Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001088.1 Hibiscus syriacus cultivar Beakdansim tig00002149_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: 124344
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1152 original size:18 final size:17
Alignment explanation
Indices: 1129--1167 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1119 ATATATATAT
1129 ATATTAAATTTAATTAAA
1 ATATT-AATTTAATTAAA
**
1147 ATATTAATTTTTTTAAA
1 ATATTAATTTAATTAAA
1164 ATAT
1 ATAT
1168 CATATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATTTAATTAAA
Found at i:4126 original size:32 final size:32
Alignment explanation
Indices: 4087--4153 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
4077 AAGTGGGTTA
4087 GGTTAGGTGATCAGGTCGGATATGGGATAGGG
1 GGTTAGGTGATCAGGTCGGATATGGGATAGGG
*
4119 GGTTAGGTGATCATGTCGGATATGGGATAGGG
1 GGTTAGGTGATCAGGTCGGATATGGGATAGGG
4151 GGT
1 GGT
4154 CAGATTGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.06, G:0.46, T:0.27
Consensus pattern (32 bp):
GGTTAGGTGATCAGGTCGGATATGGGATAGGG
Found at i:7125 original size:39 final size:39
Alignment explanation
Indices: 7082--7202 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 39
7072 GGACTTATCT
* * * *
7082 TGTGCACAAAGTAGAGGAGCTTATGGTAAGAGTTTACCC
1 TGTGCACAAAATAAAGGAGCTTACGGTAAGAGCTTACCC
* * *
7121 TGTGCACAAAATAAATGAGCCTACGGTAAGGGCTTACCC
1 TGTGCACAAAATAAAGGAGCTTACGGTAAGAGCTTACCC
* * *
7160 TGTGCATAAAATAAAGGAGCTTGCGGTAAG-GACTTACCA
1 TGTGCACAAAATAAAGGAGCTTACGGTAAGAG-CTTACCC
7199 TGTG
1 TGTG
7203 AACGAAGCAG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
38 1 0.01
39 68 0.99
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (39 bp):
TGTGCACAAAATAAAGGAGCTTACGGTAAGAGCTTACCC
Found at i:8171 original size:27 final size:27
Alignment explanation
Indices: 8141--8193 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8131 TATTCTAGAA
8141 CTCAAGGGTATTTCGGTCATTTTAATG
1 CTCAAGGGTATTTCGGTCATTTTAATG
* **
8168 CTCATGGGTATTTTTGTCATTTTAAT
1 CTCAAGGGTATTTCGGTCATTTTAAT
8194 AAATTCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (27 bp):
CTCAAGGGTATTTCGGTCATTTTAATG
Found at i:8983 original size:23 final size:23
Alignment explanation
Indices: 8943--8990 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
8933 TGGTCTCAAA
* *
8943 AAAGTCAACGAAGGTCAACGGTC
1 AAAGTCAACGAAGATCAACGCTC
**
8966 AAAGTCAACGTCGATCAACGCTC
1 AAAGTCAACGAAGATCAACGCTC
8989 AA
1 AA
8991 TGACGGCGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (23 bp):
AAAGTCAACGAAGATCAACGCTC
Found at i:10032 original size:155 final size:159
Alignment explanation
Indices: 9745--10061 Score: 534
Period size: 155 Copynumber: 2.0 Consensus size: 159
9735 TCTTATATAT
9745 TTAATATTCTCTAAAAAATCAAAGTTTTATTCATTTTATTGTTTTCGTTATAATACATGCTAAAT
1 TTAATATTCTCTAAAAAATCAAAGTTTTATTCATTTTATTGTTTTCGTTATAATACATGCT-AAT
* * * *
9810 ATAATATGTTTTAAACTAAGATCTCAAATTGAGTGTTGGTCTAGTGATATCAGCATGCCTCAACA
65 ATAATATGTTGTAAAATAAGATCTCAAATTGAGTGTTGGTCTAGCGATATCAACATGCCTCAACA
9875 ACACAAAAGATCGAGTTCAATCCCCTTCAA
130 ACACAAAAGATCGAGTTCAATCCCCTTCAA
*
9905 TTAATATTCTCTAAAAAATCAAAGTTTTATTCATTTTATTGTTTTTGTT-TAATACATGCT-A-A
1 TTAATATTCTCTAAAAAATCAAAGTTTTATTCATTTTATTGTTTTCGTTATAATACATGCTAATA
* *
9967 -AATATGTTGTAAAATAAGATCTCAAATTGAGTGTTGGTCTAGCGATATGAACGTGCCTCAACAA
66 TAATATGTTGTAAAATAAGATCTCAAATTGAGTGTTGGTCTAGCGATATCAACATGCCTCAACAA
10031 CACAAAAGATCGAGTTCAATCCCCTTCAA
131 CACAAAAGATCGAGTTCAATCCCCTTCAA
10060 TT
1 TT
10062 GTTACTTTTC
Statistics
Matches: 150, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
155 89 0.59
156 1 0.01
157 1 0.01
159 11 0.07
160 48 0.32
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (159 bp):
TTAATATTCTCTAAAAAATCAAAGTTTTATTCATTTTATTGTTTTCGTTATAATACATGCTAATA
TAATATGTTGTAAAATAAGATCTCAAATTGAGTGTTGGTCTAGCGATATCAACATGCCTCAACAA
CACAAAAGATCGAGTTCAATCCCCTTCAA
Found at i:10240 original size:18 final size:17
Alignment explanation
Indices: 10208--10241 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10198 AATTTATATT
*
10208 TTAAAATAATTAAATAA
1 TTAAAATAATAAAATAA
10225 TTAAAATTAATAAAATA
1 TTAAAA-TAATAAAATA
10242 TATCTTCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAATAATAAAATAA
Found at i:13817 original size:12 final size:12
Alignment explanation
Indices: 13796--13831 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13786 GTTCACGAAC
13796 AAGCTCGTTTAT
1 AAGCTCGTTTAT
* *
13808 GAGCTTGTTTAT
1 AAGCTCGTTTAT
13820 AAGCTCGTTTAT
1 AAGCTCGTTTAT
13832 TAACTTGTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:14089 original size:21 final size:22
Alignment explanation
Indices: 14054--14117 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
14044 ATCAAATATG
*
14054 TAAATGAACGATAAAC-AACAC
1 TAAATGAACGCTAAACAAACAC
*
14075 TAAAAT-AATGCTAAACAAACAC
1 T-AAATGAACGCTAAACAAACAC
*
14097 TAAATGAACGCTAAACGAACA
1 TAAATGAACGCTAAACAAACA
14118 TATTCGTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.56, C:0.19, G:0.09, T:0.16
Consensus pattern (22 bp):
TAAATGAACGCTAAACAAACAC
Found at i:14153 original size:24 final size:23
Alignment explanation
Indices: 14108--14163 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
14098 AAATGAACGC
**
14108 TAAACGAACATATTCGTGAACAT
1 TAAACGAACATATTCGCAAACAT
* *
14131 ATAAACGAACATGTTTGCAAACAT
1 -TAAACGAACATATTCGCAAACAT
*
14155 CAAACGAAC
1 TAAACGAAC
14164 GCTAAACAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.21
Consensus pattern (23 bp):
TAAACGAACATATTCGCAAACAT
Found at i:15438 original size:2 final size:2
Alignment explanation
Indices: 15431--15466 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15421 AAAAGGTCAA
15431 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
15467 GGATTCTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16427 original size:2 final size:2
Alignment explanation
Indices: 16420--16510 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
16410 TGAAATACAC
16420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16462 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16504 TA TA TA T
1 TA TA TA T
16511 GGGGATACTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17432 original size:43 final size:44
Alignment explanation
Indices: 17325--17446 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 44
17315 CCATAAAGTC
* * *
17325 TCAACATTCCCAATGCTTTCCAAACTTCTAAACAGTAATTTGAGGA
1 TCAACATTCCCTATGCTCTCCAAACTTCTAAACAG--ATTTAAGGA
* *
17371 TCAACA-TCCCTATGCTCTCCAACCTTTTAAACAG-TTTAAGGA
1 TCAACATTCCCTATGCTCTCCAAACTTCTAAACAGATTTAAGGA
17413 TCAACATTCCCTATGCTCTCCAAACTTCTAAACA
1 TCAACATTCCCTATGCTCTCCAAACTTCTAAACA
17447 ACTGAGTGAC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 13 0.19
43 25 0.37
45 24 0.35
46 6 0.09
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.30
Consensus pattern (44 bp):
TCAACATTCCCTATGCTCTCCAAACTTCTAAACAGATTTAAGGA
Found at i:30429 original size:32 final size:32
Alignment explanation
Indices: 30393--30469 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
30383 ACAAAGTTTA
* *
30393 CGATAATTGAAATACTTAAATACTTTCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTT
*
30425 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGAT-AATTGAAATACTTAAAAACTTCCAAGTT
30458 CGATAATTGAAA
1 CGATAATTGAAA
30470 CAAAGTTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 29 0.73
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (32 bp):
CGATAATTGAAATACTTAAAAACTTCCAAGTT
Found at i:30483 original size:21 final size:21
Alignment explanation
Indices: 30458--30499 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30448 CTTCCAAGTT
30458 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
30479 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
30500 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:31742 original size:21 final size:21
Alignment explanation
Indices: 31718--31820 Score: 93
Period size: 21 Copynumber: 5.0 Consensus size: 21
31708 GCAAATTCAC
31718 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
31739 GTTGAAAATCGCGTTGCG-TT
1 GTTGCATTTCGCGTTGCGATA
* *
31759 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
31780 GTTGGAGATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
31800 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
31821 TTTGAAATCG
Statistics
Matches: 60, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 29 0.48
21 31 0.52
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:31767 original size:41 final size:40
Alignment explanation
Indices: 31722--31831 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 40
31712 ATTCACGTTG
*
31722 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTG-AAATCGCGTTGCGATTTTC
*
31763 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTT-GAAATCGCGTTGCGATTTTC
*
31804 CATTTCGCGTTGCGATATTTGAAATCGC
1 CATTTCGCGTTGCGATAGTTGAAATCGC
31832 AACGCGATCT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 7 0.11
41 56 0.88
42 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.37
Consensus pattern (40 bp):
CATTTCGCGTTGCGATAGTTGAAATCGCGTTGCGATTTTC
Found at i:31818 original size:20 final size:20
Alignment explanation
Indices: 31747--31819 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
31737 TAGTTGAAAA
*
31747 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
31767 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
31788 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
31808 TCGCGTTGCGAT
1 TCGCGTTGCGAT
31820 ATTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:31831 original size:20 final size:20
Alignment explanation
Indices: 31726--31831 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 20
31716 ACGTTGCATT
*
31726 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATATTTG-AAA
* * **
31747 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATATTT-GAAA
* *
31767 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATA-TTTGAAA
* **
31788 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATATTT-GAAA
31808 TCGCGTTGCGATATTTGAAA
1 TCGCGTTGCGATATTTGAAA
31828 TCGC
1 TCGC
31832 AACGCGATCT
Statistics
Matches: 63, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.03
20 32 0.51
21 27 0.43
22 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATATTTGAAA
Found at i:31897 original size:21 final size:21
Alignment explanation
Indices: 31867--32023 Score: 119
Period size: 21 Copynumber: 7.6 Consensus size: 21
31857 CGTGTTGCAT
* *
31867 TTCGCATTGCGATAGTCTACA
1 TTCGCGTTGCGATAGTTTACA
* *
31888 GTCGCGTTGCGAT--TTTCCA
1 TTCGCGTTGCGATAGTTTACA
* *
31907 TTTCGCGTTGCGATAGTTGAAA
1 -TTCGCGTTGCGATAGTTTACA
* *
31929 ATCGCGTTGCGAT--TTTCCA
1 TTCGCGTTGCGATAGTTTACA
* *
31948 TTTCGCGTTGCGATAGTTGAAA
1 -TTCGCGTTGCGATAGTTTACA
* *
31970 ATCGCGTTGCGAT--TTTCCA
1 TTCGCGTTGCGATAGTTTACA
*
31989 TTTCGCGTTGCGATAGTCTACA
1 -TTCGCGTTGCGATAGTTTACA
*
32011 GTCGCGTTGCGAT
1 TTCGCGTTGCGAT
32024 TTTCCAAATT
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
19 10 0.10
20 36 0.35
21 47 0.46
22 10 0.10
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTTTACA
Found at i:31912 original size:41 final size:41
Alignment explanation
Indices: 31864--32051 Score: 258
Period size: 41 Copynumber: 4.6 Consensus size: 41
31854 ATTCGTGTTG
* * *
31864 CATTTCGCATTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
31905 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
31946 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
31987 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* *
32028 CAAATT--CGTTGCGATAGTTAAAAA
1 C-ATTTCGCGTTGCGATAGTTGAAAA
32052 AGATTTTGTT
Statistics
Matches: 135, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 1 0.01
40 15 0.11
41 115 0.85
42 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:31942 original size:142 final size:143
Alignment explanation
Indices: 31693--31974 Score: 435
Period size: 142 Copynumber: 2.0 Consensus size: 143
31683 AATTCGCATT
* * *
31693 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGT
1 GCGATCTCCACTATCACAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGA
* * *
31758 TTTTCCATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATATT
66 TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
31823 TG-AAATCGCAAC
131 TGAAAATCGCAAC
** * *
31835 GCGATCTCCA-TAATCACAAATTCGTGTTGCATTTCGCATTGCGATAGTCT-ACAGTCGCGTTGC
1 GCGATCTCCACT-ATCACAAATTCACGTTGCATTTCGCATTGCGATAGT-TGAAAATCGCGTTGC
31898 GATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATA
64 GATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATA
31963 GTTGAAAATCGC
129 GTTGAAAATCGC
31975 GTTGCGATTT
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
141 1 0.01
142 118 0.93
143 8 0.06
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (143 bp):
GCGATCTCCACTATCACAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGA
TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
TGAAAATCGCAAC
Found at i:32131 original size:11 final size:10
Alignment explanation
Indices: 32115--32205 Score: 66
Period size: 11 Copynumber: 9.0 Consensus size: 10
32105 GAAGACACTA
32115 CCACGACCACG
1 CCACGA-CACG
32126 CCACGACACG
1 CCACGACACG
32136 ACCACGACACG
1 -CCACGACACG
*
32147 ACACGACACGG
1 CCACGACAC-G
*
32158 ACACGACAGACG
1 CCACGAC--ACG
32170 ACCACGAC-CG
1 -CCACGACACG
*
32180 ACACGACACG
1 CCACGACACG
32190 --ACGACACG
1 CCACGACACG
32198 --ACGACACG
1 CCACGACACG
32206 GACGGCGGCG
Statistics
Matches: 71, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
8 16 0.23
9 6 0.08
10 16 0.23
11 24 0.34
12 1 0.01
13 8 0.11
ACGTcount: A:0.35, C:0.43, G:0.22, T:0.00
Consensus pattern (10 bp):
CCACGACACG
Found at i:32135 original size:5 final size:5
Alignment explanation
Indices: 32116--32205 Score: 85
Period size: 5 Copynumber: 16.8 Consensus size: 5
32106 AAGACACTAC
*
32116 CACGA CCACGC CACGA CACGA CCACGA CACGA CACGA CACGGA CACGA
1 CACGA -CACGA CACGA CACGA -CACGA CACGA CACGA CAC-GA CACGA
32164 CAGACGA CCACGA C-CGA CACGA CACGA CGAC-A CGACGA CACG
1 C--ACGA -CACGA CACGA CACGA CACGA C-ACGA C-ACGA CACG
32206 GACGGCGGCG
Statistics
Matches: 74, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
4 4 0.05
5 43 0.58
6 22 0.30
7 4 0.05
8 1 0.01
ACGTcount: A:0.36, C:0.42, G:0.22, T:0.00
Consensus pattern (5 bp):
CACGA
Found at i:32137 original size:16 final size:16
Alignment explanation
Indices: 32116--32199 Score: 100
Period size: 16 Copynumber: 5.1 Consensus size: 16
32106 AAGACACTAC
*
32116 CACGACCACGCCACGA
1 CACGACCACGACACGA
32132 CACGACCACGACACGA
1 CACGACCACGACACGA
32148 CACGA-CACGGACACGA
1 CACGACCAC-GACACGA
32164 CAGACGACCACGAC-CGA
1 C--ACGACCACGACACGA
32181 CACGACACGACGACACGA
1 CACGAC-C-ACGACACGA
32199 C
1 C
32200 GACACGGACG
Statistics
Matches: 60, Mismatches: 1, Indels: 12
0.82 0.01 0.16
Matches are distributed among these distances:
15 8 0.13
16 29 0.48
17 9 0.15
18 11 0.18
19 3 0.05
ACGTcount: A:0.36, C:0.43, G:0.21, T:0.00
Consensus pattern (16 bp):
CACGACCACGACACGA
Found at i:32194 original size:13 final size:13
Alignment explanation
Indices: 32128--32199 Score: 73
Period size: 11 Copynumber: 5.8 Consensus size: 13
32118 CGACCACGCC
32128 ACGACACGAC-C-
1 ACGACACGACACG
32139 ACGACACGACACG
1 ACGACACGACACG
*
32152 AC-AC-GGACACG
1 ACGACACGACACG
*
32163 AC-AGACGACCACG
1 ACGACACGA-CACG
32176 ACCGACACGACACG
1 A-CGACACGACACG
32190 ACGACACGAC
1 ACGACACGAC
32200 GACACGGACG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
11 19 0.37
12 5 0.10
13 16 0.31
14 6 0.12
15 5 0.10
ACGTcount: A:0.38, C:0.40, G:0.22, T:0.00
Consensus pattern (13 bp):
ACGACACGACACG
Found at i:32682 original size:6 final size:6
Alignment explanation
Indices: 32671--32726 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
32661 TCTCGTGGGT
32671 GTCGTG GTCGT- G--GTG GTCGTG GTCG-G G-CG-G GTCGTG G-CGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
32712 GTCGTGG GTCGTG GT
1 GTCGT-G GTCGTG GT
32727 GGTGTGGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
3 2 0.05
4 5 0.12
5 10 0.23
6 20 0.47
7 6 0.14
ACGTcount: A:0.00, C:0.16, G:0.55, T:0.29
Consensus pattern (6 bp):
GTCGTG
Found at i:32683 original size:15 final size:15
Alignment explanation
Indices: 32663--32712 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
32653 CCGTCTCGTC
32663 TCGTGGGTGTCGTGG
1 TCGTGGGTGTCGTGG
32678 TCGT-GGTGGTCGTGG
1 TCGTGGGT-GTCGTGG
*
32693 TCG-GGCGGGTCGTGG
1 TCGTGG-GTGTCGTGG
32708 -CGTGG
1 TCGTGG
32713 TCGTGGGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 5 0.17
15 24 0.80
16 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.56, T:0.28
Consensus pattern (15 bp):
TCGTGGGTGTCGTGG
Found at i:32860 original size:20 final size:20
Alignment explanation
Indices: 32835--33029 Score: 115
Period size: 20 Copynumber: 9.6 Consensus size: 20
32825 ACTGTAGACT
32835 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
32855 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
32876 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
32896 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
32917 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*** ** ** *
32937 ATCGCGTTGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
32958 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATGGAAA
*** * ** *
32978 ATCGCGTTGCG-ATTTCAACT
1 ATCGCAACGCGAAATGGAA-A
32998 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
33018 ATCGCAACGCGA
1 ATCGCAACGCGA
33030 TTTCAACTTG
Statistics
Matches: 122, Mismatches: 46, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
19 7 0.06
20 68 0.56
21 44 0.36
22 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:32881 original size:41 final size:40
Alignment explanation
Indices: 32832--33048 Score: 305
Period size: 41 Copynumber: 5.4 Consensus size: 40
32822 ACAACTGTAG
32832 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA-TTTCA
*
32873 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA-TTTCA
***
32913 GACTATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA-TTTCA
* ***
32955 ACTATCGCAACGCGAAATAGAAAATCGCGTTGCGATTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCA
32995 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCA
33035 ACT-T-GCAACGCGAA
1 ACTATCGCAACGCGAA
33049 TTCGATGCGA
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
38 10 0.06
39 1 0.01
40 45 0.28
41 105 0.65
42 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCA
Found at i:32922 original size:21 final size:21
Alignment explanation
Indices: 32808--32929 Score: 94
Period size: 21 Copynumber: 5.9 Consensus size: 21
32798 CTTTTTTTTA
32808 AGACTATCGCAACGAC-AACTGT
1 AGACTATCGCAACG-CGAA-TGT
32830 AGACTATCGCAACGCGAAATG-
1 AGACTATCGCAACGCG-AATGT
** * *
32851 -GAAAATCGCAACGCGATTTT
1 AGACTATCGCAACGCGAATGT
32871 CA-ACTATCGCAACGCGAAATG-
1 -AGACTATCGCAACGCG-AATGT
** *
32892 -GAAAATCGCAACGCGACTGT
1 AGACTATCGCAACGCGAATGT
32912 AGACTATCGCAACGCGAA
1 AGACTATCGCAACGCGAA
32930 ATGGAAAATC
Statistics
Matches: 77, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
19 5 0.06
20 25 0.32
21 27 0.35
22 18 0.23
23 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.16
Consensus pattern (21 bp):
AGACTATCGCAACGCGAATGT
Found at i:32922 original size:82 final size:82
Alignment explanation
Indices: 32813--33048 Score: 338
Period size: 82 Copynumber: 2.9 Consensus size: 82
32803 TTTTAAGACT
*
32813 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTAT
1 ATCGCAACG-CGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTAT
*
32878 CGCAACGCGAAATGGAAA
65 CGCAACGCGAAATAGAAA
***
32896 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACTATC
1 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
32961 GCAACGCGAAATAGAAA
66 GCAACGCGAAATAGAAA
*** *
32978 ATCGCGTTGCGA-TTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA-TTTCAACT-T
1 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTAT
33039 -GCAACGCGAA
65 CGCAACGCGAA
33049 TTCGATGCGA
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
78 10 0.07
79 1 0.01
80 8 0.06
81 34 0.24
82 78 0.56
83 9 0.06
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (82 bp):
ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
GCAACGCGAAATAGAAA
Found at i:36239 original size:18 final size:17
Alignment explanation
Indices: 36207--36241 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36197 GTTGTCTGAA
36207 ATTTTATACTTTATATG
1 ATTTTATACTTTATATG
*
36224 ATTTTATATGTTTATATG
1 ATTTTATA-CTTTATATG
36242 TATGATTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (17 bp):
ATTTTATACTTTATATG
Found at i:36754 original size:21 final size:21
Alignment explanation
Indices: 36730--36829 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 21
36720 AAATGATTGG
36730 TCCCTTTTAGAAAAGGATCGA
1 TCCCTTTTAGAAAAGGATCGA
*
36751 TCCCTTGCATTTTCCAGAAAAAAGATCGA
1 T-CC---C-TTTT--AGAA-AAGGATCGA
36780 TCCCTTTGTA-AAAAGGATCGA
1 TCCCTTT-TAGAAAAGGATCGA
* ** *
36801 TTCCTTTTCCAAAAGGATCAA
1 TCCCTTTTAGAAAAGGATCGA
*
36822 TTCCTTTT
1 TCCCTTTT
36830 TGCGAATGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
20 1 0.02
21 33 0.52
22 4 0.06
23 1 0.02
24 3 0.05
25 3 0.05
26 4 0.06
28 6 0.09
29 9 0.14
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (21 bp):
TCCCTTTTAGAAAAGGATCGA
Found at i:36784 original size:50 final size:50
Alignment explanation
Indices: 36709--36806 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
36699 TAAAAATGCA
* * *
36709 ATTTTCCAGAAAAATGATTGGTCCCTTT-TAGAAAAGGATCGATCCCTTGC
1 ATTTTCCAGAAAAAAGATCGATCCCTTTGTA-AAAAGGATCGATCCCTTGC
*
36759 ATTTTCCAGAAAAAAGATCGATCCCTTTGTAAAAAGGATCGATTCCTT
1 ATTTTCCAGAAAAAAGATCGATCCCTTTGTAAAAAGGATCGATCCCTT
36807 TTCCAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 41 0.95
51 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (50 bp):
ATTTTCCAGAAAAAAGATCGATCCCTTTGTAAAAAGGATCGATCCCTTGC
Found at i:36794 original size:20 final size:21
Alignment explanation
Indices: 36768--36807 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36758 CATTTTCCAG
*
36768 AAAAAAGATCGATCCCTTTGT
1 AAAAAGGATCGATCCCTTTGT
*
36789 AAAAAGGATCGATTCCTTT
1 AAAAAGGATCGATCCCTTT
36808 TCCAAAAGGA
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:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAAAGGATCGATCCCTTTGT
Found at i:36830 original size:22 final size:21
Alignment explanation
Indices: 36790--36829 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36780 TCCCTTTGTA
*
36790 AAAAGGATCGATTCCTTTTCC
1 AAAAGGATCAATTCCTTTTCC
36811 AAAAGGATCAATTCCTTTT
1 AAAAGGATCAATTCCTTTT
36830 TGCGAATGAT
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:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAAGGATCAATTCCTTTTCC
Found at i:37099 original size:16 final size:16
Alignment explanation
Indices: 37078--37111 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37068 TTGGTAAGAT
37078 TTTTCAAAACCATAAA
1 TTTTCAAAACCATAAA
* *
37094 TTTTCAATACTATAAA
1 TTTTCAAAACCATAAA
37110 TT
1 TT
37112 CGGATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTTCAAAACCATAAA
Found at i:37929 original size:24 final size:28
Alignment explanation
Indices: 37883--37935 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 28
37873 TACATCTCCT
37883 TTTATAATAAATAAACCCTTGTA-CATA
1 TTTATAATAAATAAACCCTTGTACCATA
37910 TTTATAA-AAAT-AACCC-TGTACCATA
1 TTTATAATAAATAAACCCTTGTACCATA
37935 T
1 T
37936 CGCGAGGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.16
25 10 0.40
26 4 0.16
27 7 0.28
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (28 bp):
TTTATAATAAATAAACCCTTGTACCATA
Found at i:38451 original size:30 final size:24
Alignment explanation
Indices: 38380--38440 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
38370 GCTTCTTTTG
*
38380 CAGCTTCATTTGCTGCCATGTATT
1 CAGCTTCATTTGTTGCCATGTATT
38404 CAGCTTCATTTGTTGCCATGTATT
1 CAGCTTCATTTGTTGCCATGTATT
*
38428 CAGCTTCAGTTGT
1 CAGCTTCATTTGT
38441 AGATAATGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (24 bp):
CAGCTTCATTTGTTGCCATGTATT
Found at i:48761 original size:165 final size:165
Alignment explanation
Indices: 48350--48958 Score: 979
Period size: 165 Copynumber: 3.7 Consensus size: 165
48340 ACCTGCCACC
* *
48350 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
*** * ** * *
48415 AAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCGCATCATTTGCAG
* * * **
48480 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGA--A
131 CATAACTTAAGTCAAGAAGGGTTATCTGCCA-ATCA
* *
48514 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
*
48579 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCGCATCATTTGCAG
48644 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCA
131 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCA
*
48679 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
*
48744 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCGCATCATTTGCAG
48809 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCA
131 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCA
* *
48844 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* *
48909 AAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCAACTTCGAGG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGG
48959 TGATATCATT
Statistics
Matches: 419, Mismatches: 24, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
163 1 0.00
164 144 0.34
165 274 0.65
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (165 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCGCATCATTTGCAG
CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCA
Found at i:48996 original size:81 final size:79
Alignment explanation
Indices: 48309--48998 Score: 588
Period size: 81 Copynumber: 8.4 Consensus size: 79
48299 TAAACAAACT
* * * * * * *
48309 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCA--AAGACC-CCGAGTTCGATTACGCT
* * * *
48374 CAGCTCCAAGGCACATC
63 CAGCTTCGAGGGATATC
* * * ** *
48391 ATTTACAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTACGCTCA
* *
48456 GCTTCAAGGGCATAAC
65 GCTTCGAGGG-ATATC
* * * * * * ** ** *
48472 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGAAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACC-CCGAGTTCGATTACGC
* * * *
48537 TCAGCTCCAAGGCACATC
62 TCAGCTTCGAGGGATATC
* *
48555 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACGCTCA
**
48620 GCTTCGAGGGCGCATC
65 GCTTCGAGGG-ATATC
* * * *
48636 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG-C---CAAAGACC-CCGAGTTCGATTACG
* * *
48701 CTCAGCTCCAAGGCATATC
61 CTCAGCTTCGAGGGATATC
*
48720 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACGCTCA
**
48785 GCTTCGAGGGCGCATC
65 GCTTCGAGGG-ATATC
* * * *
48801 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG-C---CAAAGACC-CCGAGTTCGATTACG
* * *
48866 CTCAGCTCCAAGGCATATC
61 CTCAGCTTCGAGGGATATC
*
48885 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTACGCTCA
*
48950 ACTTCGAGGTGATATC
65 GCTTCGAGG-GATATC
* ** * * *
48966 ATTTACAATATAGCTCATGGCAAGAAGGGCTAT
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTAT
48999 TTGTCAATAA
Statistics
Matches: 492, Mismatches: 94, Indels: 45
0.78 0.15 0.07
Matches are distributed among these distances:
80 115 0.23
81 142 0.29
82 34 0.07
83 34 0.07
84 107 0.22
85 60 0.12
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (79 bp):
ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCGAGTTCGATTACGCTCAG
CTTCGAGGGATATC
Found at i:50773 original size:16 final size:15
Alignment explanation
Indices: 50735--50775 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
50725 CTTTGTTCTT
* *
50735 ATTTAATTTTATTTA
1 ATTTATTTTTAATTA
50750 ATTTATTTTTAATTA
1 ATTTATTTTTAATTA
50765 ATATTATTTTT
1 AT-TTATTTTT
50776 GTGTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTATTTTTAATTA
Found at i:50877 original size:13 final size:12
Alignment explanation
Indices: 50855--50996 Score: 81
Period size: 13 Copynumber: 11.2 Consensus size: 12
50845 ATTATTCTAA
50855 TTTTTATTATTT
1 TTTTTATTATTT
*
50867 CTTTTTTTTA-TT
1 -TTTTTATTATTT
50879 TTTTTATTATTT
1 TTTTTATTATTT
* *
50891 TTATTATATATAT
1 TTTTTAT-TATTT
* *
50904 TTTATGTTA-TT
1 TTTTTATTATTT
*
50915 TTTTTATTTTCTT
1 TTTTTATTAT-TT
*
50928 TTTATTTTTATTT
1 TTT-TTATTATTT
* *
50941 TTTTTAAACTAATT
1 TTTTT--ATTATTT
*
50955 TTCTTATTATTT
1 TTTTTATTATTT
*
50967 TTTATTTTTAATTT
1 TTT-TTATT-ATTT
*
50981 ATTTTATTATTAT
1 TTTTTATTATT-T
50994 TTT
1 TTT
50997 ATTCTTCTGT
Statistics
Matches: 95, Mismatches: 24, Indels: 20
0.68 0.17 0.14
Matches are distributed among these distances:
11 15 0.16
12 24 0.25
13 37 0.39
14 19 0.20
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (12 bp):
TTTTTATTATTT
Found at i:50941 original size:11 final size:11
Alignment explanation
Indices: 50854--50999 Score: 60
Period size: 11 Copynumber: 13.3 Consensus size: 11
50844 GATTATTCTA
50854 ATTTTTATTATT
1 ATTTTTATT-TT
50866 -TCTTTT-TTTT
1 AT-TTTTATTTT
50876 ATTTTT-TTATT
1 ATTTTTATT-TT
50887 ATTTTTATTATAT
1 ATTTTTATT-T-T
*
50900 ATATTTTATGTT
1 AT-TTTTATTTT
50912 A--TTT-TTTT
1 ATTTTTATTTT
50920 ATTTTCT-TTTT
1 ATTTT-TATTTT
50931 ATTTTTATTTT
1 ATTTTTATTTT
* ** *
50942 -TTTTAAACTA
1 ATTTTTATTTT
*
50952 ATTTTCT-TATT
1 ATTTT-TATTTT
50963 ATTTTTTATTTT
1 A-TTTTTATTTT
*
50975 -TAATTTATTTT
1 AT-TTTTATTTT
*
50986 ATTATTATTTT
1 ATTTTTATTTT
50997 ATT
1 ATT
51000 CTTCTGTTTT
Statistics
Matches: 104, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.04
9 3 0.03
10 18 0.17
11 51 0.49
12 18 0.17
13 4 0.04
14 6 0.06
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:50982 original size:50 final size:48
Alignment explanation
Indices: 50851--50994 Score: 134
Period size: 50 Copynumber: 2.9 Consensus size: 48
50841 ACTGATTATT
* *
50851 CTAA-TTTTTATTATTTCTTT-TTTTTATTTTTTTATTATTTTTATTATA
1 CTAATTTTTTATTATTT-TTTATTTTTATTTATTT-TTATTTTTATTAAA
* * * *
50899 -TATATTTTATGTTATTTTTTTATTTTCTTTTTATTTTTATTTTTTTTAAA
1 CTA-ATTTTTTATTA-TTTTTTATTTT-TATTTATTTTTATTTTTATTAAA
*
50949 CTAATTTTCTTATTATTTTTTATTTTTAATTTA-TTTTATTATTATT
1 CTAATTTT-TTATTATTTTTTATTTTT-ATTTATTTTTATTTTTATT
50995 TTATTCTTCT
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
47 2 0.03
48 1 0.01
49 22 0.29
50 39 0.51
51 13 0.17
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (48 bp):
CTAATTTTTTATTATTTTTTATTTTTATTTATTTTTATTTTTATTAAA
Found at i:50984 original size:29 final size:31
Alignment explanation
Indices: 50917--50999 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 31
50907 ATGTTATTTT
* *
50917 TTTATTTTCTTTTTATTTTTATTTTTTTTAAA
1 TTTATTTTCTTATTA-TTTTATTATTTTTAAA
* *
50949 CTAATTTTCTTATTATTTT-TTATTTTT-AA
1 TTTATTTTCTTATTATTTTATTATTTTTAAA
*
50978 TTTATTTTATTATTATTTTATT
1 TTTATTTTCTTATTATTTTATT
51000 CTTCTGTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 18 0.42
30 9 0.21
31 4 0.09
32 12 0.28
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTATTTTCTTATTATTTTATTATTTTTAAA
Found at i:51973 original size:24 final size:28
Alignment explanation
Indices: 51930--51982 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 28
51920 TACATCTCCT
51930 TTTATAATAAATAAACCCTTGTA-CATA
1 TTTATAATAAATAAACCCTTGTACCATA
51957 TTTATAA-AAAT-AA-CCTTGTACCATA
1 TTTATAATAAATAAACCCTTGTACCATA
51982 T
1 T
51983 CGCGAGGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.28
25 7 0.28
26 4 0.16
27 7 0.28
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (28 bp):
TTTATAATAAATAAACCCTTGTACCATA
Found at i:61927 original size:13 final size:13
Alignment explanation
Indices: 61909--61935 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61899 TTACAGACGC
61909 GCATATGAAGACT
1 GCATATGAAGACT
61922 GCATATGAAGACT
1 GCATATGAAGACT
61935 G
1 G
61936 TTAATCTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:63495 original size:22 final size:23
Alignment explanation
Indices: 63450--63495 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
63440 ATTGTGACAT
*
63450 TTTTTTCTACTCTTGTGGAACACG
1 TTTTCTCTACTCTTGTGG-ACACG
*
63474 TTTTCTCTGCTCTTGTGG-CACG
1 TTTTCTCTACTCTTGTGGACACG
63496 ATCCTTATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.46
Consensus pattern (23 bp):
TTTTCTCTACTCTTGTGGACACG
Found at i:63911 original size:42 final size:42
Alignment explanation
Indices: 63864--63946 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
63854 AATGACCATT
* *
63864 GTCTCTAATTTTCTTTCTATATTTGGTTGCATTGTAATTCTG
1 GTCTCTAATTTTCTTTCTATATTTGGATGCATCGTAATTCTG
63906 GTCTCTAATTTTCTTTCTATATTTGGATGCATCGTAATTCT
1 GTCTCTAATTTTCTTTCTATATTTGGATGCATCGTAATTCT
63947 CGTTTCTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (42 bp):
GTCTCTAATTTTCTTTCTATATTTGGATGCATCGTAATTCTG
Found at i:66300 original size:31 final size:31
Alignment explanation
Indices: 66238--66302 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
66228 GAGCTGCTCA
*
66238 CGAGCTTTAACTCAGGATTTCGAGTTTGAGT
1 CGAGCTTTAACTCAGGATTTCGAGTTCGAGT
** *
66269 CGAGCTTTATTTCAGAGTTTTCGAG-TCGAGT
1 CGAGCTTTAACTCAG-GATTTCGAGTTCGAGT
66300 CGA
1 CGA
66303 ATTCAACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (31 bp):
CGAGCTTTAACTCAGGATTTCGAGTTCGAGT
Found at i:66961 original size:36 final size:35
Alignment explanation
Indices: 66921--67257 Score: 167
Period size: 35 Copynumber: 9.5 Consensus size: 35
66911 CCATTTTTTT
* *
66921 TATATATAATTTGAAATCATTTTGAAAATTATATAA
1 TATATATATTTTGAAAACATTTTGAAAA-TATATAA
* * ** * *
66957 TATATGGTTTTTTTTAAATATTTCGAAAATATATAA
1 TATAT-ATATTTTGAAAACATTTTGAAAATATATAA
* *
66993 TATATA-ATTTTTGAAAACATTTTTGAAAATACATAT
1 TATATATA-TTTTGAAAACA-TTTTGAAAATATATAA
* * * *
67029 TATAT-TGTTTTGAAAACTTTTTTTAAGTATATATAA
1 TATATATATTTTGAAAAC-ATTTTGAA-AATATATAA
** * **
67065 TATATAGCTTTTGAAAACATTTTGAAAAAACGT-A
1 TATATATATTTTGAAAACATTTTGAAAATATATAA
* * ** *
67099 TATATA-ATTTTGAAAATTAGTTTCTAAATATATAT
1 TATATATATTTTGAAAA-CATTTTGAAAATATATAA
* *
67134 TATATA-ATTTTGAAAATTAGTTTTTAAAATATAT-A
1 TATATATATTTTGAAAA-CA-TTTTGAAAATATATAA
* *
67169 TATTATATAGTTTTGAAAATTAGTTTTTAAAA-ATAT-A
1 TA-TATATA-TTTTGAAAA-CA-TTTTGAAAATATATAA
* *
67206 T-TATATAGTTTTGAAAATTAGTTTTTAAAA-ATAT-A
1 TATATATA-TTTTGAAAA-CA-TTTTGAAAATATATAA
67241 T-TATATAGTTTTGAAAA
1 TATATATA-TTTTGAAAA
67258 TTATTTTTTT
Statistics
Matches: 245, Mismatches: 43, Indels: 27
0.78 0.14 0.09
Matches are distributed among these distances:
33 9 0.04
34 16 0.07
35 99 0.40
36 67 0.27
37 32 0.13
38 22 0.09
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (35 bp):
TATATATATTTTGAAAACATTTTGAAAATATATAA
Found at i:67183 original size:73 final size:69
Alignment explanation
Indices: 66983--67266 Score: 288
Period size: 73 Copynumber: 4.0 Consensus size: 69
66973 AATATTTCGA
* *
66983 AAATATATAATATATAATTTTTGAAAACATTTTTGAAAATACATATTATATTGTTTTGAAAACTT
1 AAATATATAATATATAA-TTTTGAAAACATTTTT-AAAAAACATATTATATAGTTTTGAAAA-TT
67048 --TTTTT
63 AGTTTTT
* * * *
67053 AAGTATATATAATATATAGCTTTTGAAAACATTTTGAAAAAACGTA-TATATAATTTTGAAAATT
1 AA--ATATATAATATATA-ATTTTGAAAACATTTTTAAAAAACATATTATATAGTTTTGAAAATT
*
67117 AGTTTCT
63 AGTTTTT
* * *
67124 AAATATATATTATATAATTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTGAAAAT
1 AAATATATAATATATAATTTTGAAAA-CA-TTTTTAAAA-A-ACATATTATATAGTTTTGAAAAT
67189 TAGTTTTT
62 TAGTTTTT
* * * * *
67197 AAAAATATATTATATAGTTTTGAAAATTAGTTTTT-AAAAATATATTATATAGTTTTGAAAATTA
1 AAATATATAATATATAATTTTGAAAA-CA-TTTTTAAAAAACATATTATATAGTTTTGAAAATTA
*
67261 TTTTTT
64 GTTTTT
67267 TAAAAAAAAA
Statistics
Matches: 186, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
68 9 0.05
69 16 0.09
70 54 0.29
71 16 0.09
72 35 0.19
73 56 0.30
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (69 bp):
AAATATATAATATATAATTTTGAAAACATTTTTAAAAAACATATTATATAGTTTTGAAAATTAGT
TTTT
Found at i:67282 original size:35 final size:35
Alignment explanation
Indices: 66982--67272 Score: 274
Period size: 35 Copynumber: 8.1 Consensus size: 35
66972 AAATATTTCG
* * *
66982 AAAATATATAATATATAATTTTTGAAAA-CA-TTTTT
1 AAAA-ATATATTATAT-AGTTTTGAAAATTAGTTTTT
* *
67017 GAAAATACATATTATATTGTTTTGAAAACTT--TTTTT
1 -AAAA-ATATATTATATAGTTTTGAAAA-TTAGTTTTT
* * * *
67053 AAGTATATATAATATATAGCTTTTGAAAA-CA-TTTTG
1 AA--AAATATATTATATAG-TTTTGAAAATTAGTTTTT
* *
67089 AAAAA-ACGTA-TATATAATTTTGAAAATTAGTTTCT
1 AAAAATA--TATTATATAGTTTTGAAAATTAGTTTTT
* *
67124 AAATATATATTATATAATTTTGAAAATTAGTTTTT
1 AAAAATATATTATATAGTTTTGAAAATTAGTTTTT
67159 AAAATATATATATTATATAGTTTTGAAAATTAGTTTTT
1 -AAA-A-ATATATTATATAGTTTTGAAAATTAGTTTTT
67197 AAAAATATATTATATAGTTTTGAAAATTAGTTTTT
1 AAAAATATATTATATAGTTTTGAAAATTAGTTTTT
*
67232 AAAAATATATTATATAGTTTTGAAAATTATTTTTTT
1 AAAAATATATTATATAGTTTTGAAAATTA-GTTTTT
67268 AAAAA
1 AAAAA
67273 AAAACATATA
Statistics
Matches: 218, Mismatches: 21, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
33 10 0.05
34 11 0.05
35 104 0.48
36 50 0.23
37 13 0.06
38 30 0.14
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (35 bp):
AAAAATATATTATATAGTTTTGAAAATTAGTTTTT
Found at i:67320 original size:12 final size:12
Alignment explanation
Indices: 67305--67352 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
67295 AAAAATGTTT
*
67305 TTAATTAATTTA
1 TTAATTTATTTA
*
67317 TTAATTTATCTA
1 TTAATTTATTTA
*
67329 TTTTATTTATTTA
1 -TTAATTTATTTA
*
67342 TTTATTTATTT
1 TTAATTTATTT
67353 TTTCTCTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATTTATTTA
Found at i:67333 original size:17 final size:17
Alignment explanation
Indices: 67313--67348 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
67303 TTTTAATTAA
67313 TTTATTAATTTATCTAT
1 TTTATTAATTTATCTAT
* *
67330 TTTATTTATTTATTTAT
1 TTTATTAATTTATCTAT
67347 TT
1 TT
67349 ATTTTTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTAATTTATCTAT
Found at i:67336 original size:21 final size:21
Alignment explanation
Indices: 67312--67353 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
67302 TTTTTAATTA
67312 ATTTATTAATTTATCTATTTT
1 ATTTATTAATTTATCTATTTT
* *
67333 ATTTATTTATTTATTTATTTT
1 ATTTATTAATTTATCTATTTT
67354 TTCTCTCATT
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:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTAATTTATCTATTTT
Found at i:67339 original size:4 final size:4
Alignment explanation
Indices: 67312--67372 Score: 61
Period size: 4 Copynumber: 15.0 Consensus size: 4
67302 TTTTTAATTA
* * * *
67312 ATTT ATTA ATTT ATCT ATTTT ATTT ATTT ATTT ATTT ATTT -TTT CTCTC
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT
67361 ATTT ATTT ATTT
1 ATTT ATTT ATTT
67373 GTTATTTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
3 3 0.06
4 39 0.83
5 5 0.11
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:67538 original size:16 final size:15
Alignment explanation
Indices: 67517--67547 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
67507 GGCCGGCCGG
67517 CATCCCGGGACTGACC
1 CATCCCGGGA-TGACC
67533 CATCCCGGGATGACC
1 CATCCCGGGATGACC
67548 GGTCATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CATCCCGGGATGACC
Found at i:70303 original size:19 final size:19
Alignment explanation
Indices: 70279--70324 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
70269 ATTTAGACAT
70279 TTTGCATTTCGTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
70298 TTTGCATTTTGTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
70317 TTTACATT
1 TTTGCATT
70325 CACATTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTGCATTTCGTTATTTTC
Found at i:74247 original size:249 final size:249
Alignment explanation
Indices: 73738--74781 Score: 1497
Period size: 249 Copynumber: 4.2 Consensus size: 249
73728 ACTACGCTCA
* * * * * **
73738 AAGGCATATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAG
1 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
* ** * * * * * *
73799 TTCGACTACGTTCAGCTTCGAA-GGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATC
66 TTCGATTACACTCAGCTTC-AAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
* ** * * * * * * * *
73863 TGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAAC
130 TGTC-ACCCAAGACCTTTGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGAATAGC
* * * * * *
73928 TCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGTTCAGCTTCG
193 TTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCG
73988 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
1 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
74053 TTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
66 TTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
*
74118 GTCACCCAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTA
131 GTCACCCAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTA
*
74183 AGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGTTCAGCTTCG
196 AGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCG
74237 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
1 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
74302 TTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
66 TTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
*
74367 GTCACCCAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTA
131 GTCACCCAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTA
74432 AGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCG
196 AGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCG
74486 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
1 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
* * * *
74551 TTCGATTACACTCAGCTTCAAGGGCATATTATTTACAGCATAGCTCAAGGCCAGAAGGGCTATCT
66 TTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
* * *
74616 G-CCCACCAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTT
131 GTCAC-CCAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTT
* * * * **
74680 AAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCG
195 AAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCG
* * * * *
74735 AGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
1 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGC
74782 TAAAGACCTT
Statistics
Matches: 735, Mismatches: 53, Indels: 13
0.92 0.07 0.02
Matches are distributed among these distances:
248 2 0.00
249 556 0.76
250 41 0.06
251 1 0.00
252 36 0.05
253 33 0.04
254 66 0.09
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
TTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
GTCACCCAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTA
AGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCG
Found at i:74638 original size:418 final size:417
Alignment explanation
Indices: 73667--74800 Score: 1532
Period size: 418 Copynumber: 2.7 Consensus size: 417
73657 TTTTAAACAA
* * * * *
73667 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCAACTA
1 ATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGCCACCAAAGACCCTTAAGTTCGACTA
*
73732 CGCTCA-----AAGGCATATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CACTCAGCTTCAAGGCATATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
*
73792 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
131 CTTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
73857 GTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
196 GTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
*
73922 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGTTCAGCTTC
261 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTTC
* * * *
73987 GAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAA
326 CAAGGCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGCC-ACTAAAGACCCTCAA
* *
74052 GTTCGATTACACTCAGCTTCAAGGGCAT
390 GTTCGACTACACTCAGCTTCAAGGGCAC
* * * * *
74080 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCCAAGACCTTTGAGTTCGACTA
1 ATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGCCACCAAAGACCCTTAAGTTCGACTA
* * *
74145 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CACTCAGCTTCAAGGCATATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-
74210 CCTT-GAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAG
130 CCTTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAG
74274 GGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACA
195 GGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACA
*
74339 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCCAAGACCTTTGAGTTCGACTACGCTCAGC-T
260 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTT
* * *
74403 CCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C-C-AAAGACCCTCGA
325 CCAAGGCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGCCACTAAAGACCCTCAA
**
74465 GTTCGACTACGTTCAGCTTCGAA-GGCAC
390 GTTCGACTACACTCAGCTTC-AAGGGCAC
* * * * * *
74493 ATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATT
1 ATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGCC-ACCAAAGACCCTTAAGTTCGACT
* * * * * *
74558 ACACTCAGCTTCAAGGGCATATTATTTACAGCATAGCTCAAGGCCAGAAGGGCTATCTGCCCACC
65 ACACTCAGCTTCAA-GGCATATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-CCA--
** * * *
74623 AAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGA
126 AAGACCTTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAA
* * ** * *
74687 GAAGAGCTATCTG-C--C-AAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
191 GAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATT
* * * * * * * *
74748 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CTAAAGACCTTCGAGTTCGA
256 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGA
74801 TTATATTCAA
Statistics
Matches: 651, Mismatches: 57, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
410 17 0.03
413 204 0.31
414 34 0.05
415 37 0.06
416 5 0.01
417 92 0.14
418 259 0.40
419 3 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (417 bp):
ATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGCCACCAAAGACCCTTAAGTTCGACTA
CACTCAGCTTCAAGGCATATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
CTTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
GTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTTC
CAAGGCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGCCACTAAAGACCCTCAAG
TTCGACTACACTCAGCTTCAAGGGCAC
Found at i:75551 original size:35 final size:35
Alignment explanation
Indices: 75482--75760 Score: 279
Period size: 35 Copynumber: 8.0 Consensus size: 35
75472 AAATATTTCG
* * *
75482 AAAATATATAATATATAATTTTTGAAAA-CATTTTT
1 AAAATATATATTATAT-AGTTTTGAAAATTATTTTT
* *
75517 GAAAATACATATTATATTGTTTTGAAAACTT-TTTTT
1 -AAAATATATATTATATAGTTTTGAAAA-TTATTTTT
* * * *
75553 AAGTATATATAATATATAGCTTTTGAAAA-CATTTTG
1 AA-AATATATATTATATAG-TTTTGAAAATTATTTTT
* ** * *
75589 AAAAAACGTA-TATATAATTTTGAAAATTAGTTTCT
1 AAAATATATATTATATAGTTTTGAAAATTA-TTTTT
* *
75624 -AAATATATATTATATA-ATTTGAAAATTAGTTTT
1 AAAATATATATTATATAGTTTTGAAAATTATTTTT
75657 -AAATATATATTATATAGTTTTGAAAATTAGTTTTT
1 AAAATATATATTATATAGTTTTGAAAATTA-TTTTT
75692 AAAA-ATATATTATATAGTTTTGAAAATTAGTTTTT
1 AAAATATATATTATATAGTTTTGAAAATTA-TTTTT
75727 AAAA-ATATATTATATAGTTTTGAAAATTATTTTT
1 AAAATATATATTATATAGTTTTGAAAATTATTTTT
75761 TTTAAAAAAA
Statistics
Matches: 205, Mismatches: 27, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
33 28 0.14
34 40 0.20
35 88 0.43
36 40 0.20
37 9 0.04
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (35 bp):
AAAATATATATTATATAGTTTTGAAAATTATTTTT
Found at i:75682 original size:68 final size:70
Alignment explanation
Indices: 75599--75755 Score: 255
Period size: 68 Copynumber: 2.3 Consensus size: 70
75589 AAAAAACGTA
* * *
75599 TATATAATTTTGAAAATTAGTTTCTAAATATATATTATATA-ATTTGAAAATTAG-TTTTAAATA
1 TATATAGTTTTGAAAATTAGTTTCTAAAAATATATTATATAGATTTGAAAATTAGTTTTTAAAAA
75662 TATAT
66 TATAT
* *
75667 TATATAGTTTTGAAAATTAGTTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAAA
1 TATATAGTTTTGAAAATTAGTTTCTAAAAATATATTATATAGATTTGAAAATTAGTTTTTAAAAA
75732 TATAT
66 TATAT
75737 TATATAGTTTTGAAAATTA
1 TATATAGTTTTGAAAATTA
75756 TTTTTTTTAA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
68 38 0.46
69 12 0.15
70 32 0.39
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (70 bp):
TATATAGTTTTGAAAATTAGTTTCTAAAAATATATTATATAGATTTGAAAATTAGTTTTTAAAAA
TATAT
Found at i:75815 original size:12 final size:12
Alignment explanation
Indices: 75800--75847 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
75790 AAAAATGTTT
*
75800 TTAATTAATTTA
1 TTAATTTATTTA
*
75812 TTAATTTATCTA
1 TTAATTTATTTA
*
75824 TTTTATTTATTTA
1 -TTAATTTATTTA
*
75837 TTTATTTATTT
1 TTAATTTATTT
75848 TTCTCTCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATTTATTTA
Found at i:75828 original size:17 final size:17
Alignment explanation
Indices: 75808--75843 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
75798 TTTTAATTAA
75808 TTTATTAATTTATCTAT
1 TTTATTAATTTATCTAT
* *
75825 TTTATTTATTTATTTAT
1 TTTATTAATTTATCTAT
75842 TT
1 TT
75844 ATTTTTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTAATTTATCTAT
Found at i:75831 original size:21 final size:21
Alignment explanation
Indices: 75807--75848 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
75797 TTTTTAATTA
75807 ATTTATTAATTTATCTATTTT
1 ATTTATTAATTTATCTATTTT
* *
75828 ATTTATTTATTTATTTATTTT
1 ATTTATTAATTTATCTATTTT
75849 TCTCTCATTT
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:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTAATTTATCTATTTT
Found at i:75834 original size:4 final size:4
Alignment explanation
Indices: 75807--75866 Score: 57
Period size: 4 Copynumber: 14.0 Consensus size: 4
75797 TTTTTAATTA
* * *
75807 ATTT ATTA ATTT ATCT ATTTT ATTT ATTT ATTT ATTT ATTT TTCTCT CATTT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT AT-T-T -ATTT
75859 ATTT ATTT
1 ATTT ATTT
75867 GTTATTTGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 38 0.83
5 5 0.11
6 2 0.04
7 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:76032 original size:16 final size:15
Alignment explanation
Indices: 76011--76041 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
76001 GGCCGGCCGG
76011 CATCCCGGGACTGACC
1 CATCCCGGGA-TGACC
76027 CATCCCGGGATGACC
1 CATCCCGGGATGACC
76042 GGTCATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CATCCCGGGATGACC
Found at i:77671 original size:2 final size:2
Alignment explanation
Indices: 77664--77693 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77654 AATTAATAGG
77664 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
77694 TAAAGTCTCA
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:78961 original size:52 final size:52
Alignment explanation
Indices: 78905--79013 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 52
78895 GATAGATTTT
* * * * *
78905 AATAAAAAA-ATTATATTTTATTTAAACTCGTCACCTCAACGTGACGAGTTCG
1 AATAAAAAATATT-TATTTTATTAAAAATAGTCACATCAACGTGACGAATTCG
* * *
78957 AATAAAAAATATTTTTTTTATTAAAAATAGTTACATCAACGTGACGAATTCT
1 AATAAAAAATATTTATTTTATTAAAAATAGTCACATCAACGTGACGAATTCG
79009 AATAA
1 AATAA
79014 CACTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 45 0.94
53 3 0.06
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (52 bp):
AATAAAAAATATTTATTTTATTAAAAATAGTCACATCAACGTGACGAATTCG
Found at i:79606 original size:2 final size:2
Alignment explanation
Indices: 79601--79643 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
79591 AAGCGCGCGC
79601 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
79643 A
1 A
79644 CACTAAATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91001 original size:6 final size:6
Alignment explanation
Indices: 90990--91016 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
90980 ACATATTAAT
90990 TTTATA TTTATA TTTATA TTTATA TTT
1 TTTATA TTTATA TTTATA TTTATA TTT
91017 TTCTCCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:93289 original size:20 final size:20
Alignment explanation
Indices: 93264--93354 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
93254 AGCAGTCATA
* *
93264 GGTGCATGGATGCACTGTAG
1 GGTGCATGGATACACTGCAG
*
93284 GGTGCATCGATACACT----
1 GGTGCATGGATACACTGCAG
93300 -GTGCATGGATACACTGCAG
1 GGTGCATGGATACACTGCAG
* * *
93319 AGTGCATGGATGCACTACAG
1 GGTGCATGGATACACTGCAG
*
93339 GGTGTATGGATACACT
1 GGTGCATGGATACACT
93355 TTGACAACCT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
15 14 0.24
20 44 0.76
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (20 bp):
GGTGCATGGATACACTGCAG
Found at i:93305 original size:15 final size:15
Alignment explanation
Indices: 93285--93315 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93275 GCACTGTAGG
93285 GTGCATCGATACACT
1 GTGCATCGATACACT
*
93300 GTGCATGGATACACT
1 GTGCATCGATACACT
93315 G
1 G
93316 CAGAGTGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
GTGCATCGATACACT
Found at i:93315 original size:35 final size:35
Alignment explanation
Indices: 93265--93334 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
93255 GCAGTCATAG
* * *
93265 GTGCATGGATGCACTGTAGGGTGCATCGATACACT
1 GTGCATGGATACACTGCAGAGTGCATCGATACACT
* *
93300 GTGCATGGATACACTGCAGAGTGCATGGATGCACT
1 GTGCATGGATACACTGCAGAGTGCATCGATACACT
93335 ACAGGGTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (35 bp):
GTGCATGGATACACTGCAGAGTGCATCGATACACT
Found at i:94302 original size:57 final size:58
Alignment explanation
Indices: 94226--94337 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
94216 GACTCAATGC
*
94226 ATGGCTGAGGCATGTCCTTTA-GGCATGTGGACAGCAGCTAGTGATTATTGGAGATGA
1 ATGGCTGAGGCATGGCCTTTAGGGCATGTGGACAGCAGCTAGTGATTATTGGAGATGA
*
94283 ATGGCTGAGGCATGGCCTTTAGGGCATGTGGAGAGCAGCTAGTGATTATTGGAGA
1 ATGGCTGAGGCATGGCCTTTAGGGCATGTGGACAGCAGCTAGTGATTATTGGAGA
94338 ATCTAGATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
57 20 0.38
58 32 0.62
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.27
Consensus pattern (58 bp):
ATGGCTGAGGCATGGCCTTTAGGGCATGTGGACAGCAGCTAGTGATTATTGGAGATGA
Found at i:97639 original size:21 final size:19
Alignment explanation
Indices: 97611--97656 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
97601 TCATTGAATC
97611 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
97631 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
97650 ACTTAGT
1 A-TTAGT
97657 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:98094 original size:13 final size:13
Alignment explanation
Indices: 98076--98109 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
98066 GAGATTTAGG
98076 AGATCAAGTTGCA
1 AGATCAAGTTGCA
98089 AGATCAAGTTGCA
1 AGATCAAGTTGCA
*
98102 AGACCAAG
1 AGATCAAG
98110 AGCAATACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (13 bp):
AGATCAAGTTGCA
Found at i:108018 original size:21 final size:19
Alignment explanation
Indices: 107990--108035 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
107980 TCATTGAATC
107990 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
108010 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
108029 ACTTAGT
1 A-TTAGT
108036 AGGATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:112439 original size:20 final size:20
Alignment explanation
Indices: 112400--112439 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
112390 TAAATTCATG
*
112400 AATATAACAAAATTTGATTT
1 AATATAACAAAATTTCATTT
112420 AATATAA-AAAATATTCATTT
1 AATATAACAAAAT-TTCATTT
112440 CATTAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
AATATAACAAAATTTCATTT
Found at i:118123 original size:2 final size:2
Alignment explanation
Indices: 118116--118144 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118106 TTTTACTTGC
118116 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118145 ATCTCCAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121410 original size:91 final size:91
Alignment explanation
Indices: 121301--121483 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
121291 ATAACCCTAC
121301 TATACTACATGCATTCAACATATAAGCATACTGCAAGTAAAGTCATGAACAATTGTACACACTAA
1 TATACTACATGCATTCAACATATAAGCATACTGCAAGTAAAGTCATGAACAATTGTACACACTAA
121366 TACAACAATCAAAGTAAGCATCATGG
66 TACAACAATCAAAGTAAGCATCATGG
121392 TATACTACATGCATTCAACATATAAGCATACTGCAAGTAAAGTCATGAACAATTGTACACACTAA
1 TATACTACATGCATTCAACATATAAGCATACTGCAAGTAAAGTCATGAACAATTGTACACACTAA
*
121457 TACAACAATCAAAGTAAGCTTCATGG
66 TACAACAATCAAAGTAAGCATCATGG
121483 T
1 T
121484 GTAGCTTGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (91 bp):
TATACTACATGCATTCAACATATAAGCATACTGCAAGTAAAGTCATGAACAATTGTACACACTAA
TACAACAATCAAAGTAAGCATCATGG
Done.