Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016554.1 Corchorus olitorius cultivar O-4 contig16587, 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: 174178
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1661 original size:50 final size:49
Alignment explanation
Indices: 1607--1706 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
1597 GTCTAAGTCT
*
1607 AAATATTTGTCAATAACATGGCTTCAGCCTATTATTTATTGTCTCTTACA
1 AAATATTTGTCAATAACATGGC-TCAGCCTATTATTTATTGTATCTTACA
* *
1657 AAATATTTGTCAATAACATGGCTCAGGCTATTATTTATTTTATCTTACA
1 AAATATTTGTCAATAACATGGCTCAGCCTATTATTTATTGTATCTTACA
1706 A
1 A
1707 GCCACAAGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 25 0.53
50 22 0.47
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (49 bp):
AAATATTTGTCAATAACATGGCTCAGCCTATTATTTATTGTATCTTACA
Found at i:8449 original size:16 final size:16
Alignment explanation
Indices: 8428--8467 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
8418 AATCTATGAG
8428 CCAACAAACCCCTTCC
1 CCAACAAACCCCTTCC
8444 CCAACAAACCCCTTCC
1 CCAACAAACCCCTTCC
8460 CCAACAAA
1 CCAACAAA
8468 TAAAGCCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.10
Consensus pattern (16 bp):
CCAACAAACCCCTTCC
Found at i:8647 original size:156 final size:159
Alignment explanation
Indices: 8451--8771 Score: 549
Period size: 163 Copynumber: 2.0 Consensus size: 159
8441 TCCCCAACAA
* *
8451 ACCCCTTCCCCAACAAATAAAGCCAGTGAAATCTCATTACAATTCAAATAAATCTCTATG-C-CC
1 ACCCCTTCCCCAACAAACAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTATGCCTCC
*
8514 -AAACATCTACATGAGAATTCAACCCAAACTAGAAACTATACCATAAATAAACTACCTACCTACC
66 TAAACATCTAAATGAGAATTCAACCCAAACTAGAAACTATACCATAAATAAACTACCTACCTACC
8578 AAATAAACAAACAAATTACAAACAAACTC
131 AAATAAACAAACAAATTACAAACAAACTC
8607 ACCCCTTCCCCAACAAACAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTATGCCCAT
1 ACCCCTTCCCCAACAAACAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTATG-CC--
*
8672 TGCCTAAACATCTAAATGAGAATTCAACCCAAACTAGAAAGTATACCATAAATAAACTACCTACC
63 T-CCTAAACATCTAAATGAGAATTCAACCCAAACTAGAAACTATACCATAAATAAACTACCTACC
8737 TACCAAATAAACAAACAAATTACAAACAAACTC
127 TACCAAATAAACAAACAAATTACAAACAAACTC
8770 AC
1 AC
8772 ATTCCGTGAG
Statistics
Matches: 154, Mismatches: 4, Indels: 7
0.93 0.02 0.04
Matches are distributed among these distances:
156 58 0.38
158 1 0.01
162 2 0.01
163 93 0.60
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (159 bp):
ACCCCTTCCCCAACAAACAAACCCAGTGAAATCTCATTACAATTCAAATAAATCTCTATGCCTCC
TAAACATCTAAATGAGAATTCAACCCAAACTAGAAACTATACCATAAATAAACTACCTACCTACC
AAATAAACAAACAAATTACAAACAAACTC
Found at i:10186 original size:6 final size:6
Alignment explanation
Indices: 10158--10204 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 6
10148 TTTCCTTTAG
10158 TTTTG- TTTTG- TTTTGT ATTTTGT TTTTGT TTTCTGT TTTTGT GTTTT
1 TTTTGT TTTTGT TTTTGT -TTTTGT TTTTGT TTT-TGT TTTTGT -TTTT
10205 TCTTAACTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.26
6 12 0.32
7 16 0.42
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.79
Consensus pattern (6 bp):
TTTTGT
Found at i:10186 original size:13 final size:12
Alignment explanation
Indices: 10158--10204 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
10148 TTTCCTTTAG
10158 TTTTG-TTTTG-
1 TTTTGTTTTTGT
10168 TTTTGTATTTTGT
1 TTTTGT-TTTTGT
10181 TTTTGTTTTCTGT
1 TTTTGTTTT-TGT
10194 TTTTGTGTTTT
1 TTTTGT-TTTT
10205 TCTTAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.16
12 8 0.25
13 16 0.50
14 3 0.09
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.79
Consensus pattern (12 bp):
TTTTGTTTTTGT
Found at i:10196 original size:18 final size:17
Alignment explanation
Indices: 10157--10196 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
10147 CTTTCCTTTA
*
10157 GTTTTGTTTTGTTTTGT
1 GTTTTGTTTTGTTTTCT
*
10174 ATTTTGTTTTTGTTTTCT
1 GTTTTG-TTTTGTTTTCT
10192 GTTTT
1 GTTTT
10197 TGTGTTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.03, C:0.03, G:0.17, T:0.78
Consensus pattern (17 bp):
GTTTTGTTTTGTTTTCT
Found at i:13310 original size:30 final size:30
Alignment explanation
Indices: 13274--13335 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
13264 GTGTGCCTAC
13274 GAAAGTGGAACTAAGTCATTTGTTGCATGT
1 GAAAGTGGAACTAAGTCATTTGTTGCATGT
13304 GAAAGTGGAACTAAGTCATTTGTTGCATGT
1 GAAAGTGGAACTAAGTCATTTGTTGCATGT
13334 GA
1 GA
13336 TTTTCCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (30 bp):
GAAAGTGGAACTAAGTCATTTGTTGCATGT
Found at i:15752 original size:12 final size:11
Alignment explanation
Indices: 15725--15798 Score: 59
Period size: 12 Copynumber: 6.7 Consensus size: 11
15715 AACCGTTTAA
15725 TAATTATATAT
1 TAATTATATAT
15736 T-ATTATATAT
1 TAATTATATAT
15746 GTAATTATATA-
1 -TAATTATATAT
15757 T-ATCTA-ATAT
1 TAAT-TATATAT
*
15767 TATTTTATATAT
1 TA-ATTATATAT
15779 ATAA-TATATATT
1 -TAATTATATA-T
15791 TAATTATA
1 TAATTATA
15799 AATATTACTA
Statistics
Matches: 51, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.10
10 13 0.25
11 13 0.25
12 18 0.35
13 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATTATATAT
Found at i:15777 original size:19 final size:20
Alignment explanation
Indices: 15724--15803 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 20
15714 AAACCGTTTA
*
15724 ATAAT-TATATATTAT-TAT
1 ATAATATATATTTTATATAT
* *
15742 AT-ATGTA-ATTATATATAT
1 ATAATATATATTTTATATAT
*
15760 CTAATAT-TATTTTATATAT
1 ATAATATATATTTTATATAT
*
15779 ATAATATATATTTAAT-TAT
1 ATAATATATATTTTATATAT
15798 A-AATAT
1 ATAATAT
15804 TACTAAACGG
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
17 7 0.14
18 13 0.26
19 23 0.46
20 7 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (20 bp):
ATAATATATATTTTATATAT
Found at i:15780 original size:14 final size:14
Alignment explanation
Indices: 15729--15789 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 14
15719 GTTTAATAAT
15729 TATATATTATTATA
1 TATATATTATTATA
*
15743 TATGTAATTATATATA
1 TATAT-ATTAT-TATA
* *
15759 TCTAATATTATTTTA
1 TAT-ATATTATTATA
*
15774 TATATA-TAATATA
1 TATATATTATTATA
15787 TAT
1 TAT
15790 TTAATTATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
13 8 0.22
14 7 0.19
15 10 0.27
16 11 0.30
17 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
TATATATTATTATA
Found at i:15787 original size:21 final size:21
Alignment explanation
Indices: 15728--15803 Score: 54
Period size: 21 Copynumber: 3.7 Consensus size: 21
15718 CGTTTAATAA
* *
15728 TTATATATTATTATATATGTA-A
1 TTATATA-TATAATATAT-TATT
*
15750 TTATATATAT-CTAATATTATT
1 TTATATATATAAT-ATATTATT
15771 TTATATATATAATATA-TATT
1 TTATATATATAATATATTATT
*
15791 TAAT-TATA-AATAT
1 TTATATATATAATAT
15804 TACTAAACGG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 10 0.21
21 20 0.43
22 8 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
TTATATATATAATATATTATT
Found at i:21730 original size:21 final size:19
Alignment explanation
Indices: 21706--21744 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
21696 TGTTAAGAAT
21706 GAAATGATGATAAGGAGAAGA
1 GAAATGATG--AAGGAGAAGA
*
21727 GAAATGGTGAAGGAGAAG
1 GAAATGATGAAGGAGAAG
21745 GGTCTTAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (19 bp):
GAAATGATGAAGGAGAAGA
Found at i:32069 original size:53 final size:53
Alignment explanation
Indices: 31989--32098 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
31979 TCAAATGACC
31989 TCCTTAAATTTAGGCATGATTTTAGCCCAAGGTTTAACCCCTTCTAAAATAAA
1 TCCTTAAATTTAGGCATGATTTTAGCCCAAGGTTTAACCCCTTCTAAAATAAA
* *
32042 TCCTTAAATTTAGGCATGATTTTAGCCCAAGGTTTAGCCCCTTTTAAAATAAA
1 TCCTTAAATTTAGGCATGATTTTAGCCCAAGGTTTAACCCCTTCTAAAATAAA
32095 TCCT
1 TCCT
32099 GTATAGAGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (53 bp):
TCCTTAAATTTAGGCATGATTTTAGCCCAAGGTTTAACCCCTTCTAAAATAAA
Found at i:33181 original size:22 final size:22
Alignment explanation
Indices: 33135--33177 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
33125 TGGTCAACTT
*
33135 GTTTTTCTTTCTTTCTTTTTTC
1 GTTTTTCTTTCTTTCTTTTTCC
33157 GTTTTT-TTT-TTTCCTTTTTCC
1 GTTTTTCTTTCTTT-CTTTTTCC
33178 CGTTATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 10 0.53
22 6 0.32
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (22 bp):
GTTTTTCTTTCTTTCTTTTTCC
Found at i:33860 original size:52 final size:52
Alignment explanation
Indices: 33782--33885 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
33772 TTAAGCCTAA
33782 ACACAAACACGGTAAAACCCGTATCGTTCCGTGTCATACAAACGTGTCGTGT
1 ACACAAACACGGTAAAACCCGTATCGTTCCGTGTCATACAAACGTGTCGTGT
33834 ACACAAACACGGTAAAACCCGTATCGTTCCGTGTCATACAAACGTGTCGTGT
1 ACACAAACACGGTAAAACCCGTATCGTTCCGTGTCATACAAACGTGTCGTGT
33886 CGGAAATTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (52 bp):
ACACAAACACGGTAAAACCCGTATCGTTCCGTGTCATACAAACGTGTCGTGT
Found at i:40421 original size:85 final size:84
Alignment explanation
Indices: 40281--40449 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 84
40271 GCACGACACG
* * *
40281 AGTCGAATCCAGATTAGTTAAGGCAAAACCTTGAATATGGGATGAGATATCAAAAAAATCTTTTA
1 AGTCGAATCCAGATTAATTAAGGCAAAACCTTGAATACGGGATGAGAT-TAAAAAAAATCTTTTA
40346 AATCAATTCAATACTAATCC
65 AATCAATTCAATACTAATCC
* * *
40366 AGTCGAATCCGGATTAATTAAGGCAAAGCCTTGAATACGGGATGGGATTAAAAAAAATCTTTTAA
1 AGTCGAATCCAGATTAATTAAGGCAAAACCTTGAATACGGGATGAGATTAAAAAAAATCTTTTAA
40431 ATCAATTCAATACTAATCC
66 ATCAATTCAATACTAATCC
40450 TTTTCTAAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 35 0.45
85 43 0.55
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (84 bp):
AGTCGAATCCAGATTAATTAAGGCAAAACCTTGAATACGGGATGAGATTAAAAAAAATCTTTTAA
ATCAATTCAATACTAATCC
Found at i:41650 original size:17 final size:17
Alignment explanation
Indices: 41604--41651 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
41594 GATCACCCCC
* *
41604 AGATCACTAATGATATA
1 AGATCACCAGTGATATA
*
41621 AGATCATCAGTGATATA
1 AGATCACCAGTGATATA
*
41638 AGATCACCGGTGAT
1 AGATCACCAGTGAT
41652 CAAAGATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (17 bp):
AGATCACCAGTGATATA
Found at i:51059 original size:21 final size:20
Alignment explanation
Indices: 51014--51072 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
51004 CTGTTTGACA
51014 ACTGTACAGATGAGATTA-C
1 ACTGTACAGATGAGATTATC
* *
51033 ACTGTACAGATTAGATTATGT
1 ACTGTACAGATGAGATTAT-C
*
51054 ACTGTACAAATGAGATTAT
1 ACTGTACAGATGAGATTAT
51073 TAGAACAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.50
21 17 0.50
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
ACTGTACAGATGAGATTATC
Found at i:51145 original size:19 final size:19
Alignment explanation
Indices: 51117--51153 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
51107 TTTGGTCCCA
*
51117 AAACGGTGGTGAAACGATC
1 AAACGATGGTGAAACGATC
51136 AAACGATGGTGAAACGAT
1 AAACGATGGTGAAACGAT
51154 TACAGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.16
Consensus pattern (19 bp):
AAACGATGGTGAAACGATC
Found at i:63708 original size:6 final size:6
Alignment explanation
Indices: 63694--63735 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
63684 TTAAAAACAC
*
63694 AAAAA- AAAAAG AAAAAAAG AAAAAG AAAAAG AAAAAT AAAAA
1 AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
63736 AGACATCACA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
5 5 0.15
6 22 0.67
8 6 0.18
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:63709 original size:12 final size:12
Alignment explanation
Indices: 63694--63738 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
63684 TTAAAAACAC
*
63694 AAAAAAA-AAAG
1 AAAAAAAGAAAA
63705 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
63717 AGAAAAAGAAAA
1 AAAAAAAGAAAA
63729 ATAAAAAAGA
1 A-AAAAAAGA
63739 CATCACACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 7 0.24
12 15 0.52
13 7 0.24
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:71325 original size:14 final size:14
Alignment explanation
Indices: 71297--71333 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
71287 CACCAATAAT
*
71297 CTAAGTAGT-ACTA
1 CTAAGTACTAACTA
71310 CTAAGTACTAACTA
1 CTAAGTACTAACTA
71324 CTAAGTACTA
1 CTAAGTACTA
71334 GGTACAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (14 bp):
CTAAGTACTAACTA
Found at i:99972 original size:18 final size:18
Alignment explanation
Indices: 99950--99992 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
99940 CAACATTAGT
*
99950 AAAAAAAAAAACAAAGACC
1 AAAAATAAAAACAAA-ACC
*
99969 AAAAATTAAAACAAAACC
1 AAAAATAAAAACAAAACC
99987 ACAAAA
1 A-AAAA
99993 GGCCCCTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.77, C:0.16, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAATAAAAACAAAACC
Found at i:102404 original size:72 final size:73
Alignment explanation
Indices: 102223--102417 Score: 233
Period size: 72 Copynumber: 2.7 Consensus size: 73
102213 CCAATGTGGT
* *
102223 TATAACCGATACCGGACAGTTAATACCAAAAATAATTTACAAGATAACATAACATCGAGACCCCA
1 TATAACCGATACC-GACA-ATAATACCAAAAATAATTTACAAAATAACATAACATCGAGACCCCA
*
102288 TATGGTTATA
64 TATGATTATA
*
102298 -ACT-A--GAAACCGAACAATTAATACCAAAAATAATTTACAAAATAACATAACATCGAGA-CCC
1 TA-TAACCGATACCG-ACAA-TAATACCAAAAATAATTTACAAAATAACATAACATCGAGACCCC
102358 ATATGATTATA
63 ATATGATTATA
*
102369 TATAACCGGATACCAGACAATAATATC-AAAA-AATTTACAAAATAACATA
1 TATAACC-GATACC-GACAATAATACCAAAAATAATTTACAAAATAACATA
102418 TGAAAGGGGA
Statistics
Matches: 105, Mismatches: 6, Indels: 21
0.80 0.05 0.16
Matches are distributed among these distances:
71 15 0.14
72 67 0.64
73 4 0.04
74 8 0.08
75 10 0.10
76 1 0.01
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (73 bp):
TATAACCGATACCGACAATAATACCAAAAATAATTTACAAAATAACATAACATCGAGACCCCATA
TGATTATA
Found at i:113299 original size:118 final size:118
Alignment explanation
Indices: 113110--113332 Score: 378
Period size: 118 Copynumber: 1.9 Consensus size: 118
113100 GAAAAGAAAA
* *
113110 AAAAGGGGGAGATTTGGTAGGAAATATGTTGTGAAGGGAGAAAGGATGAGCCTTGAGAGGGAAAT
1 AAAAGGGGGAGATTTGGTAGGAAATATGTAGTGAAGGGAGAAAGGATGAGACTTGAGAGGGAAAT
*
113175 GGGAGAGAGGAAGAGAGACAATGAGAGAGTTCTTAGAAAAAAAAAAAAAAGAG
66 GGGAGAGAGGAAGAGAGAAAATGAGAGAGTTCTTAGAAAAAAAAAAAAAAGAG
*
113228 AAAA-GGGGAGATTTGGTAGGAGAATATGGTAG-GAAGGGAGATAGGATGAGACTTGAGAGGGAA
1 AAAAGGGGGAGATTTGGTAGGA-AATAT-GTAGTGAAGGGAGAAAGGATGAGACTTGAGAGGGAA
113291 ATGGGAGAGAGGAAGAGAGAAAATGAGAGAGTTCTTAGAAAA
64 ATGGGAGAGAGGAAGAGAGAAAATGAGAGAGTTCTTAGAAAA
113333 TGTGAAGTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
117 17 0.17
118 79 0.80
119 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.38, T:0.16
Consensus pattern (118 bp):
AAAAGGGGGAGATTTGGTAGGAAATATGTAGTGAAGGGAGAAAGGATGAGACTTGAGAGGGAAAT
GGGAGAGAGGAAGAGAGAAAATGAGAGAGTTCTTAGAAAAAAAAAAAAAAGAG
Found at i:113569 original size:115 final size:115
Alignment explanation
Indices: 113366--113645 Score: 488
Period size: 115 Copynumber: 2.4 Consensus size: 115
113356 GGCATTGTTT
113366 TCCGTTCCAAAAGCCGTTCCATACCAAAATAGAAAAATTTGAACAAATTTTAAGCTCGTTTTATT
1 TCCGTTCCAAAAGCCGTTCCATACCAAAATAGAAAAATTTGAACAAATTTTAAGCTCGTTTTATT
113431 GCCGCCTAAATTTTTCACAATGGAACAGAGTTTGGAACCAACATTAAAAA
66 GCCGCCTAAATTTTTCACAATGGAACAGAGTTTGGAACCAACATTAAAAA
*
113481 TCCGTTCCAAAAGCCGTTCCATACCAAAATAGAAAAAATTGAACAAATTTTAAGCTCGTTTTATT
1 TCCGTTCCAAAAGCCGTTCCATACCAAAATAGAAAAATTTGAACAAATTTTAAGCTCGTTTTATT
* *
113546 GCCGCCTAAATTTTTCACTATGGAACGGAGTTTGGAACCAACATTAAAAA
66 GCCGCCTAAATTTTTCACAATGGAACAGAGTTTGGAACCAACATTAAAAA
* * * *
113596 TCCATTCCAAAAATCCGTTCAATACCCAAATAGAAAAATTTGAACAAATT
1 TCCGTTCC-AAAAGCCGTTCCATACCAAAATAGAAAAATTTGAACAAATT
113646 GCCTAAATTT
Statistics
Matches: 156, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
115 119 0.76
116 37 0.24
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (115 bp):
TCCGTTCCAAAAGCCGTTCCATACCAAAATAGAAAAATTTGAACAAATTTTAAGCTCGTTTTATT
GCCGCCTAAATTTTTCACAATGGAACAGAGTTTGGAACCAACATTAAAAA
Found at i:113661 original size:97 final size:98
Alignment explanation
Indices: 113549--113812 Score: 334
Period size: 97 Copynumber: 2.6 Consensus size: 98
113539 TTTTATTGCC
* *
113549 GCCTAAATTTTTCACTATGGAACGGAGTTTGGAACCAACATTAAAAATCCATTCCAAAAATCCGT
1 GCCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCCGTTCCAAAAATCCGT
*
113614 TCAATACCCAAATAGAAAAATTTGAACAA-ATT
66 TCAATACCAAAATAGAAAAATTTGAACAATATT
* ** * *
113646 GCCTAAATTTTTCACTATGGAACGGAATTTGAAACCAACATTAACGATCCGTTCC-CATATCCGT
1 GCCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCCGTTCCAAAAATCCGT
*
113710 TCCATACCAAAATAGAAAAATTTGAACAATTTTTTTTATT
66 TCAATACCAAAATAGAAAAATTTGAACAA-------TATT
113750 GCCACCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAACTCCGTTCCAAAA
1 G---CCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAA-TCCGTTCCAAAA
113813 GTCGTTCCAT
Statistics
Matches: 140, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
96 34 0.24
97 50 0.36
104 4 0.03
107 43 0.31
108 8 0.06
109 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (98 bp):
GCCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCCGTTCCAAAAATCCGT
TCAATACCAAAATAGAAAAATTTGAACAATATT
Found at i:113854 original size:107 final size:103
Alignment explanation
Indices: 113424--113854 Score: 333
Period size: 107 Copynumber: 4.0 Consensus size: 103
113414 TTTAAGCTCG
* * *
113424 TTTTATTGCCGCCTAAATTTTTCACAATGGAACAGAGTTTGGAACCAACATTAAAAATCCGTTCC
1 TTTTATTGCC-CCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCCGTTCC
* * * *
113489 AAAAGCCGTTCCATACCAA-AATAGAAAAAATTGAACAAATTTTAA
65 AAAATCCGTTCCATA-TAACAA-A-CAAATA-TGAA-AAA-TTT-A
*
113534 GCTCGTTTTATTGCCGCCTAAATTTTTCACTATGGAACGGAGTTTGGAACCAACATTAAAAATCC
1 -----TTTTATTGCC-CCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCC
* *
113599 ATTCCAAAAATCCGTT-CA-AT-AC--CCAAATA-GAAAAATTTGA
60 GTTCC-AAAATCCGTTCCATATAACAAACAAATATGAAAAATTT-A
**** * ** *
113639 ACAAATTG--CCTAAATTTTTCACTATGGAACGGAATTTGAAACCAACATTAACGATCCGTTCCC
1 TTTTATTGCCCCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCCGTTCCA
* * * * * * *
113702 ATATCCGTTCCATACCAAAATAGAAAAATTTGAACAATTTT
66 AAATCCGTTCCATA-TAACA-A-ACAAATATGAAAAATTTA
113743 TTTTATTGCCACCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAACTCCGTTC
1 TTTTATTGCC-CCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAA-TCCGTTC
* *
113808 CAAAAGT-CGTTCCATATAACAAACATTAATATGAATAACTTA
64 CAAAA-TCCGTTCCATATAACAAACA--AATATGAAAAATTTA
113850 TTTTA
1 TTTTA
113855 ACCATCATTT
Statistics
Matches: 255, Mismatches: 43, Indels: 44
0.75 0.13 0.13
Matches are distributed among these distances:
96 8 0.03
97 51 0.20
98 1 0.00
100 5 0.02
104 8 0.03
105 14 0.05
106 4 0.02
107 65 0.25
108 19 0.07
109 5 0.02
112 1 0.00
114 1 0.00
115 64 0.25
116 9 0.04
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (103 bp):
TTTTATTGCCCCTAAATTTTTCACTATGGAACGGAATTTGGAACCAACATTAAAAATCCGTTCCA
AAATCCGTTCCATATAACAAACAAATATGAAAAATTTA
Found at i:115618 original size:29 final size:29
Alignment explanation
Indices: 115581--115644 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
115571 GGCAAAACAC
115581 TCCAAAATTGAAATTT-AGAGGGCAAAATG
1 TCCAAAATTG-AATTTAAGAGGGCAAAATG
* *
115610 TCCAGAATTGAATTTAAGGGGGCAAAATG
1 TCCAAAATTGAATTTAAGAGGGCAAAATG
115639 TCCAAA
1 TCCAAA
115645 TGCTATAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (29 bp):
TCCAAAATTGAATTTAAGAGGGCAAAATG
Found at i:118172 original size:3 final size:3
Alignment explanation
Indices: 118161--118190 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
118151 TTCTTCTCCA
*
118161 GAT GTT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
118191 TCATCAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (3 bp):
GAT
Found at i:129614 original size:30 final size:30
Alignment explanation
Indices: 129556--129621 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
129546 AATGTACAAT
* ***
129556 GAAAATTTCTTTATAAAATTCCTCGAAAAA
1 GAAAAATTCTTTATAAAATTCAAAGAAAAA
129586 -AAAAATTCTTTATAAAACTTCAAAGAAAAA
1 GAAAAATTCTTTATAAAA-TTCAAAGAAAAA
129616 GAAAAA
1 GAAAAA
129622 GGCATTACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.53
30 9 0.30
31 5 0.17
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (30 bp):
GAAAAATTCTTTATAAAATTCAAAGAAAAA
Found at i:136296 original size:32 final size:32
Alignment explanation
Indices: 136228--136301 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
136218 ACCCTCTGTC
* * **
136228 AGAGGGTAAAATGTCTTGAATTTGAAAATTTT
1 AGAGGGCAAAATGTCCTGAATTTGAAAATTCA
*
136260 AGAGGGCAAAATGTCCTGAATTT-ACACATTCA
1 AGAGGGCAAAATGTCCTGAATTTGA-AAATTCA
136292 AGA-GGCAAAA
1 AGAGGGCAAAA
136302 CGTCAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 8 0.22
32 28 0.78
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (32 bp):
AGAGGGCAAAATGTCCTGAATTTGAAAATTCA
Found at i:137720 original size:477 final size:477
Alignment explanation
Indices: 137052--137926 Score: 1346
Period size: 482 Copynumber: 1.8 Consensus size: 477
137042 ATAAGGGCCC
* * * *
137052 GAACTTTCATAAAAATCTCAAATAAGGGCTCCAAAACACAATTTCAACAAATTAGAAGACACACT
1 GAACTTTCATAAAAAGCTCAAATAAAGGCCCCAAAACACAATTTCAACAAATTAAAAGACACACT
137117 AAGTAAATTTTTACAAATTAGGTTCTCCTCAGATGAAAACCAATGCTTATCATGCCTACACATCA
66 AAGTAAATTTTTACAAATTAGGTTCTCCTCAGATGAAAACCAATGCTTATCATGCCTACACATCA
* *
137182 ATTTTGATAGAAAAATGGTGTTATTAAATTAATTAAAAATCAAAACATTTTAATCCAAATAAATT
131 ATTTTGATAGAAAAATGATGTTATTAAATTAATTAAAAATCAAAACATATTAATCCAAATAAATT
* *
137247 CAATAAAC-A-TAGTATGATACAAGATTTTTCCGTGCTTTTTAATTTATATACATCTCACACACT
196 CAATAAACGAGTAGTATGATACAAAATTTTTCCGTGCTTTTTAATTTATATACACCTCACACACT
* * *
137310 AGTATTAGCTAATACCTTGCACAATATGTCATAATCTACTAAATATGTACTTTAATTTGTTGAAA
261 AGTATTAACTAAAACCTTGCACAATATGTCATAATCTACTAAATATGTACTTTAATTTGTTAAAA
* * * *
137375 TTGTGTTTTGGGGCCTTTATTTGAGATTTTTATG-ATAGTTCAGGCCCTTATTTGAGACTTTAGT
326 TTGTGTTTTGGGGCCCTTATTTGAGATTCTT-TGAAAAGTTCAAGCCCTTATTTGAGACTTTAGT
137439 C-ATTTTAAAATAATTATCTCGGATTCATTTTCTGCTACAACTTACAAGTGTACTTATTTGGGAG
390 CTATTTTAAAATAATTATCTCGGATTCATTTTCTGCTACAACTTACAAGTGTACTTATTTGGGAG
137503 GCTGTAATTTCAATTTAGGGTCT
455 GCTGTAATTTCAATTTAGGGTCT
* * *
137526 GAACTTTCATAATAAGCTCAAATAAAGGCCCCAAAACAGAATTTCAACAAATTAAAAGACATACT
1 GAACTTTCATAAAAAGCTCAAATAAAGGCCCCAAAACACAATTTCAACAAATTAAAAGACACACT
* *
137591 AATTAGTAAATTTTTACAAATTAGGTTCTCCTTAGAT-AAAACCAATGCTTTTCATGCCTACACA
66 -A--AGTAAATTTTTACAAATTAGGTTCTCCTCAGATGAAAACCAATGCTTATCATGCCTACACA
* *
137655 TCAATTTTGATAGAAAAATGATGTTATTATATTAAGTTAAAAATCAAAACCTATTAATCCAAATA
128 TCAATTTTGATAGAAAAATGATGTTATTAAATTAA-TTAAAAATCAAAACATATTAATCCAAATA
* * *
137720 AATTTAATAAACGTAGTGTAGTATGATATAAAATTTTTCTGTGCTTTTTAATTTATATACACCTC
192 AATTCAATAAACG-A--GTAGTATGATACAAAATTTTTCCGTGCTTTTTAATTTATATACACCTC
* * * * *
137785 ACGCATTAGTATTAACTAAAATCTTGTACAATATGTCATAATTTACTAAATATGTACTTTAATTT
254 ACACACTAGTATTAACTAAAACCTTGCACAATATGTCATAATCTACTAAATATGTACTTTAATTT
* * *
137850 GTTAAAATTGTGTTTTGGGGCCCTTATTTGAGCTTCTTTGAAAAGTTGAAGCCCTTATTTGAGCC
319 GTTAAAATTGTGTTTTGGGGCCCTTATTTGAGATTCTTTGAAAAGTTCAAGCCCTTATTTGAGAC
137915 TTTAGTCTATTT
384 TTTAGTCTATTT
137927 GGGATCTAGC
Statistics
Matches: 357, Mismatches: 33, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
474 58 0.16
475 1 0.00
476 59 0.17
477 70 0.20
479 1 0.00
481 2 0.01
482 162 0.45
483 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (477 bp):
GAACTTTCATAAAAAGCTCAAATAAAGGCCCCAAAACACAATTTCAACAAATTAAAAGACACACT
AAGTAAATTTTTACAAATTAGGTTCTCCTCAGATGAAAACCAATGCTTATCATGCCTACACATCA
ATTTTGATAGAAAAATGATGTTATTAAATTAATTAAAAATCAAAACATATTAATCCAAATAAATT
CAATAAACGAGTAGTATGATACAAAATTTTTCCGTGCTTTTTAATTTATATACACCTCACACACT
AGTATTAACTAAAACCTTGCACAATATGTCATAATCTACTAAATATGTACTTTAATTTGTTAAAA
TTGTGTTTTGGGGCCCTTATTTGAGATTCTTTGAAAAGTTCAAGCCCTTATTTGAGACTTTAGTC
TATTTTAAAATAATTATCTCGGATTCATTTTCTGCTACAACTTACAAGTGTACTTATTTGGGAGG
CTGTAATTTCAATTTAGGGTCT
Found at i:138136 original size:21 final size:21
Alignment explanation
Indices: 138091--138149 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
138081 CTGTTTGGCA
* *
138091 ACTGTACAAATGAGATTA--C
1 ACTGTACAGATGAGATTATGT
*
138110 ACTGTACAGATTAGATTATGT
1 ACTGTACAGATGAGATTATGT
138131 ACTGTACAGATGAGATTAT
1 ACTGTACAGATGAGATTAT
138150 TAGAGCAGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (21 bp):
ACTGTACAGATGAGATTATGT
Found at i:138171 original size:29 final size:29
Alignment explanation
Indices: 138139--138197 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
138129 GTACTGTACA
138139 GATGAGATTATTAGAGCAGCAATTGAAAC
1 GATGAGATTATTAGAGCAGCAATTGAAAC
*
138168 GATGAGATTATTAGAGTAGCAATTGAAAC
1 GATGAGATTATTAGAGCAGCAATTGAAAC
138197 G
1 G
138198 GAGTTTACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (29 bp):
GATGAGATTATTAGAGCAGCAATTGAAAC
Found at i:138334 original size:22 final size:22
Alignment explanation
Indices: 138306--138349 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
138296 TATGTACCTA
138306 GATAATAATTAATATTAATAAT
1 GATAATAATTAATATTAATAAT
138328 GATAATAATTAATATTAATAAT
1 GATAATAATTAATATTAATAAT
138350 AATATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
GATAATAATTAATATTAATAAT
Found at i:147709 original size:99 final size:99
Alignment explanation
Indices: 147538--147738 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 99
147528 ACTTTCTAGA
147538 CATGTGGAAAAAATTAATGTTGTTGAGGATGAAACCCAGCTACCCACTGAGAAGCTGTCTTCTGC
1 CATGTGGAAAAAATTAATGTTGTTGAGGATGAAACCCAGCTACCCACTGAGAAGCTGTCTTCTGC
147603 ACATCCTAAAAGGAAGAGAAAGGATAATTCATCG
66 ACATCCTAAAAGGAAGAGAAAGGATAATTCATCG
147637 CATGTGGAAAAAATTAATGTTGTTGAGGATGAAACCCAGCTACCCACTGAGAAGCTGTCTTCTGC
1 CATGTGGAAAAAATTAATGTTGTTGAGGATGAAACCCAGCTACCCACTGAGAAGCTGTCTTCTGC
*
147702 ACATCCTAAAAGGAAGAGAAAGGATAATTCATTG
66 ACATCCTAAAAGGAAGAGAAAGGATAATTCATCG
147736 CAT
1 CAT
147739 TTTGGGTCTC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (99 bp):
CATGTGGAAAAAATTAATGTTGTTGAGGATGAAACCCAGCTACCCACTGAGAAGCTGTCTTCTGC
ACATCCTAAAAGGAAGAGAAAGGATAATTCATCG
Found at i:152568 original size:17 final size:17
Alignment explanation
Indices: 152548--152581 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
152538 ATAACCCATT
152548 ATTATATATATAATATA
1 ATTATATATATAATATA
*
152565 ATTATTTATATAATATA
1 ATTATATATATAATATA
152582 TATTCAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTATATATATAATATA
Found at i:155695 original size:319 final size:315
Alignment explanation
Indices: 155115--155700 Score: 901
Period size: 319 Copynumber: 1.8 Consensus size: 315
155105 AGTGAGGGAA
* *
155115 CAAGCAAGAGTCTATGTGAGAAAACATTGGGTTTACTCAGACTCGAACCCATGACCACACCTGCA
1 CAAGCAAGAGTCTATGTGAGAAAACATTGCGTTTACTCAGACTCGAACCCATGACCAAACCTGCA
*
155180 GGAACCTTACACTCGGCTTCCTGCCACTAAGCCACCCCGCAGGGGATTATAATTTTCTTTGTTTA
66 GGAACCTTACACTCGACTTCCTGCCACTAA--CA-CCCGCA-GGGATTATAATTTTCTTTGTTTA
* * * *
155245 AAATAGTTTTTTATTATTGTTTTTTCAATTGTTAAAAAACAAGCAAGAGTCTATTAAAGAAAACA
127 AAATAGTTTTTTATTATTGTTTTGTCAATTGTTAAAAAACAAGCAAGAATCCATGAAAGAAAACA
*
155310 TTACGTTTACTCAAACTCGAACCCATGACCACACCTCAGGAACCTTACACTTGCTTCCTACCACT
192 TTACGTTTACTCAAACTCGAACCCATGACCACACCTCAGGAACCTTACACTGGCTTCCTACCACT
155375 AAGCCACCCCAAAGCCGAAAGGGCTTATAATTTTCTTTGTTTTGTCAATTTTTCAAAAT
257 AAGCCACCCCAAAGCCGAAAGGGCTTATAATTTTCTTTGTTTTGTCAATTTTTCAAAAT
*
155434 CAAGCAAGAGTCTATGTGAGAAGACATTGCGTTTACTCAGACTCGAACCCATGACCAAACCTGCA
1 CAAGCAAGAGTCTATGTGAGAAAACATTGCGTTTACTCAGACTCGAACCCATGACCAAACCTGCA
*
155499 GGAACCTTACAGTCGACTTCCTGCCACTAA-A-CCG-A-GGATTATAATTTTCTTTGTTTAAAAT
66 GGAACCTTACACTCGACTTCCTGCCACTAACACCCGCAGGGATTATAATTTTCTTTGTTTAAAAT
* *
155560 AGTTTTTTTTTTATTATTATTGTTTTGTCAATTGTTCAAAAACAAGCAAGAATCCATGAGAGAAA
131 AG------TTTT-TTATTATTGTTTTGTCAATTGTTAAAAAACAAGCAAGAATCCATGAAAGAAA
* * *
155625 ACATTACGTTTACTCAAATTCGAACCCATGACCACACCTCAGGAACTTTACACTCGGCTTCCTGC
189 ACATTACGTTTACTCAAACTCGAACCCATGACCACACCTCAGGAACCTTACACT-GGCTTCCTAC
155690 CACTAAGCCAC
253 CACTAAGCCAC
155701 TGCCACTAAG
Statistics
Matches: 244, Mismatches: 15, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
311 28 0.11
313 1 0.00
314 3 0.01
316 1 0.00
317 4 0.02
318 98 0.40
319 109 0.45
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (315 bp):
CAAGCAAGAGTCTATGTGAGAAAACATTGCGTTTACTCAGACTCGAACCCATGACCAAACCTGCA
GGAACCTTACACTCGACTTCCTGCCACTAACACCCGCAGGGATTATAATTTTCTTTGTTTAAAAT
AGTTTTTTATTATTGTTTTGTCAATTGTTAAAAAACAAGCAAGAATCCATGAAAGAAAACATTAC
GTTTACTCAAACTCGAACCCATGACCACACCTCAGGAACCTTACACTGGCTTCCTACCACTAAGC
CACCCCAAAGCCGAAAGGGCTTATAATTTTCTTTGTTTTGTCAATTTTTCAAAAT
Found at i:173979 original size:20 final size:20
Alignment explanation
Indices: 173954--173993 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
173944 AATTACAAAC
173954 AAACTCACATTCCGTGAGAG
1 AAACTCACATTCCGTGAGAG
173974 AAACTCACATTCCGTGAGAG
1 AAACTCACATTCCGTGAGAG
173994 TTGAATCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAACTCACATTCCGTGAGAG
Done.