Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024675.1 Corchorus olitorius cultivar O-4 contig24708, 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: 53864
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:8328 original size:52 final size:51
Alignment explanation
Indices: 8265--8414 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
8255 AATTTCATAT
* * *
8265 AAGTTTCCAAAGTATTCAATTTAGCTCTTTTTCAATTTGGGAAAGTTCCCAC
1 AAGTTTTCAAAGTATTCAATTTAACTC-TTTTCAAATTGGGAAAGTTCCCAC
* * *
8317 CAGTTTTCAAAGTATTCGATTTAACTCGTTTTCAAATTGGGAACGTTCCCAC
1 AAGTTTTCAAAGTATTCAATTTAACTC-TTTTCAAATTGGGAAAGTTCCCAC
* *
8369 AAGTTTTCAAGGTGTTCAATTTAACTCTTTTCAAATTGGGAAAGTT
1 AAGTTTTCAAAGTATTCAATTTAACTCTTTTCAAATTGGGAAAGTT
8415 TCCATCAGGT
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 18 0.21
52 68 0.79
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (51 bp):
AAGTTTTCAAAGTATTCAATTTAACTCTTTTCAAATTGGGAAAGTTCCCAC
Found at i:11121 original size:21 final size:21
Alignment explanation
Indices: 11097--11139 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11087 TCAAAGGTAA
11097 AACAAATGAATTTTGCAAAAT
1 AACAAATGAATTTTGCAAAAT
11118 AACAAATGAATTTTGCAAAAT
1 AACAAATGAATTTTGCAAAAT
11139 A
1 A
11140 GAATAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (21 bp):
AACAAATGAATTTTGCAAAAT
Found at i:12906 original size:14 final size:14
Alignment explanation
Indices: 12846--12907 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
12836 TGATTTGGGG
*
12846 TAGGGGTTTCGTTT
1 TAGGGGTTTCGATT
* *
12860 TA-GGGCTGCGATT
1 TAGGGGTTTCGATT
*
12873 TAGGGGTTTTTGGATT
1 TAGGGG--TTTCGATT
*
12889 TAGGGGTTTCGTTT
1 TAGGGGTTTCGATT
12903 TAGGG
1 TAGGG
12908 CTTCGCTTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
13 10 0.27
14 16 0.43
16 11 0.30
ACGTcount: A:0.11, C:0.06, G:0.39, T:0.44
Consensus pattern (14 bp):
TAGGGGTTTCGATT
Found at i:13370 original size:9 final size:9
Alignment explanation
Indices: 13356--13403 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
13346 TCTTATACAT
13356 TAATATATA
1 TAATATATA
13365 TAATATATA
1 TAATATATA
* *
13374 TAATATTGTC
1 TAATA-TATA
*
13384 TATTATATA
1 TAATATATA
*
13393 TTATATATA
1 TAATATATA
13402 TA
1 TA
13404 TTAACTTGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (9 bp):
TAATATATA
Found at i:13617 original size:21 final size:21
Alignment explanation
Indices: 13592--13633 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13582 ACGATAATCA
13592 TGATTTAGGGGCTGGAAATGT
1 TGATTTAGGGGCTGGAAATGT
13613 TGATTTAGGGGCTGGAAATGT
1 TGATTTAGGGGCTGGAAATGT
13634 AGGTGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.38, T:0.33
Consensus pattern (21 bp):
TGATTTAGGGGCTGGAAATGT
Found at i:13648 original size:15 final size:15
Alignment explanation
Indices: 13630--13667 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13620 GGGGCTGGAA
13630 ATGTAGGTGAAGAAC
1 ATGTAGGTGAAGAAC
* *
13645 ATGTAGATGAAGTAC
1 ATGTAGGTGAAGAAC
13660 ATGTAGGT
1 ATGTAGGT
13668 TTTGAGGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (15 bp):
ATGTAGGTGAAGAAC
Found at i:16001 original size:18 final size:18
Alignment explanation
Indices: 15956--16002 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15946 GTCTAGGATC
15956 TGCAAATGCAAATGCAGA
1 TGCAAATGCAAATGCAGA
**
15974 TGCAGGTGCAAATGCA-A
1 TGCAAATGCAAATGCAGA
*
15991 TTGCAATTGCAA
1 -TGCAAATGCAA
16003 CTGCCCCTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (18 bp):
TGCAAATGCAAATGCAGA
Found at i:16932 original size:19 final size:19
Alignment explanation
Indices: 16908--16947 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16898 GGAAAGAGAA
*
16908 AATCTGACGTGGATGGCAG
1 AATCTGACGTGGAGGGCAG
16927 AATCTGACGTGGAGGGCAG
1 AATCTGACGTGGAGGGCAG
16946 AA
1 AA
16948 AACGGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.38, T:0.17
Consensus pattern (19 bp):
AATCTGACGTGGAGGGCAG
Found at i:22078 original size:20 final size:20
Alignment explanation
Indices: 22053--22105 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
22043 CTGCAAAATT
22053 AACAAAAACACAAAAAC-AAA
1 AACAAAAACA-AAAAACGAAA
*
22073 AACAAAAACAAAATACGAAA
1 AACAAAAACAAAAAACGAAA
*
22093 AATAAAAACAAAA
1 AACAAAAACAAAA
22106 CTAAAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.79, C:0.15, G:0.02, T:0.04
Consensus pattern (20 bp):
AACAAAAACAAAAAACGAAA
Found at i:22079 original size:5 final size:6
Alignment explanation
Indices: 22057--22105 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
22047 AAAATTAACA
*
22057 AAAACAC AAAAAC AAAAAC AAAAAC AAAATAC GAAAAAT AAAAAC AAAA
1 AAAA-AC AAAAAC AAAAAC AAAAAC AAAA-AC -AAAAAC AAAAAC AAAA
22106 CTAAAGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
6 27 0.71
7 7 0.18
8 4 0.11
ACGTcount: A:0.80, C:0.14, G:0.02, T:0.04
Consensus pattern (6 bp):
AAAAAC
Found at i:22083 original size:26 final size:26
Alignment explanation
Indices: 22053--22105 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22043 CTGCAAAATT
22053 AACAAAA-ACACAAAAACAAAAACAAA
1 AACAAAATAC-CAAAAACAAAAACAAA
* *
22079 AACAAAATACGAAAAATAAAAACAAA
1 AACAAAATACCAAAAACAAAAACAAA
22105 A
1 A
22106 CTAAAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.79, C:0.15, G:0.02, T:0.04
Consensus pattern (26 bp):
AACAAAATACCAAAAACAAAAACAAA
Found at i:23707 original size:71 final size:71
Alignment explanation
Indices: 23628--23769 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
23618 ATCATCCAGG
*
23628 GGCATTTTGGTCATTTTGCATATTCAGGGGCATTTTGGACATTTTAAAGTTCAAATTATTTAGAT
1 GGCATTTTGGTCATTTTGCACATTCAGGGGCATTTTGGACATTTTAAAGTTCAAATTATTTAGAT
23693 TAACTA
66 TAACTA
* * * *
23699 GGCATTTTGGTCATTTTGCACATTTAGGGGCATTTTGGTCATTTTTAAGTTCACATTATTTAGAT
1 GGCATTTTGGTCATTTTGCACATTCAGGGGCATTTTGGACATTTTAAAGTTCAAATTATTTAGAT
23764 TAACTA
66 TAACTA
23770 ATCCATCCTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (71 bp):
GGCATTTTGGTCATTTTGCACATTCAGGGGCATTTTGGACATTTTAAAGTTCAAATTATTTAGAT
TAACTA
Found at i:31818 original size:7 final size:7
Alignment explanation
Indices: 31808--31847 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
31798 AAAAAAGAAA
31808 AAAAATC
1 AAAAATC
31815 AAAAATC
1 AAAAATC
31822 AAAAATC
1 AAAAATC
31829 AAAAATC
1 AAAAATC
31836 AAAAATC
1 AAAAATC
31843 AAAAA
1 AAAAA
31848 ATAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:31853 original size:7 final size:7
Alignment explanation
Indices: 31792--31855 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
31782 CAAGAAATTC
31792 AATAAAA
1 AATAAAA
*
31799 AA-AAAG
1 AATAAAA
31805 AA-AAAA
1 AATAAAA
*
31811 AATCAAA
1 AATAAAA
*
31818 AATCAAA
1 AATAAAA
*
31825 AATCAAA
1 AATAAAA
*
31832 AATCAAA
1 AATAAAA
31839 AATCAAAA
1 AAT-AAAA
31847 AATAAAA
1 AATAAAA
31854 AA
1 AA
31856 AAATCAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
6 10 0.20
7 35 0.69
8 6 0.12
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.11
Consensus pattern (7 bp):
AATAAAA
Found at i:33708 original size:27 final size:28
Alignment explanation
Indices: 33668--33723 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
33658 CCATATGAGC
33668 CAAGCTTTAGTTCCAAGTAAGCTAAAAT
1 CAAGCTTTAGTTCCAAGTAAGCTAAAAT
* * *
33696 CAAG-TTTATTTCCATGTAAGTTAAAAT
1 CAAGCTTTAGTTCCAAGTAAGCTAAAAT
33723 C
1 C
33724 CTTGTTCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (28 bp):
CAAGCTTTAGTTCCAAGTAAGCTAAAAT
Found at i:34052 original size:168 final size:167
Alignment explanation
Indices: 33753--34253 Score: 724
Period size: 168 Copynumber: 3.0 Consensus size: 167
33743 TAGAGTTTGC
*
33753 ATTGATAAAACCTCCGGGTACCATTTGATTTCATCAAGTTTTTCATCAAAAGTTCATTTTTAAGT
1 ATTGATAAAACCTCCGGGTACCATTTGATTTCATCAAGTTTTTCATC-AAAGTTCATGTTTAAGT
*
33818 TTAAAATCCTTGTTTAAGGTCTCTTTTCAGAGTTTGCATTGGTAAGTCCTCGGGCACAAATTCAG
65 TTAAAATCCTTGTTTAAGGTCTCTTTTCAGAGTTTGCATTGGTAAGTCCTCCGGCACAAATTCAG
* *
33883 AAACCTCCGGGTATCAATTCTGATAAGTCCTCCGGACG
130 AAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGACA
*
33921 ATTGATAAAACCTCCGGGTACCATTTGATTTCATCAAGTTTTTCATCAAATGTTCATGTTTAA-A
1 ATTGATAAAACCTCCGGGTACCATTTGATTTCATCAAGTTTTTCATCAAA-GTTCATGTTTAAGT
* *
33985 TTGAAATCCTTGTTTAAGGTCTCTTTTCAGAGTTTGCATTGGTAAGTCCTCCGGACACAATTTCA
65 TTAAAATCCTTGTTTAAGGTCTCTTTTCAGAGTTTGCATTGGTAAGTCCTCCGG-CACAAATTCA
* *
34050 GAAACCTCCGGGTATTAATTCTGATAAGTCCTCTGGGCA
129 GAAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGACA
* * * * * *
34089 ATTGGA-AAAGCCTCCGGGTATCATTTCATTTTATCAAG-TTTTCATTGAAAATTCATGTTTAAG
1 ATT-GATAAAACCTCCGGGTACCATTTGATTTCATCAAGTTTTTCA-TCAAAGTTCATGTTTAAG
* **
34152 TTTAAAATCATTGTTTAAGGTCTCAATTCA-AGGTTTGCATTGGTAAGTCCTCCAGGCACAAATT
64 TTTAAAATCCTTGTTTAAGGTCTCTTTTCAGA-GTTTGCATTGGTAAGTCCTCC-GGCACAAATT
*
34216 CA-ACAACCTCCGGGTATTAATTCTGATAAGACCTCCGG
127 CAGA-AACCTCCGGGTATTAATTCTGATAAGTCCTCCGG
34254 GCATTGCATA
Statistics
Matches: 302, Mismatches: 23, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
167 74 0.25
168 224 0.74
169 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (167 bp):
ATTGATAAAACCTCCGGGTACCATTTGATTTCATCAAGTTTTTCATCAAAGTTCATGTTTAAGTT
TAAAATCCTTGTTTAAGGTCTCTTTTCAGAGTTTGCATTGGTAAGTCCTCCGGCACAAATTCAGA
AACCTCCGGGTATTAATTCTGATAAGTCCTCCGGACA
Found at i:34365 original size:30 final size:30
Alignment explanation
Indices: 34294--34749 Score: 601
Period size: 30 Copynumber: 15.1 Consensus size: 30
34284 ACTTTGTCAG
* * *
34294 TTTATTTTAATCCTGGTTTAGGATCACTAC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
*
34324 TTTACTTTTAATCCTTGTTGAGGATCATTGC
1 TTTA-TTTTAATCCTGGTTGAGGATCATTGC
*
34355 TTCATTTTAATCCTGGTTGAGGAT-ATTTGC
1 TTTATTTTAATCCTGGTTGAGGATCA-TTGC
*
34385 TTTATTTTAATCCTGGTTAAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* * *
34415 TTTGTTTTAATCCTGGTTGAGGACCCTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
*
34445 TTTATTTTAATCCTGGTTGAGGATCGTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
34475 TTTATTTTAATCCTGGTTGAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* *
34505 TTT-TTTTAATCCTGGTTGAGGACCGTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* * *
34534 TTTATTATAATCCTGGTTGAGGACCGTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
*
34564 TTTATTTTAATCCTGGTTGAGGATCGTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
34594 TTTATTTTAATCCTGGTTGAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
*
34624 TTTATTTTAATCCTGGTTGAGGATCGTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* *
34654 TTTATTTTAATCATGGTTGAGGATCGTTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* * * * * *
34684 TATCTTTCAATCCTGGTTTAGGATCTTTAC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* *
34714 TTTATCCATTTCAATCCTGGTTTAGGATCACTGC
1 TTTAT---TTT-AATCCTGGTTGAGGATCATTGC
34748 TT
1 TT
34750 CATCAGTTAA
Statistics
Matches: 381, Mismatches: 37, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
29 28 0.07
30 304 0.80
31 26 0.07
33 2 0.01
34 21 0.06
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.46
Consensus pattern (30 bp):
TTTATTTTAATCCTGGTTGAGGATCATTGC
Found at i:34901 original size:39 final size:38
Alignment explanation
Indices: 34837--34972 Score: 118
Period size: 39 Copynumber: 3.5 Consensus size: 38
34827 TTTGAATCTT
*
34837 GATCATTGCTTCATCAGTTATATTTCAG-TCATGGTTTAG
1 GATCATTGCTT-ATCAGTT-TATTTCAGATCATGATTTAG
* * *
34876 GATTATTGCCTTGTCAGTTTCATTTC-GATCCTGATTTAG
1 GATCATTG-CTTATCAGTTT-ATTTCAGATCATGATTTAG
* *
34915 GATCATTGCTTATCAGTTAATTTCAGAATCAT-ATTCAG
1 GATCATTGCTTATCAGTTTATTTCAG-ATCATGATTTAG
34953 GATTC-TTGCTTCCATCAGTT
1 GA-TCATTGCTT--ATCAGTT
34973 GGTTTCAGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
37 5 0.06
38 25 0.31
39 40 0.50
40 10 0.12
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (38 bp):
GATCATTGCTTATCAGTTTATTTCAGATCATGATTTAG
Found at i:34979 original size:40 final size:43
Alignment explanation
Indices: 34926--35006 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 43
34916 ATCATTGCTT
34926 ATCAGTTAATTTCAGAATCATATTC-AGGAT-TC-TTGCTTCC
1 ATCAGTTAATTTCAGAATCATATTCGAGGATCTCTTTGCTTCC
** * *
34966 ATCAGTTGGTTTCAGGATCCTATTCGAGGATCTCTTTGCTT
1 ATCAGTTAATTTCAGAATCATATTCGAGGATCTCTTTGCTT
35007 TAAATTTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 21 0.62
41 5 0.15
42 2 0.06
43 6 0.18
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (43 bp):
ATCAGTTAATTTCAGAATCATATTCGAGGATCTCTTTGCTTCC
Found at i:35297 original size:28 final size:28
Alignment explanation
Indices: 35266--35342 Score: 145
Period size: 28 Copynumber: 2.8 Consensus size: 28
35256 TAGAGTCCTC
*
35266 CAGGGGCATTTTGGTCATTTTGCATATT
1 CAGGGGCATTTTGGTCATTTTGCACATT
35294 CAGGGGCATTTTGGTCATTTTGCACATT
1 CAGGGGCATTTTGGTCATTTTGCACATT
35322 CAGGGGCATTTTGGTCATTTT
1 CAGGGGCATTTTGGTCATTTT
35343 TAAGTTCACA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.42
Consensus pattern (28 bp):
CAGGGGCATTTTGGTCATTTTGCACATT
Found at i:35961 original size:27 final size:27
Alignment explanation
Indices: 35931--36002 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
35921 GGTCGTCTAT
* * **
35931 GGGGCATTTTTGTCATTTGCATGTCCA
1 GGGGCATTTTGGTCATTTACACATCCA
*
35958 GGGGCATTTTGGTCATTTACACATTCA
1 GGGGCATTTTGGTCATTTACACATCCA
35985 GGGGCATTTTGGTCATTT
1 GGGGCATTTTGGTCATTT
36003 TAAGCTCACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (27 bp):
GGGGCATTTTGGTCATTTACACATCCA
Found at i:40822 original size:18 final size:18
Alignment explanation
Indices: 40783--40816 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
40773 ATTTAGTGAT
40783 AAAAAAAGGGAAAAATCC
1 AAAAAAAGGGAAAAATCC
40801 AAAAAAA-GGAAAAATC
1 AAAAAAAGGGAAAAATC
40817 AGAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.09, G:0.15, T:0.06
Consensus pattern (18 bp):
AAAAAAAGGGAAAAATCC
Found at i:43743 original size:13 final size:13
Alignment explanation
Indices: 43708--43742 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
43698 TTAACTATAT
43708 AAAATAAAAATTA
1 AAAATAAAAATTA
*
43721 AAATTAAAAATTA
1 AAAATAAAAATTA
43734 AAAA-AAAAA
1 AAAATAAAAA
43743 AGAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:45255 original size:28 final size:26
Alignment explanation
Indices: 45216--45297 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 26
45206 ATTGATTACC
45216 TTTACTCTTTTTACTGATTACCAATTTT
1 TTTAC-CTTTTTACTGATTACC-ATTTT
*
45244 TTTACCCTTTTTACTCATTACCATTTT
1 TTTA-CCTTTTTACTGATTACCATTTT
*
45271 CTTA-CTTTTTACTGACTT-CCATTTT
1 TTTACCTTTTTACTGA-TTACCATTTT
45296 TT
1 TT
45298 GCCTGTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 18 0.38
26 2 0.04
27 8 0.17
28 19 0.40
29 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTACCTTTTTACTGATTACCATTTT
Found at i:45292 original size:25 final size:26
Alignment explanation
Indices: 45217--45309 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 26
45207 TTGATTACCT
*
45217 TTACTCTTTTTACTGATTACCAATTTTT
1 TTAC-CTTTTTACTGATTACC-ATTTTC
*
45245 TTACCCTTTTTACTCATTACCATTTTC
1 TTA-CCTTTTTACTGATTACCATTTTC
45272 TTA-CTTTTTACTGACTT-CCATTTT-
1 TTACCTTTTTACTGA-TTACCATTTTC
*
45296 TTGCCTGTTTTACT
1 TTACCT-TTTTACT
45310 TTAATTACTG
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
24 2 0.04
25 19 0.33
26 9 0.16
27 8 0.14
28 18 0.32
29 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.04, T:0.56
Consensus pattern (26 bp):
TTACCTTTTTACTGATTACCATTTTC
Found at i:45320 original size:35 final size:32
Alignment explanation
Indices: 45272--45408 Score: 134
Period size: 35 Copynumber: 4.1 Consensus size: 32
45262 TACCATTTTC
* *
45272 TTACTTT--TTACTGACTTCCATTTTTTGCCTGTT
1 TTACTTTAATTACTGAATACCA-TTTTT-CCT-TT
45305 TTACTTTAATTACTGAATACCATTTTTACTCTTTT
1 TTACTTTAATTACTGAATACCATTTTT-C-C-TTT
* **
45340 TTACTTTAATTACTAAATACCATTTTTAATTT
1 TTACTTTAATTACTGAATACCATTTTTCCTTT
*
45372 TTACTTTAATTACTGAATACTATTTTTACTCTTT
1 TTACTTTAATTACTGAATACCATTTTT-C-CTTT
45406 TTA
1 TTA
45409 ATCTTTTTAC
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
32 28 0.32
33 7 0.08
34 12 0.14
35 40 0.45
36 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.55
Consensus pattern (32 bp):
TTACTTTAATTACTGAATACCATTTTTCCTTT
Found at i:45378 original size:32 final size:33
Alignment explanation
Indices: 45303--45400 Score: 144
Period size: 32 Copynumber: 2.9 Consensus size: 33
45293 TTTTTGCCTG
*
45303 TTTTACTTTAATTACTGAATACCATTTTTACTCTT
1 TTTTACTTTAATTACTGAATACCATTTTTA--CAT
*
45338 TTTTACTTTAATTACTAAATACCATTTTTA-AT
1 TTTTACTTTAATTACTGAATACCATTTTTACAT
*
45370 TTTTACTTTAATTACTGAATACTATTTTTAC
1 TTTTACTTTAATTACTGAATACCATTTTTAC
45401 TCTTTTTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 29 0.50
35 29 0.50
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.54
Consensus pattern (33 bp):
TTTTACTTTAATTACTGAATACCATTTTTACAT
Found at i:45470 original size:21 final size:20
Alignment explanation
Indices: 45446--45816 Score: 167
Period size: 21 Copynumber: 17.7 Consensus size: 20
45436 TTTTAATTAT
*
45446 TGATTACCATTTACTCTTTAC
1 TGATTACTA-TTACTCTTTAC
45467 TGATTACTATTA-TCATTTTAC
1 TGATTACTATTACTC--TTTAC
*
45488 TG-TTCACTGTTTACTCTTTTAC
1 TGATT-ACT-ATTACTC-TTTAC
*
45510 TGATTACTATTACTC-TTCC
1 TGATTACTATTACTCTTTAC
* *
45529 TTGATTACTCTTTACTCTTTAT
1 -TGATTACT-ATTACTCTTTAC
* *
45551 TGACTATTATTACTCTTTTAC
1 TGATTACTATTACTC-TTTAC
*
45572 TGATTACTCTTTACTCTTTAC
1 TGATTACT-ATTACTCTTTAC
*
45593 TGGTTACTATTACTCTTT--
1 TGATTACTATTACTCTTTAC
* **
45611 T--CT-CT-TTACTGGTTAC
1 TGATTACTATTACTCTTTAC
* *
45627 T-ATTACTCTTTTATTCTTTAC
1 TGATTA--CTATTACTCTTTAC
* *
45648 TGATTACTATTAC-CATTAAGA
1 TGATTACTATTACTC-TTTA-C
*
45669 TGATTACTCTTTACTCTTTTAC
1 TGATTACT-ATTACTC-TTTAC
45691 TGATTACTATTACCATTTTACTCTTTAC
1 TGATTAC---T---A--TTACTCTTTAC
*
45719 TAATTACTATTAC-CATTTTAC
1 TGATTACTATTACTC--TTTAC
*
45740 TGATTACTCTTTACTCTTTTAC
1 TGATTACT-ATTACTC-TTTAC
* *
45762 TGATTACTCTTAC-CAATT-C
1 TGATTACTATTACTC-TTTAC
*
45781 TTGATTACTCTTTACTCTTTAC
1 -TGATTACT-ATTACTCTTTAC
45803 TGATTACTATTACT
1 TGATTACTATTACT
45817 GAATTGCTAC
Statistics
Matches: 271, Mismatches: 41, Indels: 77
0.70 0.11 0.20
Matches are distributed among these distances:
14 7 0.03
15 2 0.01
16 2 0.01
17 1 0.00
18 1 0.00
19 8 0.03
20 58 0.21
21 105 0.39
22 58 0.21
23 9 0.03
25 2 0.01
27 1 0.00
28 11 0.04
29 6 0.02
ACGTcount: A:0.22, C:0.21, G:0.05, T:0.51
Consensus pattern (20 bp):
TGATTACTATTACTCTTTAC
Found at i:45585 original size:7 final size:7
Alignment explanation
Indices: 45560--45648 Score: 56
Period size: 7 Copynumber: 12.7 Consensus size: 7
45550 TTGACTATTA
45560 TTACTCTT
1 TTACTC-T
**
45568 TTACTGA
1 TTACTCT
45575 TTACTCT
1 TTACTCT
45582 TTACTCT
1 TTACTCT
**
45589 TTACTGG
1 TTACTCT
*
45596 TTACT-A
1 TTACTCT
45602 TTACTCT
1 TTACTCT
*
45609 TTTCTCT
1 TTACTCT
**
45616 TTACTGG
1 TTACTCT
*
45623 TTACT-A
1 TTACTCT
45629 TTACTCTT
1 TTACTC-T
*
45637 TTATTCT
1 TTACTCT
45644 TTACT
1 TTACT
45649 GATTACTATT
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
6 10 0.16
7 42 0.68
8 10 0.16
ACGTcount: A:0.17, C:0.21, G:0.06, T:0.56
Consensus pattern (7 bp):
TTACTCT
Found at i:45605 original size:27 final size:27
Alignment explanation
Indices: 45568--45660 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
45558 TATTACTCTT
45568 TTACTGATTACTCTTTACTCTTTACTGG
1 TTACT-ATTACTCTTTACTCTTTACTGG
*
45596 TTACTATTACTCTTTTCTCTTTACTGG
1 TTACTATTACTCTTTACTCTTTACTGG
* *
45623 TTACTATTACTCTTTTATTCTTTACTGA
1 TTACTATTACTC-TTTACTCTTTACTGG
45651 TTACTATTAC
1 TTACTATTAC
45661 CATTAAGATG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 33 0.55
28 27 0.45
ACGTcount: A:0.19, C:0.20, G:0.06, T:0.54
Consensus pattern (27 bp):
TTACTATTACTCTTTACTCTTTACTGG
Found at i:45710 original size:71 final size:71
Alignment explanation
Indices: 45601--45776 Score: 250
Period size: 71 Copynumber: 2.5 Consensus size: 71
45591 ACTGGTTACT
* * * *
45601 ATTACTCTTTTCTC-TTTACTGGTTACTATTACTC-TTTTATTCTTTACTGATTACTATTACCA-
1 ATTACTCTTTACTCTTTTACTGATTACTATTAC-CATTTTACTCTTTACTAATTACTATTACCAT
45663 TTAAGATG
65 TTAA-ATG
45671 ATTACTCTTTACTCTTTTACTGATTACTATTACCATTTTACTCTTTACTAATTACTATTACCATT
1 ATTACTCTTTACTCTTTTACTGATTACTATTACCATTTTACTCTTTACTAATTACTATTACCATT
* *
45736 TTACTG
66 TAAATG
*
45742 ATTACTCTTTACTCTTTTACTGATTACTCTTACCA
1 ATTACTCTTTACTCTTTTACTGATTACTATTACCA
45777 ATTCTTGATT
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
70 14 0.15
71 79 0.82
72 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.51
Consensus pattern (71 bp):
ATTACTCTTTACTCTTTTACTGATTACTATTACCATTTTACTCTTTACTAATTACTATTACCATT
TAAATG
Found at i:45737 original size:28 final size:29
Alignment explanation
Indices: 45678--45740 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 29
45668 ATGATTACTC
*
45678 TTTACTCTTTTACTGATTACTATTACCAT
1 TTTACTCTTTTACTAATTACTATTACCAT
45707 TTTACTC-TTTACTAATTACTATTACCAT
1 TTTACTCTTTTACTAATTACTATTACCAT
45735 TTTACT
1 TTTACT
45741 GATTACTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 26 0.79
29 7 0.21
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTACTCTTTTACTAATTACTATTACCAT
Found at i:49257 original size:18 final size:18
Alignment explanation
Indices: 49234--49284 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
49224 AGCTTTCCTT
*
49234 TATTATGCAAGATGCTTC
1 TATTATGCAAAATGCTTC
49252 TATTATGCAAAATGCTTC
1 TATTATGCAAAATGCTTC
*
49270 AATTATGCAAAATGC
1 TATTATGCAAAATGC
49285 GATTGCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (18 bp):
TATTATGCAAAATGCTTC
Found at i:49532 original size:22 final size:23
Alignment explanation
Indices: 49498--49543 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
49488 TAAAAGGATG
49498 AATGCAAAAAGGTGCCATGCAAA
1 AATGCAAAAAGGTGCCATGCAAA
49521 AATGC-AAAAGGTGCCATGCAAA
1 AATGCAAAAAGGTGCCATGCAAA
49543 A
1 A
49544 TTTCAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (23 bp):
AATGCAAAAAGGTGCCATGCAAA
Found at i:50051 original size:2 final size:2
Alignment explanation
Indices: 50044--50070 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50034 AATTTAGATA
50044 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 A
50071 CTAGTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52915 original size:332 final size:330
Alignment explanation
Indices: 50465--52946 Score: 1788
Period size: 332 Copynumber: 7.5 Consensus size: 330
50455 TTTGGCAAAT
* * *
50465 ATATATAATTCAACGCCAAAAGGATTGGAG-GACTTTTCACGCTTTTAATATTGTTTTTCATATT
1 ATATATAATTCAACGCCAAAAAGATTGGAGAG-CTTTTTACGCTTTTAATATCGTTTTTCATATT
* * * * * *
50529 TTTTCTGAATTAATTTTTAATTAAATCGAAAAAAGATTCAGATGCACATAAAAACAAATCCTTAA
65 TTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAA
* * * * * * * * *
50594 ATCCAATGTGCCTGAGATTTGATTAGATGAATAAATATATTTCAAGGAGTCTCAGCGCTAAAAAT
130 ATACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTCGGCAC-AAAAAC
* ** ** ** * * * * *
50659 CATACAAAA-TAGAGTTGTGGTTCTAGAATC-CGTTTTTAGCCAAAAACCGTGATGG-TTAGTGC
194 CATGCAAAACTA-AGCCG-GGGCCCCGAAACATGTTTTTAGCCAAAAACTGTGATGGATTATTAC
* * *
50721 ACGATTTCGGCTAAAATTTTGTAAAAGATGACCCGAAAGATATTTCCTCAATTTTTGGCTAAAAT
257 ACGATTTCGGCTAAAATTTTGCAAAA-ATTAACCGAAAGATATTTCCTCAATTTTTGGCTAAAAT
50786 ACTCATAAAAA
321 ACTCAT-AAAA
* * * * * * *
50797 ATATATAATTCGACACCAAAAAGATTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCA-ATT
1 ATATATAATTCAACGCCAAAAAGATTGGAGAGCTTTTTACGCTTTTAATATCGTTTTT-CATATT
* * *
50861 TTTATCTGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTCGTAAAAA-AAATTCTTA
65 TTT-TCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTA
* * ** * * * * * * *
50925 AATCCAATTTAACAGAGATTTGATTAAATGAATATGGATATCTCAAAGAGTCTTGGCGCCAAAAA
129 AATACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTCGGC-ACAAAAA
* * * ** * *** *
50990 TCATGCAAAATTTAGCCGGGATCCCGGAATGCGTTTTTAGCAAAAAAAAC-GTGAT-GATTATTA
193 CCATGCAAAACTAAGCCGGGGCCCCGAAACATGTTTTTAGC--CAAAAACTGTGATGGATTATTA
* ** * * *
51053 CACGATTTCGATTGGCTAGAATTTTGCAAAAATCGACTCGAAAGTTATTTCCTCAATTTTTAGCC
256 CACGATTTC----GGCTAAAATTTTGCAAAAATTAAC-CGAAAGATATTTCCTCAATTTTTGGCT
*
51118 ATAATACTCATAAAA
316 AAAATACTCATAAAA
* * * * * * *
51133 ATTATATAATTCAATGCCAAAAAGA-TCGATGGGCTTTTCATGCTTCTAATATCGTTTTTCCTAT
1 A-TATATAATTCAACGCCAAAAAGATTGGA-GAGCTTTTTACGCTTTTAATATCGTTTTTCATAT
** * * * *** *
51197 TATTTTCCGAATTAATTTCTAATTAAATTGAAACATGATTCAGATGCTTGT-TTTACAAATCCTT
64 T-TTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTT
* * * ** * *
51261 AAATCCAATTTGGCTGAAATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCAAAAA
128 AAATACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTCGGCAC-AAAA
* * * * * * *** * * *
51326 ATCATGCAACATTGAA-CCTGGGCCCAGGAACGCATTTTTAGCCAAAAACCGTGATTTCGACTAA
192 ACCATGCAAAACT-AAGCCGGGGCCCCGAAACATGTTTTTAGCCAAAAACTGTGA--TGGA-TTA
* * *
51390 CGTACACGATTTCGGCTAATATTTTGCAAAAATTGACC-AGAA-ATA-TT--T---TTTTT--CT
253 -TTACACGATTTCGGCTAAAATTTTGCAAAAATTAACCGA-AAGATATTTCCTCAATTTTTGGCT
* **
51445 CAAATTTTGTC-TAAAA
316 -AAA-ATACTCATAAAA
* * *
51461 TATATATAATTCAACTCAAAAAAGATTTGAG-GACTTTTTACGCTTTTAATATCGTTTTTCATA-
1 -ATATATAATTCAACGCCAAAAAGATTGGAGAG-CTTTTTACGCTTTTAATATCGTTTTTCATAT
* * *
51524 TTTTTCT-GATATAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGTAAAAAAAAAAAAAT
64 TTTTTCTAAAT-TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT----AAAAACAAAT
* * * * * *
51588 CCTTAAATGCAATATGGCTGAGACTTCATTAGATGAATATAGATATTTCAAAGAGTCTTGACGC-
124 TCTTAAATACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTCG--GCA
* * * * * ** ** *
51652 CAAAAATCATGCAAAATTGAGCCGGGGCTCGGAAACGCGTTTTTAGTAAAAAAAATACCCGTGAT
187 CAAAAACCATGCAAAACTAAGCCGGGGCCCCGAAACATGTTTTTAG---CCAAAA-A-CTGTGAT
* * ** * *
51717 GG-TTAGTACACGATTTCAGCTAAAATTTTGCAAAAAAAAAAAATGTCCAAAAAAATTATTT-CT
247 GGATTATTACACGATTTCGGCTAAAATTTTGC---AAAAATTAA---CC-GAAAGA-TATTTCCT
** *
51780 CAATTTTTAAAC-ACAATACTCATAAAATAA
304 CAATTTTT-GGCTAAAATACTCAT--AA-AA
* * * * * * *
51810 TATATATAATTCAACACTAAAAAGATT-GAAAGACTTTTCACGCTTCTAATATTGTTTTTCCTAC
1 -ATATATAATTCAACGCCAAAAAGATTGGAGAG-CTTTTTACGCTTTTAATATCGTTTTTCATA-
* * * * * *
51874 TTTTTTC-GAATTAAGTTCTAATTAAAACGAAACATGATTCA-A--AT-GT---------TT-GT
63 TTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTT
* * * ** *
51924 AAAAACAA--TGGTTGGGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTCGGTGC-CAAA
128 AAATACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTC-G-GCACAAA
* * ** * * * * **
51986 AATCATTCAAAGTTGAA-CC-AGGTCCCGGAACGTGTTTTTAGCCAAAAACCCTGAT-GATTATT
191 AACCATGCAAAACT-AAGCCGGGGCCCCGAAACATGTTTTTAGCCAAAAACTGTGATGGATTATT
* * * *
52048 AC-CTGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATATTTCCTCAATTTTTAGCCAT
255 ACAC-GATTTCGGCTAAAATTTTGCAAAAATT-AACCGAAAGATATTTCCTCAATTTTTGGCTAA
52112 AATACTCATAAGAA
318 AATACTCATAA-AA
* * *
52126 ATATATAATTCAATGCCAAAAAGATTGAAGTG-TTTTTCACGCTTTTAATATCGTTTTTCATATT
1 ATATATAATTCAACGCCAAAAAGATTGGAGAGCTTTTT-ACGCTTTTAATATCGTTTTTCATA-T
* * * * *
52190 TTTTTCTAAATTAATTTCTAATTAAATTGAAACAAGATTTAGATGGTCGTAAAAACATATCCTTA
64 TTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTA
* * * *
52255 AATGCAATGTGCCTAAGATTTTATTAGATGAATATAGATATTTCAAAGAGTGTCGGCACAAAAAC
129 AATACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTCGGCACAAAAAC
* * * *
52320 CATGCAAAACTGAGCCGGGGCCCCGAAACATGTTTTTAGCCAAAAAATCGTGATGGGTTAGTACA
194 CATGCAAAACTAAGCCGGGGCCCCGAAACATGTTTTTAGCCAAAAACT-GTGATGGATTATTACA
* * * * * * *
52385 CGATTTTGGCTAAAATTTTGCAAAAAATAACCTATA-TTTTTTCC-CAATTTTTGGATAAAATAC
258 CGATTTCGGCTAAAATTTTGCAAAAATTAACCGAAAGATATTTCCTCAATTTTTGGCTAAAATAC
52448 TCATAAAA
323 TCATAAAA
* * * *
52456 TATATATAATTTAACGCCAAAAAGATTGGAGAACTTTTCACGATTTTAATATCGTTTTTCATA-T
1 -ATATATAATTCAACGCCAAAAAGATTGGAGAGCTTTTTACGCTTTTAATATCGTTTTTCATATT
* * *
52520 TTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGTAAAAATAAATTCTTAA
65 TTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAA
* * * * * *
52585 ATCCAATGTGGCTGAGATTTTATTAGATGAATATGGATGTCTT-AAGGAGTCTTGGCGTCAAAAA
130 ATACAATGTGGCTGAGATTTTATTAGATGAATATAGATAT-TTCAAAGAGTCTCGGC-ACAAAAA
* * * * *
52649 TCATGCAAAACTAAGCCGGGG-CCCTAGACGCT-TTTTTAGCCAAAAACTGTGATGGTTATATTA
193 CCATGCAAAACTAAGCCGGGGCCCCGAAAC-ATGTTTTTAGCCAAAAACTGTGATGGAT-TATTA
* * *
52712 CACAATTTCGGTTAAAATTTTGTAAAAATTAACTCGAAAGATATTTCCTCAATTTTTGGCTAAAA
256 CACGATTTCGGCTAAAATTTTGCAAAAATTAAC-CGAAAGATATTTCCTCAATTTTTGGCTAAAA
52777 TACTCATAAAA
320 TACTCATAAAA
* * * * * *
52788 ATATATAATTCAACGCCAAAAGGAATGGAGGGCTTTTTACTCTTTTAATATCGTATTTCTTATTT
1 ATATATAATTCAACGCCAAAAAGATTGGAGAGCTTTTTACGCTTTTAATATCGTTTTTCATATTT
* * * * * *
52853 TTTCTAAATTATTTTTTAATCAAATCGAAATAAGATTCATATGCTCGTAAAAGCAAATTCTTAAA
66 TTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAA
* **
52918 TACAATGTTGCTGAGATTTGGTTAGATGA
131 TACAATGTGGCTGAGATTTTATTAGATGA
52947 TGTAAAGTAT
Statistics
Matches: 1729, Mismatches: 306, Indels: 230
0.76 0.14 0.10
Matches are distributed among these distances:
314 4 0.00
315 51 0.03
316 34 0.02
317 8 0.00
318 24 0.01
319 3 0.00
320 2 0.00
321 5 0.00
322 1 0.00
323 2 0.00
324 31 0.02
325 3 0.00
326 46 0.03
327 3 0.00
328 62 0.04
329 185 0.11
330 102 0.06
331 271 0.16
332 329 0.19
333 80 0.05
334 52 0.03
335 11 0.01
336 26 0.02
337 255 0.15
338 7 0.00
339 4 0.00
340 4 0.00
341 13 0.01
342 1 0.00
345 8 0.00
346 5 0.00
347 1 0.00
348 5 0.00
349 56 0.03
350 27 0.02
351 8 0.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (330 bp):
ATATATAATTCAACGCCAAAAAGATTGGAGAGCTTTTTACGCTTTTAATATCGTTTTTCATATTT
TTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAA
TACAATGTGGCTGAGATTTTATTAGATGAATATAGATATTTCAAAGAGTCTCGGCACAAAAACCA
TGCAAAACTAAGCCGGGGCCCCGAAACATGTTTTTAGCCAAAAACTGTGATGGATTATTACACGA
TTTCGGCTAAAATTTTGCAAAAATTAACCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCA
TAAAA
Done.