACAGATATATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAATTAC-AAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * *
64699 CGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGCT
65 CGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
64764 TTTGGGATCGATACTTTTTATAAATGTATCGAAACTTTATGCGTGCACCCTTTTGGGCATTCATT
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATT
*
64829 ATGGAC
195 CTGGAC
*
64835 AAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * *
64900 GATATAGTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATATTT
66 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
64965 TTGGGATTGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTC
131 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTC
**
65030 TTAAC
196 TGGAC
* * * *
65035 AAAAAGTATCGACACAAATTTCAAAAATATCGATATATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * *
65100 GGTATAGTTGTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGGTT
66 GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
65165 TTGGGATCGATACTTTTTATAAATATATCGACAC
131 TTGGGATCGATACTTTTTATAAATGTATCGACAC
65199 ATTTGCTTAC
Statistics
Matches: 851, Mismatches: 102, Indels: 29
0.87 0.10 0.03
Matches are distributed among these distances:
196 1 0.00
197 61 0.07
198 1 0.00
199 3 0.00
200 606 0.71
201 5 0.01
203 109 0.13
205 2 0.00
206 63 0.07
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTC
TGGAC
Found at i:65182 original size:600 final size:602
Alignment explanation
Indices: 64087--65198 Score: 1730
Period size: 600 Copynumber: 1.8 Consensus size: 602
64077 ACCTATTTTG
* *
64087 TCATAAAACCAGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATGATTATGAGT
1 TCATAAAACCAGTATATTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATGAGT
* *
64152 TTCGATGTTTTTGAGATCGACACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCTTTTGG
66 TTCGATGCTTTTGAGATCGACACTTTTTAAAAATGTATCGAAACTTTATGAGTGCACCCTTTTGG
* * * * * *
64217 GCATTCCTTCTAGACAAAAAGTATCGAAACAAAATACACAAGTGATATATTTTGTAGACCTATTC
131 GCATTCATTATAGACAAAAAGTATCGAAACAAAATAAAAAAGTGATACATTATGTAGACCTATTC
* * *
64282 TCTCATAAAACTGATATATTTATGCCGGTTACATTGTAAATTTACCTATTACATTATAATTATAA
196 TCTCATAAAACCGATATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAA
* *
64347 TTATCCGTTTCGATGTTTTTGTGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCAC
261 TTA-CCGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCAC
* * *
64412 CCTTTTGGGCATTCATTCTTGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATG
325 CCTTTTGGGCATTCATTCTTAACAAAAAGTATCGACACAAATTACAAAAATATCGATACATTATG
* * **
64477 TAGACATATTCTCTCATAAGATCGGTATAGTTATACTTGTTACATTGTAAATTTACCTATTACAT
390 TAGACATATTCTCTCATAAAACCGGTATAGTTATACCAGTTACATTGTAAATTTACCTATTACAT
* *
64542 TATAATTATCGGCTTCGATATTTTTAGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGG
455 TATAATTATCGGCTTCGATAGTTTTAGGATCGACACTTTTTAAAAATATATCGACACTTTATGGG
64607 TGCACCTTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAGATTCTAAAAGTGTCGATACA
520 TGCACCTTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAGATTCTAAAAGTGTCGATACA
64672 TTATACAGATATATTCTC
585 TTATACAGATATATTCTC
* * *
64690 TCATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGT
1 TCATAAAACCAGTATATTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATGAGT
* * * *
64755 TTCGATGCTTTTGGGATCGATACTTTTTATAAATGTATCGAAACTTTATGCGTGCACCCTTTTGG
66 TTCGATGCTTTTGAGATCGACACTTTTTAAAAATGTATCGAAACTTTATGAGTGCACCCTTTTGG
* * *
64820 GCATTCATTATGGACAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACCTA
131 GCATTCATTATAGACAAAAAGTATCGAAACAAAATAAAAAA--GT-GATACATTATGTAGACCTA
*
64885 TTCTCTCATAAAACCGATATAGTTATATCGGTTACATTGTAAATTTACCTATTACATTATAA-T-
193 TTCTCTCATAAAACCGATATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTA
* *
64948 T-A-TA-GGTTTCGATATTTTTGGGATTGATACTTTTTATAAATGTATCGACACTTTATGTGTGC
258 TAATTACCGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGC
* *
65010 ACCCTTTTGGGCATTCATTCTTAACAAAAAGTATCGACACAAATTTCAAAAATATCGATATATTA
323 ACCCTTTTGGGCATTCATTCTTAACAAAAAGTATCGACACAAATTACAAAAATATCGATACATTA
* *
65075 TGTAGACCTATTCTCTCATAAAACCGGTATAGTTGTACCAGTTACATTGTAAATTTACCTATTAC
388 TGTAGACATATTCTCTCATAAAACCGGTATAGTTATACCAGTTACATTGTAAATTTACCTATTAC
* * * * * *
65140 ATTATAATTATGGGTTTCGATGGTTTTGGGATCGATACTTTTTATAAATATATCGACAC
453 ATTATAATTATCGGCTTCGATAGTTTTAGGATCGACACTTTTTAAAAATATATCGACAC
65199 ATTTGCTTAC
Statistics
Matches: 459, Mismatches: 47, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
600 224 0.49
602 2 0.00
603 154 0.34
604 1 0.00
605 3 0.01
606 75 0.16
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (602 bp):
TCATAAAACCAGTATATTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATGAGT
TTCGATGCTTTTGAGATCGACACTTTTTAAAAATGTATCGAAACTTTATGAGTGCACCCTTTTGG
GCATTCATTATAGACAAAAAGTATCGAAACAAAATAAAAAAGTGATACATTATGTAGACCTATTC
TCTCATAAAACCGATATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAA
TTACCGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACC
CTTTTGGGCATTCATTCTTAACAAAAAGTATCGACACAAATTACAAAAATATCGATACATTATGT
AGACATATTCTCTCATAAAACCGGTATAGTTATACCAGTTACATTGTAAATTTACCTATTACATT
ATAATTATCGGCTTCGATAGTTTTAGGATCGACACTTTTTAAAAATATATCGACACTTTATGGGT
GCACCTTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAGATTCTAAAAGTGTCGATACAT
TATACAGATATATTCTC
Found at i:65668 original size:19 final size:19
Alignment explanation
Indices: 65644--65692 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
65634 TTACATTCAC
65644 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
**
65663 ATACAAAATTATAAATTTT
1 ATACAAAATTATAAATCGT
*
65682 ATACATAATTA
1 ATACAAAATTA
65693 ACCCCACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:68740 original size:22 final size:22
Alignment explanation
Indices: 68715--68757 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
68705 ATGACTTGGT
68715 TATATATGTCATA-TGAAATATA
1 TATATATG-CATATTGAAATATA
68737 TATATATGCATATTGAAATAT
1 TATATATGCATATTGAAATAT
68758 CATGATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
TATATATGCATATTGAAATATA
Found at i:69411 original size:18 final size:18
Alignment explanation
Indices: 69388--69422 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
69378 TCCTCCTCAT
*
69388 TTCCTCCATTTTTTCTTC
1 TTCCTCCATCTTTTCTTC
69406 TTCCTCCATCTTTTCTT
1 TTCCTCCATCTTTTCTT
69423 TTTCATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:70116 original size:22 final size:23
Alignment explanation
Indices: 70088--70143 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
70078 AACCTGCATT
*
70088 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
70110 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
*
70134 TATAAAAAAA
1 TATAATAAAA
70144 ACATTCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:72434 original size:182 final size:182
Alignment explanation
Indices: 72125--72844 Score: 969
Period size: 182 Copynumber: 4.0 Consensus size: 182
72115 GCTCTTTACT
* *
72125 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAGTATTGACAC
1 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAATATCGACAC
* *
72190 TTTATAGGTGCTAAAACTGTTTCTCTTTTAAATT-CTCCAAGTGTCGATACTTATATTAAAGTAT
66 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCCT-AAAGTGTCGATACTTATATTAAAGTAT
* *
72254 CGACACTTTTAATATATCCGATAGCTCTTTACCGGTTTTGTCATTTCGAGACC
130 CGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACC
* *
72307 GATTTTGTCATATTTTTACCTATTATATCGTTATGGATCGATACATTATCATAAAATATCGACAC
1 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAATATCGACAC
* *
72372 TTTATAGGCGCTAAAACTATTTCTCTTTAAAATTCCTAAAGTGTCGATACTTATATTAAAGTATC
66 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCCTAAAGTGTCGATACTTATATTAAAGTATC
* *
72437 GACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTC-TTTCCGAGACC
131 GACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCATTT-CGAGACC
* * * * *
72489 GGTTTTGTCATATTTTTACATGTTGTATCGTTATGGATCGATACATTTTTATAAAATATTGACAC
1 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAATATCGACAC
* * *
72554 TTTATAGGCACTAAAACTGTTTCTCTTTTAAATTCCCAAAGTGTCGATACTTATATTAAAGTATT
66 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCCTAAAGTGTCGATACTTATATTAAAGTATC
* * * * *
72619 GACACTTTCAATATATCTGGTAGCGCTTTATCGGTGTTGTCTTTTCGAGACC
131 GACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACC
* * * * * * *
72671 GGTTTTGTCATATTTTTACCTGTTGTATCGTTATGGATCGATATATTTTTATAAAGTATCGATAT
1 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAATATCGACAC
* * ** * * * **
72736 TTTATAGGTGTTATTACTGCTTCTCTTTTAAATTCAC-AAAGTGTCGATATTTATTTTAATCTAA
66 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTC-CTAAAGTGTCGATACTTATATTAAAGT-A
* * * * *
72800 TCGATACTTTTAACATATCTGATAGCGCTTTACCGATTTTGTCAT
129 TCGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCAT
72845 ATTTTTATCT
Statistics
Matches: 481, Mismatches: 52, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
181 3 0.01
182 435 0.90
183 43 0.09
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTATCATAAAATATCGACAC
TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCCTAAAGTGTCGATACTTATATTAAAGTATC
GACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACC
Found at i:75780 original size:9 final size:9
Alignment explanation
Indices: 75750--75789 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
75740 AGGGCTGGAA
*
75750 ACCGATTTG
1 ACCGGTTTG
75759 ACCGGTTTCG
1 ACCGGTTT-G
75769 ACCGGTTTG
1 ACCGGTTTG
*
75778 ACCGGTCTG
1 ACCGGTTTG
75787 ACC
1 ACC
75790 CGACCCGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:75796 original size:5 final size:5
Alignment explanation
Indices: 75786--75836 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
75776 TGACCGGTCT
* *
75786 GACCC GACCC GA-CT GACCC GACCC GA-CT GACCC GA-CC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
75833 GACC
1 GACC
75837 GTTGACCGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 10 0.26
5 29 0.74
ACGTcount: A:0.22, C:0.53, G:0.22, T:0.04
Consensus pattern (5 bp):
GACCC
Found at i:75817 original size:23 final size:23
Alignment explanation
Indices: 75791--75835 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
75781 GGTCTGACCC
*
75791 GACCCGACTGACCCGACCCGACT
1 GACCCGACCGACCCGACCCGACT
75814 GACCCGACCGACCCGACCCGAC
1 GACCCGACCGACCCGACCCGAC
75836 CGTTGACCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.04
Consensus pattern (23 bp):
GACCCGACCGACCCGACCCGACT
Found at i:75831 original size:9 final size:9
Alignment explanation
Indices: 75803--75836 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
75793 CCCGACTGAC
75803 CCGACCCGA
1 CCGACCCGA
*
75812 CTGACCCGA
1 CCGACCCGA
75821 CCGACCCGA
1 CCGACCCGA
75830 CCCGACC
1 -CCGACC
75837 GTTGACCGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.21, C:0.56, G:0.21, T:0.03
Consensus pattern (9 bp):
CCGACCCGA
Found at i:75837 original size:14 final size:14
Alignment explanation
Indices: 75784--75836 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
75774 TTTGACCGGT
75784 CTGACCCGACCCGA
1 CTGACCCGACCCGA
75798 CTGACCCGACCCGA
1 CTGACCCGACCCGA
75812 CTGACCCGA-CCGA
1 CTGACCCGACCCGA
*
75825 CCCGACCCGACC
1 -CTGACCCGACC
75837 GTTGACCGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
13 4 0.11
14 31 0.86
15 1 0.03
ACGTcount: A:0.21, C:0.53, G:0.21, T:0.06
Consensus pattern (14 bp):
CTGACCCGACCCGA
Found at i:77753 original size:23 final size:23
Alignment explanation
Indices: 77727--77788 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
77717 TTCGTTTTTA
*
77727 TTTATTGTTCACGAACATGTTCG
1 TTTATTGTTCACGAACATATTCG
* * **
77750 TTTAATATTCACGAATGTATTCG
1 TTTATTGTTCACGAACATATTCG
*
77773 TTTATATGTTTACGAA
1 TTTAT-TGTTCACGAA
77789 TGTGTTCATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (23 bp):
TTTATTGTTCACGAACATATTCG
Found at i:77791 original size:24 final size:23
Alignment explanation
Indices: 77746--77800 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
77736 CACGAACATG
77746 TTCGTTTAATATTCACGAATGTA
1 TTCGTTTAATATTCACGAATGTA
* * *
77769 TTCGTTTATATGTTTACGAATGTG
1 TTCGTTTA-ATATTCACGAATGTA
*
77793 TTCATTTA
1 TTCGTTTA
77801 GAGTTCACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (23 bp):
TTCGTTTAATATTCACGAATGTA
Found at i:77820 original size:23 final size:23
Alignment explanation
Indices: 77794--77870 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
77784 ACGAATGTGT
* *
77794 TCATTTAGAGTTCACTAATATGC
1 TCATTTAGAGTTCACGAACATGC
* *
77817 TCATTTAGAATTCACGAACATGT
1 TCATTTAGAGTTCACGAACATGC
* * *
77840 TCATTTAGAGTTAATGAGCATGC
1 TCATTTAGAGTTCACGAACATGC
*
77863 TCGTTTAG
1 TCATTTAG
77871 TATTTGTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (23 bp):
TCATTTAGAGTTCACGAACATGC
Found at i:82107 original size:74 final size:74
Alignment explanation
Indices: 82022--82171 Score: 273
Period size: 74 Copynumber: 2.0 Consensus size: 74
82012 TATACAAGGA
* * *
82022 ATGAAATTTAATATGATTTGGTCTTAACTACTTTTATGAGAAAACAATGATCTACTATAAATGTA
1 ATGAAATTTAATATGATTTGGTCTTAACCACTTATATGAAAAAACAATGATCTACTATAAATGTA
82087 AAGATTTGT
66 AAGATTTGT
82096 ATGAAATTTAATATGATTTGGTCTTAACCACTTATATGAAAAAACAATGATCTACTATAAATGTA
1 ATGAAATTTAATATGATTTGGTCTTAACCACTTATATGAAAAAACAATGATCTACTATAAATGTA
82161 AAGATTTGT
66 AAGATTTGT
82170 AT
1 AT
82172 CACAAAGAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (74 bp):
ATGAAATTTAATATGATTTGGTCTTAACCACTTATATGAAAAAACAATGATCTACTATAAATGTA
AAGATTTGT
Found at i:87630 original size:2 final size:2
Alignment explanation
Indices: 87623--87652 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87613 TAAAAAGACG
87623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87653 TTAGAGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88958 original size:5 final size:6
Alignment explanation
Indices: 88940--88964 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88930 TTCCTTCCAA
88940 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
88965 GAGAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:110769 original size:39 final size:39
Alignment explanation
Indices: 110726--110803 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
110716 AATCAAGCTG
* *
110726 ATTCTACTTCTTCACTTTGAGTTTACGGAATAGATTGTA
1 ATTCTACTTCTTCACTTCGAGTTTACAGAATAGATTGTA
*
110765 ATTCTCCTTCTTCACTTCGAGTTTACAGAATAGATTGTA
1 ATTCTACTTCTTCACTTCGAGTTTACAGAATAGATTGTA
110804 TTAACCTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (39 bp):
ATTCTACTTCTTCACTTCGAGTTTACAGAATAGATTGTA
Found at i:113826 original size:25 final size:25
Alignment explanation
Indices: 113798--113858 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
113788 TGATAATTTG
113798 TAACTATTTTATTAATTATAAAAAT
1 TAACTATTTTATTAATTATAAAAAT
* *
113823 TAACTATCTTATTAATTGTAAAAAT
1 TAACTATTTTATTAATTATAAAAAT
113848 TAA-TATTTTAT
1 TAACTATTTTAT
113859 GTCAAATTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 7 0.21
25 26 0.79
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (25 bp):
TAACTATTTTATTAATTATAAAAAT
Found at i:114470 original size:35 final size:35
Alignment explanation
Indices: 114421--114494 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
114411 TGGATCGAAG
* *
114421 AAATGGATAGAAACAATTGTCTCTCTAAAAATTTT
1 AAATGGATAAAAACAATTGTATCTCTAAAAATTTT
114456 AAATGGATAAAAACAATTGTATCTCTAAAAATTTT
1 AAATGGATAAAAACAATTGTATCTCTAAAAATTTT
114491 AAAT
1 AAAT
114495 TAACATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (35 bp):
AAATGGATAAAAACAATTGTATCTCTAAAAATTTT
Found at i:117445 original size:15 final size:14
Alignment explanation
Indices: 117421--117454 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
117411 TTATTTTAAC
*
117421 TAAAACTTAAAATAT
1 TAAAAATTAAAA-AT
117436 TAAAAATTAAAAAT
1 TAAAAATTAAAAAT
117450 TAAAA
1 TAAAA
117455 TGTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAATTAAAAAT
Found at i:117455 original size:6 final size:7
Alignment explanation
Indices: 117421--117454 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
117411 TTATTTTAAC
*
117421 TAAAACT
1 TAAAAAT
117428 TAAAATAT
1 TAAAA-AT
117436 TAAAAAT
1 TAAAAAT
117443 TAAAAAT
1 TAAAAAT
117450 TAAAA
1 TAAAA
117455 TGTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAAAAT
Found at i:125458 original size:22 final size:22
Alignment explanation
Indices: 125432--125474 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
125422 TTCTTTTGAG
125432 ACTCTAATCTTAATTTTGTTAA
1 ACTCTAATCTTAATTTTGTTAA
125454 ACTCTAATCTTAATTTTGTTA
1 ACTCTAATCTTAATTTTGTTA
125475 TTGGGTAAAG
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:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (22 bp):
ACTCTAATCTTAATTTTGTTAA
Found at i:127538 original size:33 final size:31
Alignment explanation
Indices: 127478--127572 Score: 129
Period size: 33 Copynumber: 3.0 Consensus size: 31
127468 ATGAAAAATA
*
127478 AGTTGGCCACCTACCAAA-GAATTTTCCAAT
1 AGTTGGCCACCAACCAAATGAATTTTCCAAT
127508 GAGTTGGCCACCAACCAAGATGAATTTTCCAAT
1 -AGTTGGCCACCAACCAA-ATGAATTTTCCAAT
*
127541 ATGTTGGCCACCAACCAAAATGAAATTTCCAA
1 A-GTTGGCCACCAACC-AAATGAATTTTCCAA
127573 CTTGCCAATC
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
31 16 0.28
32 2 0.03
33 38 0.66
34 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (31 bp):
AGTTGGCCACCAACCAAATGAATTTTCCAAT
Found at i:129550 original size:21 final size:21
Alignment explanation
Indices: 129524--129563 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
129514 TCTGCTGAAA
*
129524 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGTTGTGGAGTATG
129545 CTCCACCTGTTGTGGAGTA
1 CTCCACCTGTTGTGGAGTA
129564 CTACTTGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (21 bp):
CTCCACCTGTTGTGGAGTATG
Found at i:132278 original size:33 final size:33
Alignment explanation
Indices: 132214--132312 Score: 157
Period size: 33 Copynumber: 3.1 Consensus size: 33
132204 AAATATGAAA
*
132214 AATAAGTTGGCCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
*
132245 AATGAGTTGGCCACCAACCAAGATGAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
*
132278 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
132311 AA
1 AA
132313 CTTGTCAATC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 19 0.31
32 1 0.02
33 42 0.68
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATGAATTTTCC
Found at i:138660 original size:2 final size:2
Alignment explanation
Indices: 138655--138691 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
138645 AAGTTGTGTG
138655 TA 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 TA T
138692 GATTAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:141919 original size:36 final size:36
Alignment explanation
Indices: 141879--141954 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
141869 TTCGATGTCT
* * * *
141879 AAAACGATATCATTTTGGACATCAATAATCTTCGTC
1 AAAACGATATCATTTTGAACATCAACAAGCGTCGTC
**
141915 AAAACGATATTGTTTTGAACATCAACAAGCGTCGTC
1 AAAACGATATCATTTTGAACATCAACAAGCGTCGTC
141951 AAAA
1 AAAA
141955 TGTCATCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (36 bp):
AAAACGATATCATTTTGAACATCAACAAGCGTCGTC
Found at i:144182 original size:31 final size:31
Alignment explanation
Indices: 144122--144205 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
144112 TTCGATAATA
* *
144122 TAATAATAATTTTATAGTATTTAGATAAATT
1 TAATAATAATTTTATAATTTTTAGATAAATT
* *
144153 TATTAATAATTTTATAATCTTTTA-TTAAATT
1 TAATAATAATTTTATAAT-TTTTAGATAAATT
144184 TAATAAGT-ATTTTATAATTTTT
1 TAATAA-TAATTTTATAATTTTT
144206 TAAACTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.09
31 37 0.80
32 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (31 bp):
TAATAATAATTTTATAATTTTTAGATAAATT
Found at i:145351 original size:5 final size:5
Alignment explanation
Indices: 145341--145378 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
145331 GATCGATCCA
145341 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTC
145379 AACAACACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
TTCTC
Found at i:147582 original size:18 final size:19
Alignment explanation
Indices: 147556--147592 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
147546 TATTTTAAAA
147556 TATTAAAATA-ATTTATTAT
1 TATTAAAATATATTT-TTAT
147575 TATT-AAATATATTTTTAT
1 TATTAAAATATATTTTTAT
147593 AATTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTAAAATATATTTTTAT
Found at i:147599 original size:29 final size:27
Alignment explanation
Indices: 147537--147615 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
147527 TCATAAAACT
*
147537 TAATATTATTATTTTAAAATATTAAAA
1 TAATTTTATTATTTTAAAATATTAAAA
***
147564 TAA-TTTATTATTATTAAATATATTTTTA
1 TAATTTTATTATT-TTAAA-ATATTAAAA
* *
147592 TAATTTTATTA-ATAAAAATATTAA
1 TAATTTTATTATTTTAAAATATTAA
147616 TTTTTGTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
26 13 0.32
27 12 0.29
28 9 0.22
29 7 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TAATTTTATTATTTTAAAATATTAAAA
Found at i:147737 original size:23 final size:23
Alignment explanation
Indices: 147688--147750 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
147678 ATGTTATATT
* **
147688 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
147711 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
147734 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
147751 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:147778 original size:19 final size:20
Alignment explanation
Indices: 147726--147778 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
147716 TTAAATATCT
147726 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
147745 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
147766 TTATTAAATATAT
1 TTATTAAATATAT
147779 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:147779 original size:30 final size:28
Alignment explanation
Indices: 147734--147883 Score: 106
Period size: 29 Copynumber: 5.5 Consensus size: 28
147724 CTTTATTAAA
*
147734 ATATTATTTAAATATATAAATAATATTAT
1 ATATTATTAAAATATA-AAATAATATTAT
147763 -TCATTATTAAATATATAAAA-AATTTATTAT
1 AT-ATTATTAAA-ATATAAAATAA--TATTAT
*
147793 ATATTATTAAAATAAAAAATATATATT-T
1 ATATTATTAAAATATAAAATA-ATATTAT
*
147821 ATATTATTATAATAT--AAT--TGATTAT
1 ATATTATTAAAATATAAAATAAT-ATTAT
* *
147846 -T-TTA-TATAATATTAAA-AATATTAT
1 ATATTATTAAAATATAAAATAATATTAT
147870 ATATTATTATAAAT
1 ATATTATTA-AAAT
147884 TAATAAATAA
Statistics
Matches: 99, Mismatches: 5, Indels: 35
0.71 0.04 0.25
Matches are distributed among these distances:
22 8 0.08
23 4 0.04
24 11 0.11
25 3 0.03
26 6 0.06
27 2 0.02
28 20 0.20
29 22 0.22
30 21 0.21
31 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTATTAAAATATAAAATAATATTAT
Found at i:147823 original size:28 final size:29
Alignment explanation
Indices: 147734--147837 Score: 108
Period size: 28 Copynumber: 3.6 Consensus size: 29
147724 CTTTATTAAA
* *
147734 ATATTATTTAAATATATAAATA-ATA-TT
1 ATATTATTAAAATATAAAAATATATATTT
*
147761 ATTCATTATTAAATATATAAAAA-ATTTATTAT
1 A-T-ATTATTAAA-ATATAAAAATATATATT-T
147793 ATATTATTAAAATA-AAAAATATATATTT
1 ATATTATTAAAATATAAAAATATATATTT
*
147821 ATATTATTATAATATAA
1 ATATTATTAAAATATAA
147838 TTGATTATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
27 1 0.02
28 20 0.31
29 20 0.31
30 19 0.30
31 2 0.03
32 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (29 bp):
ATATTATTAAAATATAAAAATATATATTT
Found at i:147871 original size:19 final size:19
Alignment explanation
Indices: 147847--147883 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
147837 ATTGATTATT
147847 TTATATAATATTAAAAATA
1 TTATATAATATTAAAAATA
* *
147866 TTATATATTATTATAAAT
1 TTATATAATATTAAAAAT
147884 TAATAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATATAATATTAAAAATA
Found at i:147874 original size:28 final size:28
Alignment explanation
Indices: 147744--147892 Score: 72
Period size: 28 Copynumber: 5.5 Consensus size: 28
147734 ATATTATTTA
*
147744 AATATATAAATAATATTAT-TCATTATTAAAT
1 AATAT-TAAA-AATATTATAT-ATT-TTATAT
* *
147775 -ATATAAAAAAT-TTATTATATATTAT-T
1 AATATTAAAAATATTA-TATATTTTATAT
*
147801 AA-AATAAAAA-A-TATATA-TTTATAT
1 AATATTAAAAATATTATATATTTTATAT
*
147825 --TATTATAATATAATTGAT-TATTTTATAT
1 AATATTA-AAAAT-ATT-ATATATTTTATAT
*
147853 AATATTAAAAATATTATATATTAT-TAT
1 AATATTAAAAATATTATATATTTTATAT
147880 AA-ATTAATAAATA
1 AATATTAA-AAATA
147893 AAAAATATTT
Statistics
Matches: 92, Mismatches: 10, Indels: 36
0.67 0.07 0.26
Matches are distributed among these distances:
23 7 0.08
24 8 0.09
25 2 0.02
26 13 0.14
27 22 0.24
28 23 0.25
29 8 0.09
30 9 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
AATATTAAAAATATTATATATTTTATAT
Found at i:148117 original size:36 final size:36
Alignment explanation
Indices: 148077--148149 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 36
148067 ACCAATTATG
148077 TGAAACAA-ACGGGAAAAACATTTTCCGAAAAACGAA
1 TGAAACAACAC-GGAAAAACATTTTCCGAAAAACGAA
148113 TGAAACAACACGGAAAAACATTTTCCGAAAAACGAA
1 TGAAACAACACGGAAAAACATTTTCCGAAAAACGAA
148149 T
1 T
148150 TACGTGAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (36 bp):
TGAAACAACACGGAAAAACATTTTCCGAAAAACGAA
Found at i:167126 original size:15 final size:16
Alignment explanation
Indices: 167106--167136 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
167096 AATTTTCTTT
167106 TAAAATA-ATTTTTAA
1 TAAAATATATTTTTAA
167121 TAAAATATATTTTTAA
1 TAAAATATATTTTTAA
167137 AAGATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATATTTTTAA
Found at i:167913 original size:18 final size:19
Alignment explanation
Indices: 167890--167925 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
167880 ATTAAAATAA
167890 GACAAAA-TGTAAATAAAT
1 GACAAAATTGTAAATAAAT
*
167908 GACAAAATTGTGAATAAA
1 GACAAAATTGTAAATAAA
167926 CCAAACATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (19 bp):
GACAAAATTGTAAATAAAT
Found at i:170579 original size:35 final size:35
Alignment explanation
Indices: 170539--170613 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
170529 AATTGCATAC
*
170539 TCAAAATCCAACATCATTATTAATTAGTAAAACAA
1 TCAAAATCCAAAATCATTATTAATTAGTAAAACAA
*
170574 TCAAAATCCAAAATCATTATTAATTAGTATAACAA
1 TCAAAATCCAAAATCATTATTAATTAGTAAAACAA
*
170609 ACAAA
1 TCAAA
170614 TCTCCTTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (35 bp):
TCAAAATCCAAAATCATTATTAATTAGTAAAACAA
Found at i:175524 original size:17 final size:17
Alignment explanation
Indices: 175502--175535 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
175492 ATCTGATTGT
*
175502 AGTTAAGAATTGAAAGA
1 AGTTAAGAATAGAAAGA
175519 AGTTAAGAATAGAAAGA
1 AGTTAAGAATAGAAAGA
175536 GTTCTTTTCT
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:0.56, C:0.00, G:0.24, T:0.21
Consensus pattern (17 bp):
AGTTAAGAATAGAAAGA
Found at i:178160 original size:170 final size:170
Alignment explanation
Indices: 177878--178218 Score: 664
Period size: 170 Copynumber: 2.0 Consensus size: 170
177868 ATAGCTATTG
*
177878 ACATGTTCCATAGCAATTCTAATACAACAAAACAGACTCAAAATCCAACTTTATTTATCTCAACT
1 ACATGTTCCATAGCAATTCTAATACAACAAAACAAACTCAAAATCCAACTTTATTTATCTCAACT
177943 ATCACTTAAAGAACAAACAATGATTTTCCAACAAGCACTTTGGCTGCAACTTAAGTCCATCCTTG
66 ATCACTTAAAGAACAAACAATGATTTTCCAACAAGCACTTTGGCTGCAACTTAAGTCCATCCTTG
178008 TGGCGGCACCTTAGATAACTGCAATTTAATTAAACAAGGA
131 TGGCGGCACCTTAGATAACTGCAATTTAATTAAACAAGGA
178048 ACATGTTCCATAGCAATTCTAATACAACAAAACAAACTCAAAATCCAACTTTATTTATCTCAACT
1 ACATGTTCCATAGCAATTCTAATACAACAAAACAAACTCAAAATCCAACTTTATTTATCTCAACT
178113 ATCACTTAAAGAACAAACAATGATTTTCCAACAAGCACTTTGGCTGCAACTTAAGTCCATCCTTG
66 ATCACTTAAAGAACAAACAATGATTTTCCAACAAGCACTTTGGCTGCAACTTAAGTCCATCCTTG
*
178178 TGGCGTCACCTTAGATAACTGCAATTTAATTAAACAAGGA
131 TGGCGGCACCTTAGATAACTGCAATTTAATTAAACAAGGA
178218 A
1 A
178219 ATCTCTTAAG
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 169 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.28
Consensus pattern (170 bp):
ACATGTTCCATAGCAATTCTAATACAACAAAACAAACTCAAAATCCAACTTTATTTATCTCAACT
ATCACTTAAAGAACAAACAATGATTTTCCAACAAGCACTTTGGCTGCAACTTAAGTCCATCCTTG
TGGCGGCACCTTAGATAACTGCAATTTAATTAAACAAGGA
Found at i:183280 original size:34 final size:32
Alignment explanation
Indices: 183227--183296 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
183217 ACCTTACAAC
*
183227 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
183259 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
183293 TCCC
1 TCCC
183297 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:183606 original size:21 final size:21
Alignment explanation
Indices: 183580--183621 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
183570 CCAGAATGGG
* *
183580 GGGAATCGGTATCCCTTCATA
1 GGGAATCGATACCCCTTCATA
183601 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
183622 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:183757 original size:19 final size:19
Alignment explanation
Indices: 183713--183757 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
183703 ATACTGGAAT
*
183713 TTATTCAAATAGTAATTTA
1 TTATTCAAATAGTAAATTA
* *
183732 CTGTTCAAATAGTAAATTA
1 TTATTCAAATAGTAAATTA
183751 TTATTCA
1 TTATTCA
183758 TAAAAACATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (19 bp):
TTATTCAAATAGTAAATTA
Found at i:190562 original size:338 final size:338
Alignment explanation
Indices: 189946--190626 Score: 1362
Period size: 338 Copynumber: 2.0 Consensus size: 338
189936 GTTATTAATT
189946 TCAAACAATATAATGTTCCCATGAATGACATGTTCAATAGCAATGCTGATACAATAAGTTACAGA
1 TCAAACAATATAATGTTCCCATGAATGACATGTTCAATAGCAATGCTGATACAATAAGTTACAGA
190011 CGCAAAATCCAACATTATTAGTAATACAACAAACAAGTCGCCTTGTATGATCTAAGCCTCTCAAA
66 CGCAAAATCCAACATTATTAGTAATACAACAAACAAGTCGCCTTGTATGATCTAAGCCTCTCAAA
190076 AGTTTCATCCTTATGAAACCTTAGGTACCTGCAGCAGGAAAATCTTTTTACTTCTTCCTATTGTA
131 AGTTTCATCCTTATGAAACCTTAGGTACCTGCAGCAGGAAAATCTTTTTACTTCTTCCTATTGTA
190141 TGAATGCAACATTTATTGAAAAAGTAGTGGAAATAAACCTTAAAGGCTTTGCTTGATATGAAGGA
196 TGAATGCAACATTTATTGAAAAAGTAGTGGAAATAAACCTTAAAGGCTTTGCTTGATATGAAGGA
190206 TGAAAAAAAGGAAAGATGAATTTTAATCATTTGATTAACAAATTTTTTATCCTTCCTCATTTCCA
261 TGAAAAAAAGGAAAGATGAATTTTAATCATTTGATTAACAAATTTTTTATCCTTCCTCATTTCCA
190271 TCCTTTATACCAA
326 TCCTTTATACCAA
190284 TCAAACAATATAATGTTCCCATGAATGACATGTTCAATAGCAATGCTGATACAATAAGTTACAGA
1 TCAAACAATATAATGTTCCCATGAATGACATGTTCAATAGCAATGCTGATACAATAAGTTACAGA
190349 CGCAAAATCCAACATTATTAGTAATACAACAAACAAGTCGCCTTGTATGATCTAAGCCTCTCAAA
66 CGCAAAATCCAACATTATTAGTAATACAACAAACAAGTCGCCTTGTATGATCTAAGCCTCTCAAA
190414 AGTTTCATCCTTATGAAACCTTAGGTACCTGCAGCAGGAAAATCTTTTTACTTCTTCCTATTGTA
131 AGTTTCATCCTTATGAAACCTTAGGTACCTGCAGCAGGAAAATCTTTTTACTTCTTCCTATTGTA
190479 TGAATGCAACATTTATTGAAAAAGTAGTGGAAATAAACCTTAAAGGCTTTGCTTGATATGAAGGA
196 TGAATGCAACATTTATTGAAAAAGTAGTGGAAATAAACCTTAAAGGCTTTGCTTGATATGAAGGA
190544 TGAAAAAAAGGAAAGATGAATTTTAATCATTTGATTAACAAATTTTTTATCCTTCCTCATTTCCA
261 TGAAAAAAAGGAAAGATGAATTTTAATCATTTGATTAACAAATTTTTTATCCTTCCTCATTTCCA
190609 TCCTTTATACCAA
326 TCCTTTATACCAA
190622 TCAAA
1 TCAAA
190627 GCCTAAGTGA
Statistics
Matches: 343, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
338 343 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (338 bp):
TCAAACAATATAATGTTCCCATGAATGACATGTTCAATAGCAATGCTGATACAATAAGTTACAGA
CGCAAAATCCAACATTATTAGTAATACAACAAACAAGTCGCCTTGTATGATCTAAGCCTCTCAAA
AGTTTCATCCTTATGAAACCTTAGGTACCTGCAGCAGGAAAATCTTTTTACTTCTTCCTATTGTA
TGAATGCAACATTTATTGAAAAAGTAGTGGAAATAAACCTTAAAGGCTTTGCTTGATATGAAGGA
TGAAAAAAAGGAAAGATGAATTTTAATCATTTGATTAACAAATTTTTTATCCTTCCTCATTTCCA
TCCTTTATACCAA
Found at i:194095 original size:44 final size:43
Alignment explanation
Indices: 194038--194125 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 43
194028 CTCTTCCATC
*
194038 ATGTTAAATTAAAACAGAGTCGACATACTTTGACTGATTCCAAT
1 ATGTTAAAATAAAACAGAGTCGACATAC-TTGACTGATTCCAAT
194082 ATGTTAAAATAAAACAGAGTCGACATACTTGACTGATTCCAAT
1 ATGTTAAAATAAAACAGAGTCGACATACTTGACTGATTCCAAT
194125 A
1 A
194126 GAGAACTACT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 16 0.37
44 27 0.63
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (43 bp):
ATGTTAAAATAAAACAGAGTCGACATACTTGACTGATTCCAAT
Found at i:195720 original size:14 final size:14
Alignment explanation
Indices: 195676--195719 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
195666 TTTTTATTTA
* *
195676 TTTAATTTCAGTCT
1 TTTAATTTCACTAT
*
195690 TTTAATTTCATTAT
1 TTTAATTTCACTAT
195704 TTTAATTT-ACTAT
1 TTTAATTTCACTAT
195717 TTT
1 TTT
195720 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTAATTTCACTAT
Found at i:195729 original size:8 final size:8
Alignment explanation
Indices: 195716--195741 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
195706 TAATTTACTA
195716 TTTTTTAT
1 TTTTTTAT
195724 TTTTTTAT
1 TTTTTTAT
195732 TTTTTTAT
1 TTTTTTAT
195740 TT
1 TT
195742 AATTTTACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:198576 original size:5 final size:5
Alignment explanation
Indices: 198566--198597 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
198556 AGCAAAAAAG
198566 TAAAT TAAAT TAAAT TAAAT TAAA- -AAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
198598 AAAATTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.12
5 22 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
TAAAT
Found at i:207054 original size:14 final size:14
Alignment explanation
Indices: 207035--207064 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
207025 CGGGGGCGAC
207035 TCCAATTCATTTAA
1 TCCAATTCATTTAA
207049 TCCAATTCATTTAA
1 TCCAATTCATTTAA
207063 TC
1 TC
207065 TAAGTCGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (14 bp):
TCCAATTCATTTAA
Found at i:227712 original size:15 final size:13
Alignment explanation
Indices: 227692--227729 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
227682 CTTTCTTAGC
227692 ATTATCATATATATT
1 ATTATCAT-TAT-TT
227707 ATTATCATTATTT
1 ATTATCATTATTT
227720 A-TATCATTAT
1 ATTATCATTAT
227730 CATCAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 3 0.13
15 8 0.35
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATCATTATTT
Found at i:231787 original size:23 final size:23
Alignment explanation
Indices: 231696--231779 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
231686 CATTATTATA
231696 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
231719 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* **
231742 CGGCACTTTGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
231765 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
231780 TTTATACGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.27
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:231894 original size:2 final size:2
Alignment explanation
Indices: 231887--231941 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
231877 AACAAATACA
231887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
231929 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
231942 CATGAGGCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:234574 original size:18 final size:19
Alignment explanation
Indices: 234537--234574 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
234527 GCTTCTCACT
*
234537 AATTAAACAAATTTATGTG
1 AATTAAACAAATTGATGTG
*
234556 AATTAAA-ATATTGATGTG
1 AATTAAACAAATTGATGTG
234574 A
1 A
234575 TATGTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (19 bp):
AATTAAACAAATTGATGTG
Found at i:238639 original size:16 final size:17
Alignment explanation
Indices: 238599--238633 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
238589 ACCATACCCG
238599 AAATAATATTTTTATTAAA
1 AAATAATATTTTTATT--A
238618 AAATAATATTTTTATT
1 AAATAATATTTTTATT
238634 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATAATATTTTTATTA
Found at i:246746 original size:3 final size:3
Alignment explanation
Indices: 246738--246763 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
246728 AAAGTTCTTT
246738 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
246764 TAAAATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:256394 original size:174 final size:174
Alignment explanation
Indices: 255996--257209 Score: 1192
Period size: 174 Copynumber: 7.0 Consensus size: 174
255986 ATCCTTAAAT
* * * * * * *
255996 TGTGAATAATAACCAGAACATCCTTCAGATCCCGGTTTCTCTGTACTCGAGTCATCAGGCCCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAAC
* * * *
256061 AGGAATGGTTCTCAAGTCTGAAGTCGTCCTATTA-CCCC--CAACATCAGATGAAACCACTGCAA
66 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTC-T
* ** * * * * *
256123 TT-GTAGTGTCATGTTCTATAACTTGAGATTCCTTAGTCTGCAAA
130 TTCATAGCATCATCTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
* * * * *
256167 TGTGAGTCATAACCATAACATCCTTCAGATCCCTGTTTCTCTGTACTCAAATCATCAATCCCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAAC
* ** * * *
256232 AAGCATGGTTCTTGAGTCTGAAGTCAACCTATTACCCCCATCAACATAAGGTGAAACCACTTCTT
66 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTCTT
* * * * *
256297 TCATAGCATCATGTTTTGTATGTTGAGGTTCATTAGTCAGCAAG
131 TCATAGCATCATCTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
* * * * *
256341 TGTGAGTCATAGCCAGAGCATTCTTCGGATTCCTGTTTCTC-GATACCCAAATCATCAGTCCCAA
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTG-TACTCAAATCATCAGTCCCAA
* *** * * * *
256405 CAGTCACCATTCTCATGTCTGAAGTCAACCTATTACCCTCATCAACATCAGATGAAACCTCTTCT
65 CAGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTCT
** * ** *
256470 TTCATAGCATCAAGTATCGTATCTTGAGGTTCACTT-GTCTGCAAA
130 TTCATAGCATCATCTTTTATATCTTGAGGTTC-CTTAGTCTGCAAG
* * * * *
256515 TGTGCATCATAACCAGAGCATGCTTCAGATTCCAGTTTCTCTGTACTCAAGTCATCAGTTCCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAAC
** * *
256580 AGGCATGGTTCTCTCGTCTGAAGTCATCCTATTACCCCCATTAACATCAGATGAAACTACTT-TG
66 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTCT-
** * *
256644 TTTGTAGTATCATCTTTTATATCTTGAGGTTCCTCAGTCTGCAAG
130 TTCATAGCATCATCTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
* * * * ** * * *
256689 TGTAAATCATAATCAGGGCATCCTTCACATTCCTGTTTCTCTGTACTTGAGTCATCACTACCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAAC
* * * * * *
256754 AGGCATGGTTCTCAAGTCTGAAGTCATCATATTAACCCCACCAACATCATAAGAAATCACTTCAT
66 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTC-T
* * *
256819 TT-GTAGCAACATTTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
130 TTCATAGCATCATCTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
* * * * * * *
256863 TGGGAATCATAACCAGAGCATCCTTCACACTCATGCTTCTGT-TCACTCAAATCATCGGTCCCAA
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGT-ACTCAAATCATCAGTCCCAA
* * * * * * * *
256927 CAGGCAAGGTTCGCAAGTCTGAAGCCGTCATATTATCTCCATCAACATCAGATGGAACCACTT-T
65 CAGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTCT
* * * * *
256991 ATCTATAGTATCATCTTTTATATCTAGAGATTCCTTAATCTGCAAG
130 TTC-ATAGCATCATCTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
* * ** * *
257037 TGTGAATCATAACGAAAGCATCCTTCAGATTCCTGTTTCTCTACACTCAAGTCATCAGTCTCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAAC
* * *
257102 AGGCATGGTTCTCAAGTCTGAAGTCATCTTATTACCCCCATCGACAT-AGGATGAAACCACTTCG
66 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCA-GATGAAACCACTTCT
* ** * *
257166 TTCAAAGTGTCATTTTTTATATCTTGAGGTT-TTGTAGTCTGCAA
130 TTCATAGCATCATCTTTTATATCTTGAGGTTCCT-TAGTCTGCAA
257210 CTCTTCGCTT
Statistics
Matches: 851, Mismatches: 174, Indels: 33
0.80 0.16 0.03
Matches are distributed among these distances:
171 85 0.10
172 6 0.01
173 9 0.01
174 743 0.87
175 7 0.01
176 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (174 bp):
TGTGAATCATAACCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAAC
AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTCTT
TCATAGCATCATCTTTTATATCTTGAGGTTCCTTAGTCTGCAAG
Found at i:257035 original size:522 final size:520
Alignment explanation
Indices: 255996--257196 Score: 1320
Period size: 522 Copynumber: 2.3 Consensus size: 520
255986 ATCCTTAAAT
* * * * * *
255996 TGTGAATAATAACCAGAACATCCTTCAGATCCCGGTTTCTCTGTACTCGAGTCATCAGGCCCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCAGTTTCTCTGTACTCAAGTCATCA-GTCCAAC
* * * **
256061 AGGAATGGTTCTCAAGTCTGAAGTCGTCCTATTACCCCC--AACATCAGATGAAACCACTGCAAT
65 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATAACATCAGATGAAACCACTTCGTT
* * * * * * * *
256124 TGTAGTGTCATGTTCTATAACTTGAGATTCCTTAGTCTGCAAATGTGAGTCATAACCATAACATC
130 TGTAGTGTCATCTTTTATATCTTGAGGTTCCTCAGTCTGCAAATGTAAATCATAACCAGAACATC
* * **
256189 CTTCAGATCCCTGTTTCTCTGTACTCAAATCATCAATCCCAACAAGCATGGTTCTTGAGTCTGAA
195 CTTCACATCCCTGTTTCTCTGTACTCAAATCATCAATACCAACAAGCATGGTTCTCAAGTCTGAA
* * * ** * * *
256254 GTCAACCTATTACCCCCATCAACATAAGGTGAAACCACTTCTTTCATAGCATCATGTTTTGTATG
260 GTCAACATATTAACCCCACCAACATAAGAAGAAACCACTTCTTTCATAGCAACATGTTTTATATC
* * * * ** * * *
256319 TTGAGGTTCATTAGTCAGCAAGTGTGAGTCATAGCCAGAGCATTCTTCGGATTCCTGTTTCTCGA
325 TTGAGGTTCATTAGTCAGCAAGTGGGAATCATAACCAGAGCATCCTTCACACTCATGCTTCTCGA
* * * * * *
256384 TACCCAAATCATCAGTCCCAACAGTCACCATTCTCATGTCTGAAGTCAACCTATTACCCTCATCA
390 TACCCAAATCATCAGTCCCAACAGGCAACATTCGCAAGTCTGAAGCCAACATATTACCCTCATCA
* * * * * * *
256449 ACATCAGATGAAACCTCTTCTTTCATAGCATCAAGTATCGTATCTTGAGGTTCACTTGTCTGCAA
455 ACATCAGATGAAACCACTTCTATCATAGCATCAACTATCATATCTAGAGATTCACTTATCTGCAA
256514 A
520 A
* *
256515 TGTGCATCATAACCAGAGCATGCTTCAGATTCCAGTTTCTCTGTACTCAAGTCATCAGTTCCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCAGTTTCTCTGTACTCAAGTCATCAG-TCCAAC
** * *
256580 AGGCATGGTTCTCTCGTCTGAAGTCATCCTATTACCCCCATTAACATCAGATGAAACTACTTTGT
65 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCA-TAACATCAGATGAAACCACTTCGT
* * * **
256645 TTGTAGTATCATCTTTTATATCTTGAGGTTCCTCAGTCTGCAAGTGTAAATCATAATCAGGGCAT
129 TTGTAGTGTCATCTTTTATATCTTGAGGTTCCTCAGTCTGCAAATGTAAATCATAACCAGAACAT
* ** * * *
256710 CCTTCACATTCCTGTTTCTCTGTACTTGAGTCATCACTACCAACAGGCATGGTTCTCAAGTCTGA
194 CCTTCACATCCCTGTTTCTCTGTACTCAAATCATCAATACCAACAAGCATGGTTCTCAAGTCTGA
* * * * * *
256775 AGTCATCATATTAACCCCACCAACATCATAAGAAATCACTTCATTT-GTAGCAACATTTTTTATA
259 AGTCAACATATTAACCCCACCAACATAAGAAGAAACCACTTC-TTTCATAGCAACATGTTTTATA
* *
256839 TCTTGAGGTTCCTTAGTCTGCAAGTGGGAATCATAACCAGAGCATCCTTCACACTCATGCTTCT-
323 TCTTGAGGTTCATTAGTCAGCAAGTGGGAATCATAACCAGAGCATCCTTCACACTCATGCTTCTC
* * * ** ** *
256903 GTTCACTCAAATCATCGGTCCCAACAGGCAAGGTTCGCAAGTCTGAAGCCGTCATATTA-TCTCC
388 GAT-ACCCAAATCATCAGTCCCAACAGGCAACATTCGCAAGTCTGAAGCCAACATATTACCCT-C
* * * * *
256967 ATCAACATCAGATGGAACCACTT-TATCTATAGTATCATCTTTTATATCTAGAGATTC-CTTAAT
451 ATCAACATCAGATGAAACCACTTCTATC-ATAGCATCAACTATCATATCTAGAGATTCACTT-AT
*
257030 CTGCAAG
514 CTGCAAA
* * * **
257037 TGTGAATCATAACGAAAGCATCCTTCAGATTCCTGTTTCTCTACACTCAAGTCATCAGTCTCAAC
1 TGTGAATCATAACCAGAGCATCCTTCAGATTCCAGTTTCTCTGTACTCAAGTCATCAGTC-CAAC
* *
257102 AGGCATGGTTCTCAAGTCTGAAGTCATCTTATTACCCCCATCGACAT-AGGATGAAACCACTTCG
65 AGGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCAT-AACATCA-GATGAAACCACTTCG
*** *
257166 TTCAAAGTGTCATTTTTTATATCTTGAGGTT
128 TTTGTAGTGTCATCTTTTATATCTTGAGGTT
257197 TTGTAGTCTG
Statistics
Matches: 560, Mismatches: 110, Indels: 21
0.81 0.16 0.03
Matches are distributed among these distances:
518 1 0.00
519 90 0.16
521 14 0.03
522 452 0.81
523 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (520 bp):
TGTGAATCATAACCAGAGCATCCTTCAGATTCCAGTTTCTCTGTACTCAAGTCATCAGTCCAACA
GGCATGGTTCTCAAGTCTGAAGTCATCCTATTACCCCCATAACATCAGATGAAACCACTTCGTTT
GTAGTGTCATCTTTTATATCTTGAGGTTCCTCAGTCTGCAAATGTAAATCATAACCAGAACATCC
TTCACATCCCTGTTTCTCTGTACTCAAATCATCAATACCAACAAGCATGGTTCTCAAGTCTGAAG
TCAACATATTAACCCCACCAACATAAGAAGAAACCACTTCTTTCATAGCAACATGTTTTATATCT
TGAGGTTCATTAGTCAGCAAGTGGGAATCATAACCAGAGCATCCTTCACACTCATGCTTCTCGAT
ACCCAAATCATCAGTCCCAACAGGCAACATTCGCAAGTCTGAAGCCAACATATTACCCTCATCAA
CATCAGATGAAACCACTTCTATCATAGCATCAACTATCATATCTAGAGATTCACTTATCTGCAAA
Found at i:266762 original size:174 final size:174
Alignment explanation
Indices: 266472--266951 Score: 712
Period size: 174 Copynumber: 2.8 Consensus size: 174
266462 CTCAAATTGA
* *
266472 GAATCATAAACAGAGCATCCTTCAGATTCATGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGG
1 GAATCATAGACAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGG
* *
266537 AATGGTTCTCA-AGTCTGAAGTCATCCTATTATCGCCATCAACATCAGATGAAACCACTTCATTT
66 CATGGTTCT-AGAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCACTTCATTT
* *
266601 GTAATGTCATTTTTCGTATCCTGAGGTTCCTTAGTCTGCAAGCGT
130 GTAATGTCATTTTTCATATCCTGAGGTTCCTTAGTCTGCAAACGT
*
266646 GAATCATAGTCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGG
1 GAATCATAGACAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGG
* * * *
266711 CATGGTTCTGGAGTCTGAAGTCATCCTATTACCCCCATCAACATCAGATGAAACCACTTCGTTAG
66 CATGGTTCTAGAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCACTTCATTTG
* * * *
266776 CAGTTTCATTTTTCATATCTTGAGGTTCCTTAGTCTGCAAACGT
131 TAATGTCATTTTTCATATCCTGAGGTTCCTTAGTCTGCAAACGT
* * * *
266820 GAATCATAGCCAGAGCATCCTTCAGATTCCTGTTTATCTGTACTCAAA-TTATCAGACCCAACAG
1 GAATCATAGACAGAGCATCCTTCAGATTCCTGTTTCTCTGTACT-AAAGTCATCAGTCCCAACAG
* * * * *
266884 GCATGATTCTAGAGTCTGAAGTCATCCTATTATCCCCACCAACATCAGAGGAAACCACCTCTTTT
65 GCATGGTTCTAGAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCACTTCATTT
266949 GTA
130 GTA
266952 GTATAATTTT
Statistics
Matches: 276, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
174 273 0.99
175 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (174 bp):
GAATCATAGACAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGG
CATGGTTCTAGAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCACTTCATTTG
TAATGTCATTTTTCATATCCTGAGGTTCCTTAGTCTGCAAACGT
Found at i:267238 original size:141 final size:141
Alignment explanation
Indices: 266842--267249 Score: 489
Period size: 141 Copynumber: 2.9 Consensus size: 141
266832 GAGCATCCTT
* * * *
266842 CAGATTCCTGTTTATCTGTACTCAAATTATCAGACCCAACAGGCATGATTCT-AGAGTCTGAAGT
1 CAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAACAGGCATGCTTCTCA-AGTCTGAAGT
* * * * * * *
266906 CATCCTATTATCCCCA-CCAACATCAGAGGAAACCACCTCTTTTGTAGTATAATTTTTTAAATAT
65 CATCCTATTACCCCCATCC-ACATCAGATGAAACCACTTCATTTGTAGTATCATATTTTATATAT
*
266970 TCTGAATCAAAAC
129 TCTGAACCAAAAC
* * ** *
266983 CAGATTGCC-ATTCCTCTACACTCAAATCATCAGTCCAAACAGGCATGCTTCTCAAGTCTGAAGT
1 CAGATT-CCTGTTTCTCTGTACTCAAATCATCAGTCCCAACAGGCATGCTTCTCAAGTCTGAAGT
* * * * * * *
267047 CATCTTATCACCCCCATCAATATCAGATGAAACAACTCCATTTGTAGTATCATCTTTTATATATT
65 CATCCTATTACCCCCATCCACATCAGATGAAACCACTTCATTTGTAGTATCATATTTTATATATT
* *
267112 GTGAACCATAAC
130 CTGAACCAAAAC
* * *
267124 CAGATTCCTGTTTCTCTGTACCCAAATCATCAGTCCCAGCAGGCATGCTTCTCAATTCTGAAGTC
1 CAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAACAGGCATGCTTCTCAAGTCTGAAGTC
* *
267189 ATCCTATTACCCCCATCCACATCAGATGAAACCACTTCGTTTGTAGTATCAGATTTTATAT
66 ATCCTATTACCCCCATCCACATCAGATGAAACCACTTCATTTGTAGTATCATATTTTATAT
267250 CTTGAGATTC
Statistics
Matches: 221, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
140 2 0.01
141 215 0.97
142 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (141 bp):
CAGATTCCTGTTTCTCTGTACTCAAATCATCAGTCCCAACAGGCATGCTTCTCAAGTCTGAAGTC
ATCCTATTACCCCCATCCACATCAGATGAAACCACTTCATTTGTAGTATCATATTTTATATATTC
TGAACCAAAAC
Found at i:272153 original size:21 final size:21
Alignment explanation
Indices: 272112--272154 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
272102 TTTGAATAAC
* *
272112 AAATATTATATTACATTAATT
1 AAATATTATATTAAATAAATT
272133 AAATA-TATATTATAATAAATT
1 AAATATTATATTA-AATAAATT
272154 A
1 A
272155 TATGAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATTATATTAAATAAATT
Found at i:280079 original size:9 final size:8
Alignment explanation
Indices: 280064--280089 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
280054 TATAACAATG
280064 TAAAAAAA
1 TAAAAAAA
280072 TAAAAAAA
1 TAAAAAAA
280080 TAAAAAAA
1 TAAAAAAA
280088 TA
1 TA
280090 TTAAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:280087 original size:17 final size:17
Alignment explanation
Indices: 280065--280156 Score: 51
Period size: 17 Copynumber: 5.1 Consensus size: 17
280055 ATAACAATGT
280065 AAAAAAATAAAAAAAT-
1 AAAAAAATAAAAAAATA
* *
280081 AAAAAAATATTAAAATTA
1 AAAAAAATA-AAAAAATA
* *
280099 GGAGAAAATGAAAAATATATA
1 -AAAAAAAT-AAAAA-A-ATA
*
280120 TAAAATAAATAAATAAATA
1 -AAAA-AAATAAAAAAATA
**
280139 AATGAAATAAAAAAATA
1 AAAAAAATAAAAAAATA
280156 A
1 A
280157 GTCAAAAGTT
Statistics
Matches: 56, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
16 9 0.16
17 18 0.32
18 2 0.04
19 12 0.21
20 3 0.05
21 8 0.14
22 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAAAATAAAAAAATA
Found at i:280129 original size:4 final size:4
Alignment explanation
Indices: 280122--280156 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
280112 AATATATATA
*
280122 AAAT AAAT AAAT AAAT AAAT GAAAT AAAA AAAT AA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AA
280157 GTCAAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:280507 original size:33 final size:33
Alignment explanation
Indices: 280438--280508 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
280428 TCAAAATGCT
* * *
280438 TTGGTTTTAGTGTTTCAATAGAACTCAAATACG
1 TTGGTGTTAGTGTTTCAATAGAACTAAAAAACG
* *
280471 TTGGTGTTAGTGTTTCAATA-AGATTAAAAAATG
1 TTGGTGTTAGTGTTTCAATAGA-ACTAAAAAACG
280504 TTGGT
1 TTGGT
280509 TTATTTTCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (33 bp):
TTGGTGTTAGTGTTTCAATAGAACTAAAAAACG
Found at i:280571 original size:8 final size:8
Alignment explanation
Indices: 280558--280620 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
280548 GGGACCTGTA
280558 AAAATAAT
1 AAAATAAT
280566 AAAATAA-
1 AAAATAAT
280573 AAATATAAT
1 AAA-ATAAT
280582 AATAATAAT
1 AA-AATAAT
280591 -AAATAA-
1 AAAATAAT
280597 ATAAATATAT
1 A-AAATA-AT
*
280607 AATATAAT
1 AAAATAAT
280615 AAAATA
1 AAAATA
280621 TTTTTGTAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
7 8 0.17
8 24 0.52
9 12 0.26
10 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATAAT
Found at i:280592 original size:25 final size:26
Alignment explanation
Indices: 280560--280620 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
280550 GACCTGTAAA
280560 AATAATAAAAT-AA-AAATATAATAAT
1 AATAATAAAATAAATAAATAT-ATAAT
280585 AATAAT-AAATAAATAAATATATAAT
1 AATAATAAAATAAATAAATATATAAT
280610 -ATAATAAAATA
1 AATAATAAAATA
280621 TTTTTGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.27
25 18 0.55
26 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (26 bp):
AATAATAAAATAAATAAATATATAAT
Found at i:285545 original size:35 final size:35
Alignment explanation
Indices: 285506--285573 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
285496 AGCAAGAAAG
**
285506 ACTAAAATGGAAAGAAACC-AATATCCGACATCTCA
1 ACTAAAACAGAAAGAAACCGAA-ATCCGACATCTCA
* *
285541 ACTAAAACAGAGAGAAACCGAAATCTGACATCT
1 ACTAAAACAGAAAGAAACCGAAATCCGACATCT
285574 AAGTTTCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.16
Consensus pattern (35 bp):
ACTAAAACAGAAAGAAACCGAAATCCGACATCTCA
Found at i:293182 original size:23 final size:23
Alignment explanation
Indices: 293156--293219 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
293146 CAGCTCATAT
293156 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * *
293179 AATTACACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
293202 AATTGCACTGTAGTGCCA
1 AATTGCACCGAAGTGCCA
293220 TATAATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:293409 original size:103 final size:103
Alignment explanation
Indices: 293230--293555 Score: 643
Period size: 103 Copynumber: 3.2 Consensus size: 103
293220 TATAATAATG
293230 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
293295 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
293333 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
293398 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
*
293436 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
293501 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
293539 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
293556 GACCCTCGAC
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 222 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:294415 original size:64 final size:64
Alignment explanation
Indices: 294307--294527 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 64
294297 TAATGAAGGT
* * * * *
294307 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGACGTTGTATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGACGTTGTATTATTAATGGG
* * * *
294371 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTTCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGACGTTGTATTATTAATGGG
* * * **
294435 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGACGT-TGTATTATTAATGGG
**
294498 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
294528 ACACCTTCAA
Statistics
Matches: 136, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.02
64 126 0.93
65 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGACGTTGTATTATTAATGGG
Found at i:298992 original size:23 final size:23
Alignment explanation
Indices: 298962--299025 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
298952 CAACTCATAT
298962 AATTGTACCGAAGTGCCACGTAG
1 AATTGTACCGAAGTGCCACGTAG
* *
298985 AATTGTACCGGAGTGCCGCGTAG
1 AATTGTACCGAAGTGCCACGTAG
* *
299008 AATTGCACCGTAGTGCCA
1 AATTGTACCGAAGTGCCA
299026 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGTACCGAAGTGCCACGTAG
Found at i:299161 original size:103 final size:103
Alignment explanation
Indices: 299036--299361 Score: 643
Period size: 103 Copynumber: 3.2 Consensus size: 103
299026 TATAATAATG
299036 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
299101 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
299139 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
299204 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
299242 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
299307 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
*
299345 TCCCGAATGACCACATA
1 TCCCGAAGGACCACATA
299362 GACCCTCGAC
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 222 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:300225 original size:64 final size:64
Alignment explanation
Indices: 300113--300337 Score: 215
Period size: 64 Copynumber: 3.5 Consensus size: 64
300103 TAATGAAGGT
* * * * * ** * *
300113 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTTGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATACACAAATTACATTCGATGTT-TCATTATTAATGGG
* * * *
300177 ATGCATCGATGCA-TGCCTTATGCATCGATACACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATACACAAATTACATTCGATGTTTCATTATTAATGGG
* * **
300241 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTACATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATACACAAATTACATTCGATGT-TTCATTATTAATGGG
**
300304 AGTGCATCGATGCACTACCAATGCATCGATACAC
1 A-TGCATCGATGCACTACTTATGCATCGATACAC
300338 CTTCAAACAA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 125 0.93
65 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATACACAAATTACATTCGATGTTTCATTATTAATGGG
Found at i:303936 original size:227 final size:227
Alignment explanation
Indices: 303541--303994 Score: 881
Period size: 227 Copynumber: 2.0 Consensus size: 227
303531 ATTTCGGTGG
* *
303541 CACCGAAAATATAACAGCAATTGTTGATTTTTCAACAATGGTAAAATCTTAATTTTAGTCATTGT
1 CACCGAAAATATAACAGCAATTGTTGATTTTTCAACAATGGTAAAATCTAAATTTTAGTCATTAT
303606 AATTTAGGGTATTTACAAATTAGTCTTTAAGCTTCAACTATAAATACCCTAGCTCATTTAGCTAC
66 AATTTAGGGTATTTACAAATTAGTCTTTAAGCTTCAACTATAAATACCCTAGCTCATTTAGCTAC
*
303671 AAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAATTTAGAGAGTTTATTGAGAGT
131 AAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAATTTAGAGAGTTTATTAAGAGT
303736 TGTTTTCTCCTTTTTATCAAGAGAGAATTATC
196 TGTTTTCTCCTTTTTATCAAGAGAGAATTATC
303768 CACCGAAAATATAACAGCAATTGTTGATTTTTCAACAATGGTAAAATCTAAATTTTAGTCATTAT
1 CACCGAAAATATAACAGCAATTGTTGATTTTTCAACAATGGTAAAATCTAAATTTTAGTCATTAT
303833 AATTTAGGGTATTTACAAATTAGTCTTTAAGCTTCAACTATAAATACCCTAGCTCATTTAGCTAC
66 AATTTAGGGTATTTACAAATTAGTCTTTAAGCTTCAACTATAAATACCCTAGCTCATTTAGCTAC
303898 AAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAATTTAGAGAGTTTATTAAGAGT
131 AAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAATTTAGAGAGTTTATTAAGAGT
303963 TGTTTTCTCCTTTTTATCAAGAGAGAATTATC
196 TGTTTTCTCCTTTTTATCAAGAGAGAATTATC
303995 ATTGTTTTCT
Statistics
Matches: 224, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 224 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (227 bp):
CACCGAAAATATAACAGCAATTGTTGATTTTTCAACAATGGTAAAATCTAAATTTTAGTCATTAT
AATTTAGGGTATTTACAAATTAGTCTTTAAGCTTCAACTATAAATACCCTAGCTCATTTAGCTAC
AAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAATTTAGAGAGTTTATTAAGAGT
TGTTTTCTCCTTTTTATCAAGAGAGAATTATC
Found at i:310883 original size:174 final size:174
Alignment explanation
Indices: 310593--311066 Score: 831
Period size: 174 Copynumber: 2.7 Consensus size: 174
310583 CTCAAATTGA
* * *
310593 GAATCATAATCAGAGCCTCCTTCAGTTTCATGTTTCTCTGTACTAAACTCATCGGTCCCAACAGG
1 GAATCATAAACAGAGCATCCTTCAGTTTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGG
**
310658 AATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCGCTTGGTTTG
66 AATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCGCTTCATTTG
310723 TAGTGTCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGT
131 TAGTGTCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGT
310767 GAATCATAAACAGAGCATCCTTCAGTTTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGG
1 GAATCATAAACAGAGCATCCTTCAGTTTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGG
*
310832 AATGGTTCTCAAGTCTGAAGTCATCATATTATCCCCATCAACATCAGATGAAACCGCTTCATTTG
66 AATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCGCTTCATTTG
310897 TAGTGTCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGT
131 TAGTGTCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGT
* * * * * *
310941 GAATCATAAACAGAGCATCCTTCAGATTCTTGTTCCTTTGTACTAAAGTCATCAGTCTCAACAGG
1 GAATCATAAACAGAGCATCCTTCAGTTTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGG
*
311006 AATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCTCTTCA
66 AATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCGCTTCA
311067 GGTTCCTTGG
Statistics
Matches: 286, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 286 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (174 bp):
GAATCATAAACAGAGCATCCTTCAGTTTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGG
AATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAGATGAAACCGCTTCATTTG
TAGTGTCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGT
Found at i:311260 original size:381 final size:381
Alignment explanation
Indices: 310728--311446 Score: 1098
Period size: 381 Copynumber: 1.9 Consensus size: 381
310718 GTTTGTAGTG
* * *
310728 TCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGTGAATCATAAACAGAGCATCCTTCAGT
1 TCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGTGAATCACAAACAGAACATCCTTCAGA
310793 TTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGGAATGGTTCTCAAGTCTGAAGTCATCA
66 TTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGGAATGGTTCTCAAGTCTGAAGTCATCA
* * **
310858 TATTATCCCCATCAACATCAGATGAAACCGCTTCATTTGTAGTGTCATTTTTCGTATCTTCAGGT
131 TATTATCCCCATCAACATCAGATGAAACCACTTCATTTGCAGCATCATTTTTCGTATCTTCAGGT
* ** * *
310923 TCCTTGGTCTGCAAGCGTGAATCATAAACAGAGCATCCTTCAGATTCTTGTTCCTTTGTACTAAA
196 TCCTTAGTCTGCAAGCACGAATCATAAACAGAGCATCCTTCAGATTCCTGTTCCTCTGTACTAAA
* * *
310988 GTCATCAGTCTCAACAGGAATGGTTCTCAAGTCTGAAGTCATCCTATTATCCCCATCAACATCAG
261 GTCATCAGTCTCAACAGGAATGATTCTCAAGTCCGAAGTCATCCTATTACCCCCATCAACATCAG
*
311053 ATGAAACCTCTTCAGGTTCCTTGGTCTGCAAGCGAGAATCACACGCAGAGCATCTT
326 ATGAAACCACTTCAGGTTCCTTGGTCTGCAAGCGAGAATCACACGCAGAGCATCTT
*
311109 TCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGTGAATCACACACAGAACATCCTTCAGA
1 TCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGTGAATCACAAACAGAACATCCTTCAGA
* *
311174 TTCTTGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGGAATGGTTCTCAAGTCTGAAGTCAT-A
66 TTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGGAATGGTTCTCAAGTCTGAAGTCATCA
* ** ** * * *
311238 CTATTATCGCCATCTTCATCAGATGAAACCACTTGGTTTGCAGCATGATTTTTTGTATCTTGAGG
131 -TATTATCCCCATCAACATCAGATGAAACCACTTCATTTGCAGCATCATTTTTCGTATCTTCAGG
*** *
311303 TTCCTTAGTCTGCAAGCACGAATCATTGTCAGAGCATCCTTCAGATTCCTGTTTCTCTGTACTAA
195 TTCCTTAGTCTGCAAGCACGAATCATAAACAGAGCATCCTTCAGATTCCTGTTCCTCTGTACTAA
* * ** *
311368 AGTCATCAGTCTCCACAGGCATGATTCTGGAGTCCGAAGTCATCCTATTACCCCCATCAACATCT
260 AGTCATCAGTCTCAACAGGAATGATTCTCAAGTCCGAAGTCATCCTATTACCCCCATCAACATCA
311433 GATGAAACCACTTC
325 GATGAAACCACTTC
311447 GTTTGCAGTT
Statistics
Matches: 301, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
380 1 0.00
381 300 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (381 bp):
TCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGTGAATCACAAACAGAACATCCTTCAGA
TTCATGTTTCTCTGTACTAAACTCATCAGTCCCAACAGGAATGGTTCTCAAGTCTGAAGTCATCA
TATTATCCCCATCAACATCAGATGAAACCACTTCATTTGCAGCATCATTTTTCGTATCTTCAGGT
TCCTTAGTCTGCAAGCACGAATCATAAACAGAGCATCCTTCAGATTCCTGTTCCTCTGTACTAAA
GTCATCAGTCTCAACAGGAATGATTCTCAAGTCCGAAGTCATCCTATTACCCCCATCAACATCAG
ATGAAACCACTTCAGGTTCCTTGGTCTGCAAGCGAGAATCACACGCAGAGCATCTT
Found at i:311409 original size:174 final size:174
Alignment explanation
Indices: 311109--311616 Score: 689
Period size: 174 Copynumber: 2.9 Consensus size: 174
311099 AGAGCATCTT
* * * * *
311109 TCATTTTTCGTATCTTCAGGTTCCTTGGTCTGCAAGCGTGAATCACACACAGAACATCCTTCAGA
1 TCATTTTTCGTATCTTGAGGTTCCTTAGTCTGCAAGCGTGAATCATAGACAGAGCATCCTTCAGA
* * * *
311174 TTCTTGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGGAATGGTTCTCA-AGTCTGAAGTCATA
66 TTCATGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGGCATGATTCT-AGAGTCTGAAGTCATC
* * ** *
311238 CTATTATCGCCATCTTCATCAGATGAAACCACTTGGTTTGCAGCA
130 CTATTACCCCCATCAACATCAGATGAAACCACTTCGTTTGCAGCA
* * ** * *
311283 TGATTTTTTGTATCTTGAGGTTCCTTAGTCTGCAAGCACGAATCATTGTCAGAGCATCCTTCAGA
1 TCATTTTTCGTATCTTGAGGTTCCTTAGTCTGCAAGCGTGAATCATAGACAGAGCATCCTTCAGA
* * *
311348 TTCCTGTTTCTCTGTACTAAAGTCATCAGTCTCC-ACAGGCATGATTCTGGAGTCCGAAGTCATC
66 TTCATGTTTCTCTGTACTAAAGTCATCAGTC-CCAACAGGCATGATTCTAGAGTCTGAAGTCATC
* **
311412 CTATTACCCCCATCAACATCTGATGAAACCACTTCGTTTGCAGTT
130 CTATTACCCCCATCAACATCAGATGAAACCACTTCGTTTGCAGCA
* *
311457 TCATTTTTCATATCTTGAGGTTCCTTAGTCTGCAAGCGTGAATCATAGCCAGAGCATCCTTCAGA
1 TCATTTTTCGTATCTTGAGGTTCCTTAGTCTGCAAGCGTGAATCATAGACAGAGCATCCTTCAGA
*
311522 TTCATGTTTCTCTGTACTCAAAAT-ATCAGTCCCAACAGGCATGATTCTAGAGTCTGAAGTCATC
66 TTCATGTTTCTCTGTACT-AAAGTCATCAGTCCCAACAGGCATGATTCTAGAGTCTGAAGTCATC
* *
311586 CTATTACCCCCACCAACATCAGAGGAAACCA
130 CTATTACCCCCATCAACATCAGATGAAACCA
311617 ATGTTTTTGG
Statistics
Matches: 291, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
173 2 0.01
174 283 0.97
175 6 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (174 bp):
TCATTTTTCGTATCTTGAGGTTCCTTAGTCTGCAAGCGTGAATCATAGACAGAGCATCCTTCAGA
TTCATGTTTCTCTGTACTAAAGTCATCAGTCCCAACAGGCATGATTCTAGAGTCTGAAGTCATCC
TATTACCCCCATCAACATCAGATGAAACCACTTCGTTTGCAGCA
Found at i:311780 original size:140 final size:141
Alignment explanation
Indices: 311518--311897 Score: 405
Period size: 140 Copynumber: 2.7 Consensus size: 141
311508 GAGCATCCTT
* *
311518 CAGATTCATGTTTCTCTGTACTCAAAAT-ATCAGTCCCAACAGGCATGATTCT-AGAGTCTGAAG
1 CAGATTCATGTTTCTCTGTACTC-AAATCATCAGTCCCAACAGTCATGCTTCTCA-AGTCTGAAG
* * *** *
311581 TCATCCTATTACCCCCACCAACATCAGAGGAAACCAATGTTTTTGGAGTACAATTTTTTATATAT
64 TCATCCTATTACCCCCATCAACATCAAAGGAAACCAATCCGTTTGGAGTACAATCTTTTATATAT
* *
311646 TCTG-ATCGTAAC
129 TCTGAACCATAAC
** * * *
311658 CAGATTGTTGTTCCTCTGCACTCAAATCATCAGTCCAAACAGTCATGCTTCTCAAGTCTGAAGTC
1 CAGATTCATGTTTCTCTGTACTCAAATCATCAGTCCCAACAGTCATGCTTCTCAAGTCTGAAGTC
* * * * *
311723 ATCTTATCACCCCCATCAATC-TCAAATGAAA-CAACTCCGTTTGTAGTATC-ATCTTTTATATC
66 ATCCTATTACCCCCATCAA-CATCAAAGGAAACCAA-TCCGTTTGGAGTA-CAATCTTTTATATA
*
311785 TTGTGAACCATAAC
128 TTCTGAACCATAAC
* * * *
311799 CAGATTCATGTTTCTCTGTACCCAAATCATCAGTCCCAGCGGGT-AAGCTTCTCAAGTCTGAAGT
1 CAGATTCATGTTTCTCTGTACTCAAATCATCAGTCCCAAC-AGTCATGCTTCTCAAGTCTGAAGT
* * *
311863 CATCCTATTACCCCCATCCACATCAGATGAAACCA
65 CATCCTATTACCCCCATCAACATCAAAGGAAACCA
311898 CTTCGTTTAT
Statistics
Matches: 197, Mismatches: 34, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
139 7 0.04
140 99 0.50
141 87 0.44
142 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (141 bp):
CAGATTCATGTTTCTCTGTACTCAAATCATCAGTCCCAACAGTCATGCTTCTCAAGTCTGAAGTC
ATCCTATTACCCCCATCAACATCAAAGGAAACCAATCCGTTTGGAGTACAATCTTTTATATATTC
TGAACCATAAC
Found at i:313574 original size:510 final size:511
Alignment explanation
Indices: 312556--313574 Score: 1995
Period size: 510 Copynumber: 2.0 Consensus size: 511
312546 CATCATCGGT
312556 ACTAGGAGCATATGACTTAGCAGAACAATCAGATTCCATGAGCTGTTGCCACTGCTTAGTGATTG
1 ACTAGGAGCATATGACTTAGCAGAACAATCAGATTCCATGAGCTGTTGCCACTGCTTAGTGATTG
312621 AACCACAATTCTGATCTGGAGTAGCTTGAAAATCTACATGCATTCCAGGGGCTTCAAGGTTGGGA
66 AACCACAATTCTGATCTGGAGTAGCTTGAAAATCTACATGCATTCCAGGGGCTTCAAGGTTGGGA
* *
312686 CAAGTGGTCATTGGGTGTGGTGGTGATGGAGACCTAAACATAAGCCTTCTTTTCTTAATTGGAAC
131 CAAGTGGTCATTGGGTGTGGTGGTGATGGAGACCTAAACATAAACCTCCTTTTCTTAATTGGAAC
*
312751 ATTCTCCATTTTTTCACAAAAGTTCCGTCCTAAGATATCCACACCAAGCTGCTAATAGAAAAAAA
196 ATTCTCCATTTTTTCACAAAAGTGCCGTCCTAAGATATCCACACCAAGCTGCTAATAGAAAAAAA
312816 ATGGAGAATTAGATGAAACAAGTGAGAAACCCTTGAGGGTAGTCTTATAAGTACAAATTAATGTA
261 ATGGAGAATTAGATGAAACAAGTGAGAAACCCTTGAGGGTAGTCTTATAAGTACAAATTAATGTA
312881 ATCTTACCTTCTCTAACTCTGACACTGTAACATTCTCCATTTTTCTGGCATTTTTATTGGCTAGT
326 ATCTTACCTTCTCTAACTCTGACACTGTAACATTCTCCATTTTTCTGGCATTTTTATTGGCTAGT
312946 CCCAATCCTATTGTCATACTTATAGCAGCAACTGATTTCCTGGTACACCTGGTCCCTATCCTATT
391 CCCAATCCTATTGTCATACTTATAGCAGCAACTGATTTCCTGGTACACCTGGTCCCTATCCTATT
313011 CCTCTTCGAAACTGTCTTCCAAGTCAAGTCAGAATTCACAAAACTTCTGTGTTCAA
456 CCTCTTCGAAACTGTCTTCCAAGTCAAGTCAGAATTCACAAAACTTCTGTGTTCAA
313067 ACTAGGAGCATATGACTTAGCAGAACAATCAGATTCCATGAGCTGTTGCCACTGCTTAGTGATTG
1 ACTAGGAGCATATGACTTAGCAGAACAATCAGATTCCATGAGCTGTTGCCACTGCTTAGTGATTG
313132 AACCACAATTCTGATCTGGAGTAGCTTGAAAATCTACATGCATTCCAGGGGCTTCAAGGTTGGGA
66 AACCACAATTCTGATCTGGAGTAGCTTGAAAATCTACATGCATTCCAGGGGCTTCAAGGTTGGGA
313197 CAAGTGGTCATTGGGTGTGGTGGTGATGGAGACCTAAACATAAACCTCCTTTTCTTAATTGGAAC
131 CAAGTGGTCATTGGGTGTGGTGGTGATGGAGACCTAAACATAAACCTCCTTTTCTTAATTGGAAC
313262 ATTCTCCATTTTTTCACAAAAGTGCCGTCCTAAGATATCCACACCAAGCTGCTAATAG-AAAAAA
196 ATTCTCCATTTTTTCACAAAAGTGCCGTCCTAAGATATCCACACCAAGCTGCTAATAGAAAAAAA
313326 ATGGAGAATTAGATGAAACAAGTGAGAAACCCTTGAGGGTAGTCTTATAAGTACAAATTAATGTA
261 ATGGAGAATTAGATGAAACAAGTGAGAAACCCTTGAGGGTAGTCTTATAAGTACAAATTAATGTA
313391 ATCTTACCTTCTCTAACTCTGACACTGTAACATTCTCCATTTTTCTGGCATTTTTATTGGCTAGT
326 ATCTTACCTTCTCTAACTCTGACACTGTAACATTCTCCATTTTTCTGGCATTTTTATTGGCTAGT
*
313456 CCCAATCCTATTGTCATACTTATAGCAGCAACTGATTTCCTGGTACGCCTGGTCCCTATCCTATT
391 CCCAATCCTATTGTCATACTTATAGCAGCAACTGATTTCCTGGTACACCTGGTCCCTATCCTATT
313521 CCTCTTCGAAACTGTCTTCCAAGTCAAGTCAGAATTCACAAAACTTCTGTGTTC
456 CCTCTTCGAAACTGTCTTCCAAGTCAAGTCAGAATTCACAAAACTTCTGTGTTC
313575 CACACCTACC
Statistics
Matches: 504, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
510 254 0.50
511 250 0.50
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (511 bp):
ACTAGGAGCATATGACTTAGCAGAACAATCAGATTCCATGAGCTGTTGCCACTGCTTAGTGATTG
AACCACAATTCTGATCTGGAGTAGCTTGAAAATCTACATGCATTCCAGGGGCTTCAAGGTTGGGA
CAAGTGGTCATTGGGTGTGGTGGTGATGGAGACCTAAACATAAACCTCCTTTTCTTAATTGGAAC
ATTCTCCATTTTTTCACAAAAGTGCCGTCCTAAGATATCCACACCAAGCTGCTAATAGAAAAAAA
ATGGAGAATTAGATGAAACAAGTGAGAAACCCTTGAGGGTAGTCTTATAAGTACAAATTAATGTA
ATCTTACCTTCTCTAACTCTGACACTGTAACATTCTCCATTTTTCTGGCATTTTTATTGGCTAGT
CCCAATCCTATTGTCATACTTATAGCAGCAACTGATTTCCTGGTACACCTGGTCCCTATCCTATT
CCTCTTCGAAACTGTCTTCCAAGTCAAGTCAGAATTCACAAAACTTCTGTGTTCAA
Found at i:315330 original size:22 final size:22
Alignment explanation
Indices: 315280--315336 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
315270 TTACCCAGAT
315280 TTCAAATCAAAACACTCATCGTC
1 TTCAAAT-AAAACACTCATCGTC
*
315303 TCCAAATAAAACAATCTCA-C-TC
1 TTCAAATAAAAC-A-CTCATCGTC
*
315325 TTCAAAGAAAAC
1 TTCAAATAAAAC
315337 CTCCTCAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 17 0.59
23 8 0.28
24 4 0.14
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.23
Consensus pattern (22 bp):
TTCAAATAAAACACTCATCGTC
Found at i:317862 original size:59 final size:60
Alignment explanation
Indices: 317770--317883 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 60
317760 AGAATATTCA
** * * * * *
317770 AAAAGTTTGGGGACCAATTTAGGATGAAGGTCATAG-TTTGGGGTGGAATTGAAATGTTT
1 AAAAGTTTGAAGACCAACTTAGAATGAAGGTCATAGCTTAGGGATGAAATTGAAATGTTT
* *
317829 AAAAGTTTGAAGACTAACTTAGAATGACGGTCATAGCTTAGGGATGAAATTGAAA
1 AAAAGTTTGAAGACCAACTTAGAATGAAGGTCATAGCTTAGGGATGAAATTGAAA
317884 CATGTAGAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 30 0.67
60 15 0.33
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (60 bp):
AAAAGTTTGAAGACCAACTTAGAATGAAGGTCATAGCTTAGGGATGAAATTGAAATGTTT
Found at i:318810 original size:33 final size:33
Alignment explanation
Indices: 318774--318908 Score: 134
Period size: 33 Copynumber: 4.1 Consensus size: 33
318764 TGGCAATGTC
*
318774 AAGGCTAAAGAAAAAGAGAGTGATGACGGTGCC
1 AAGGCTAAAGAAAAAGAGAGTGATGACGGTGCA
**
318807 AAGGCTAAAGAAAAAGAGAGTGATGGTGGTGCA
1 AAGGCTAAAGAAAAAGAGAGTGATGACGGTGCA
* * * *
318840 AAGGAT-AAGAAAGGAAAACGTCGTGATAAC-G-G-A
1 AAGGCTAAAGAAA--AAGA-G-AGTGATGACGGTGCA
*
318873 AAGGCTAAAGATAAAGAGAGTGATGACGGTGCA
1 AAGGCTAAAGAAAAAGAGAGTGATGACGGTGCA
318906 AAG
1 AAG
318909 ATCAAGAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
30 7 0.09
31 2 0.03
32 10 0.12
33 45 0.56
34 9 0.11
35 2 0.03
36 5 0.06
ACGTcount: A:0.44, C:0.09, G:0.33, T:0.13
Consensus pattern (33 bp):
AAGGCTAAAGAAAAAGAGAGTGATGACGGTGCA
Done.