Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015786.1 Corchorus olitorius cultivar O-4 contig15819, 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: 37328
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:3943 original size:18 final size:17
Alignment explanation
Indices: 3918--3951 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3908 AAATAAAACA
3918 ATAAAAATAAACAAATG
1 ATAAAAATAAACAAATG
*
3935 ATAATAAATAAATAAAT
1 ATAA-AAATAAACAAAT
3952 CCTAGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAAAATAAACAAATG
Found at i:4816 original size:19 final size:18
Alignment explanation
Indices: 4792--4831 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4782 TTGAAGATTT
*
4792 ATTGAAGATAATTTGAAGA
1 ATTGAAGACAA-TTGAAGA
*
4811 ATTGAAGACCATTGAAGA
1 ATTGAAGACAATTGAAGA
4829 ATT
1 ATT
4832 ATTTCAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (18 bp):
ATTGAAGACAATTGAAGA
Found at i:13147 original size:76 final size:78
Alignment explanation
Indices: 13093--13356 Score: 423
Period size: 76 Copynumber: 3.5 Consensus size: 78
13083 AAGTTCCCAT
13093 CAGTTTATC-AA-TTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAGTTTTTAATTTAGG
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAGTTTTTAATTTAGG
*
13156 GAAAGATCTCGTC
66 GAAAGATCCCGTC
*
13169 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATC--AGTTTTCAATTTAGG
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAGTTTTTAATTTAGG
13232 GAAAGATCCCGTC
66 GAAAGATCCCGTC
* * * *
13245 CAGTTTATC--AGTTTTCAATTTAGGGAAAGATCTCGTCCAATTTATCAAAGTTTTCATTTTAGG
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAGTTTTTAATTTAGG
13308 GAAAGATCCCGTC
66 GAAAGATCCCGTC
*
13321 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGTTCCC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCC
13357 ATCAGGTTTT
Statistics
Matches: 175, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
74 35 0.20
76 80 0.46
77 2 0.01
78 58 0.33
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (78 bp):
CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAGTTTTTAATTTAGG
GAAAGATCCCGTC
Found at i:13158 original size:39 final size:39
Alignment explanation
Indices: 13093--13356 Score: 432
Period size: 39 Copynumber: 6.9 Consensus size: 39
13083 AAGTTCCCAT
13093 CAGTTTATC-AA-TTTTCAATTTAGGGAAAGATCCCGTC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
* *
13130 CAGTTTATCAAAGTTTTTAATTTAGGGAAAGATCTCGTC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
13169 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
13208 CAGTTTATC--AGTTTTCAATTTAGGGAAAGATCCCGTC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
*
13245 CAGTTTATC--AGTTTTCAATTTAGGGAAAGATCTCGTC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
* *
13282 CAATTTATCAAAGTTTTCATTTTAGGGAAAGATCCCGTC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
*
13321 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGTTCCC
1 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCC
13357 ATCAGGTTTT
Statistics
Matches: 212, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
37 81 0.38
38 2 0.01
39 129 0.61
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (39 bp):
CAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
Found at i:13386 original size:113 final size:113
Alignment explanation
Indices: 13093--13359 Score: 417
Period size: 113 Copynumber: 2.3 Consensus size: 113
13083 AAGTTCCCAT
* * * *
13093 CAGTTTATCAATTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAGTTTTTAATTTAGGGA
1 CAGTTTATCAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTATC--AGTTTTCAATATAGGGA
*
13158 AAGATCTCGTCCAGTTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
64 AAGATCTCGTCCAATTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
* *
13208 CAGTTTATCAGTTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAGTTTTCAATTTAGGGAAA
1 CAGTTTATCAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTATCAGTTTTCAATATAGGGAAA
*
13273 GATCTCGTCCAATTTATCAAAGTTTTCATTTTAGGGAAAGATCCCGTC
66 GATCTCGTCCAATTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
*
13321 CAGTTTATCAAAGTTTTCAATTTAGGGAAAGTTCCCATC
1 CAGTTTATC--AGTTTTCAATTTAGGGAAAGATCCCATC
13360 AGGTTTTAGC
Statistics
Matches: 144, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
113 73 0.51
115 71 0.49
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (113 bp):
CAGTTTATCAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTATCAGTTTTCAATATAGGGAAA
GATCTCGTCCAATTTATCAAAGTTTTCAATTTAGGGAAAGATCCCGTC
Found at i:13390 original size:35 final size:34
Alignment explanation
Indices: 13332--13576 Score: 269
Period size: 35 Copynumber: 6.8 Consensus size: 34
13322 AGTTTATCAA
*
13332 AGTTTTCAATTTAGGGAAAGTTCCCATCAGGTTTT
1 AGTTTTCAAATT-GGGAAAGTTCCCATCAGGTTTT
* *
13367 AGCTTTTCAAATCGGGAAAGTTCCCACCAGGTTTT
1 AG-TTTTCAAATTGGGAAAGTTCCCATCAGGTTTT
*
13402 AGTTTTCAAATTGGGAAAGTTCCCATCAAGTTTTT
1 AGTTTTCAAATTGGGAAAGTTCCCATC-AGGTTTT
*
13437 AAGTTTTCAAATTGGGAAAGTTCCCATTTA-GTTTT
1 -AGTTTTCAAATTGGGAAAGTTCCCA-TCAGGTTTT
*
13472 CAAAGTTTTTAAATTGGGAAAGTTCCCATCAGGTTTT
1 ---AGTTTTCAAATTGGGAAAGTTCCCATCAGGTTTT
*
13509 AGTTTTCAATTTAGGGAAAGTTCCTGTCATTTTCA-GTTTT
1 AGTTTTCAAATT-GGGAAAGTTCC---CA---TCAGGTTTT
*
13549 AGTTTTCAAAGTGGGAAAGTTCCCATCA
1 AGTTTTCAAATTGGGAAAGTTCCCATCA
13577 AAAGAATTTT
Statistics
Matches: 182, Mismatches: 14, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
33 3 0.02
34 33 0.18
35 46 0.25
36 38 0.21
37 31 0.17
38 2 0.01
39 11 0.06
40 15 0.08
41 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (34 bp):
AGTTTTCAAATTGGGAAAGTTCCCATCAGGTTTT
Found at i:13487 original size:37 final size:36
Alignment explanation
Indices: 13069--13577 Score: 272
Period size: 39 Copynumber: 13.8 Consensus size: 36
13059 TTCCAAAGTT
* * *
13069 TTTTTAAATTGCGAAAGTTCCCATC-AGTTTATCAA-
1 TTTTCAAATTGGGAAAGTTCCCATCAAGTTT-TAAAG
* * * *
13104 TTTTCAATTTAGGGAAAGATCCCGTCCAGTTTATCAAAG
1 TTTTCAAATT-GGGAAAGTTCCCATCAAGTTT-T-AAAG
* * * * * *
13143 TTTTTAATTTAGGGAAAGATCTCGTCCAGTTTATCAAAG
1 TTTTCAAATT-GGGAAAGTTCCCATCAAGTTT-T-AAAG
* * * * *
13182 TTTTCAATTTAGGGAAAGATCCCGTCCAG-TTTATCAG
1 TTTTCAAATT-GGGAAAGTTCCCATCAAGTTTTA-AAG
* * * * *
13219 TTTTCAATTTAGGGAAAGATCCCGTCCAG-TTTATCAG
1 TTTTCAAATT-GGGAAAGTTCCCATCAAGTTTTA-AAG
* * * *
13256 TTTTCAATTTAGGGAAAGATCTCGTCCAA-TTTATCAAAG
1 TTTTCAAATT-GGGAAAGTTCCCAT-CAAGTTT-T-AAAG
** * * *
13295 TTTTCATTTTAGGGAAAGATCCCGTCCAGTTTATCAAAG
1 TTTTCAAATT-GGGAAAGTTCCCATCAAGTTT-T-AAAG
* *
13334 TTTTCAATTTAGGGAAAGTTCCCATCAGGTTTT--AG
1 TTTTCAAATT-GGGAAAGTTCCCATCAAGTTTTAAAG
* * *
13369 CTTTTCAAATCGGGAAAGTTCCCACCAGGTTTT--AG
1 -TTTTCAAATTGGGAAAGTTCCCATCAAGTTTTAAAG
*
13404 TTTTCAAATTGGGAAAGTTCCCATCAAGTTTTTAAG
1 TTTTCAAATTGGGAAAGTTCCCATCAAGTTTTAAAG
**
13440 TTTTCAAATTGGGAAAGTTCCCATTTAGTTTTCAAAG
1 TTTTCAAATTGGGAAAGTTCCCATCAAGTTTT-AAAG
* *
13477 TTTTTAAATTGGGAAAGTTCCCATCAGGTTTT--AG
1 TTTTCAAATTGGGAAAGTTCCCATCAAGTTTTAAAG
*
13511 TTTTCAATTTAGGGAAAGTTCCTGTCATTTTC-AGTTTT--AG
1 TTTTCAAATT-GGGAAAGTTCC---CA---TCAAGTTTTAAAG
*
13551 TTTTCAAAGTGGGAAAGTTCCCATCAA
1 TTTTCAAATTGGGAAAGTTCCCATCAA
13578 AAGAATTTTT
Statistics
Matches: 412, Mismatches: 40, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
33 2 0.00
34 40 0.10
35 44 0.11
36 55 0.13
37 102 0.25
38 13 0.03
39 138 0.33
40 16 0.04
41 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (36 bp):
TTTTCAAATTGGGAAAGTTCCCATCAAGTTTTAAAG
Found at i:13593 original size:107 final size:103
Alignment explanation
Indices: 13370--13594 Score: 240
Period size: 107 Copynumber: 2.1 Consensus size: 103
13360 AGGTTTTAGC
*
13370 TTTTCAAATCGGGAAAGTTCCCACCAGGTTTTAGTTTTCAAATTGGGAAAGTTCCCATCAAGTTT
1 TTTTCAAATTGGGAAAGTTCCCACCAGGTTTTAGTTTTCAAATTGGGAAAGTTCCCATCAAGTTT
* *
13435 TTAAGTTTTCAAATTGGGAAAGTTCCCATTTAGTTTTCAAAGT
66 TTAAGTTTTCAAAGTGGGAAAGTTCCCATTCA----T-AAAGT
* * ** **
13478 TTTT-AAATTGGGAAAGTTCCCATCAGGTTTTAGTTTTCAATTTAGGGAAAGTTCCTGTCATTTT
1 TTTTCAAATTGGGAAAGTTCCCACCAGGTTTTAGTTTTCAAATT-GGGAAAGTTCCCATCAAGTT
*
13542 CAGTTTTAGTTTTCAAAGTGGGAAAGTTCCCA-TCA-AAAGAAT
65 ---TTTAAGTTTTCAAAGTGGGAAAGTTCCCATTCATAAAG--T
13584 TTTTCAAATTG
1 TTTTCAAATTG
13595 AGTCGTTTTA
Statistics
Matches: 100, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
104 4 0.04
106 5 0.05
107 42 0.42
108 20 0.20
110 2 0.02
111 27 0.27
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (103 bp):
TTTTCAAATTGGGAAAGTTCCCACCAGGTTTTAGTTTTCAAATTGGGAAAGTTCCCATCAAGTTT
TTAAGTTTTCAAAGTGGGAAAGTTCCCATTCATAAAGT
Found at i:14441 original size:21 final size:21
Alignment explanation
Indices: 14407--14456 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
14397 GCACCCAACA
* **
14407 CCGTGCCAAGACCGGTTAAGC
1 CCGTGCCAACACCGGCCAAGC
* *
14428 CCGTGCCACCACCGGCCATGC
1 CCGTGCCAACACCGGCCAAGC
14449 CCGTGCCA
1 CCGTGCCA
14457 TCATTATTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.44, G:0.26, T:0.12
Consensus pattern (21 bp):
CCGTGCCAACACCGGCCAAGC
Found at i:14724 original size:50 final size:50
Alignment explanation
Indices: 14668--15274 Score: 468
Period size: 50 Copynumber: 12.1 Consensus size: 50
14658 TAAATTTGTG
* * *
14668 ATAAAAAT-AAAGTC-TTAAAGTAAAAGATTGAACTTTTAATTAATTTATAA
1 ATAAAAATGAAA-TCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTAT-A
* ** * * **
14718 ATAAAAATGAAATCTTTGATCTAAAAGATGGAATTTTTGATTGATTTACG
1 ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTATA
* * * *
14768 ATAAAAATGAAATC-GTTAGGCTAAAAGA-TGAAATTTTTGATTGATTTAAA
1 ATAAAAATGAAATCTTTTAAG-TAAAAGATTG-AATTTTTGATTAATTTATA
* *
14818 ATAAAAATGAAATC-TTTAAGCTAAAAGA-TGAAATTTTTGATTGATTTATG
1 ATAAAAATGAAATCTTTTAAG-TAAAAGATTG-AATTTTTGATTAATTTATA
* *
14868 ATAAAAATGAAATC-TTTAAGCTAAAAGA-TGCAATTTTTGATTGATTTATG
1 ATAAAAATGAAATCTTTTAAG-TAAAAGATTG-AATTTTTGATTAATTTATA
* * * * * * * **
14918 ATAAAAATGAAATCTTTGAACTAAATGATGGAACTCTTGATTGATTTGCA
1 ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTATA
* * * ** * * *
14968 ATAAAAATGAAATCTTTGAACTAAATGAGGGAACTTTTAATTAATTTGTAA
1 ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTAT-A
* * ** * * *
15019 ATAATAATGAGATCTTTGGACTAAAAGATTGAATTTTTAATTAATTTGTAA
1 ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTAT-A
* *
15070 ATAAAAATGAAATC-TTTAAGCTAAAAGA-TGAAATTTTTGATTAATTTGTG
1 ATAAAAATGAAATCTTTTAAG-TAAAAGATTG-AATTTTTGATTAATTTATA
* * * *
15120 ATAAAGATGAAATC-TTTAAGCTAAAA-AATGAAATCTTTGATTAATTTATG
1 ATAAAAATGAAATCTTTTAAG-TAAAAGATTG-AATTTTTGATTAATTTATA
* * * * * *
15170 ATAAAAATGAAATCTTTAAAGTAAAAGGTTGAACTTTTGACTAATTTGTG
1 ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTATA
* * *
15220 ATGAAAATGAAAT-ATTTAAGTAAAAGATTGAACTTTTGATTAATTTGA-A
1 ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTT-ATA
15269 ATAAAA
1 ATAAAA
15275 GTATGGTTCT
Statistics
Matches: 476, Mismatches: 68, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
49 38 0.08
50 316 0.66
51 122 0.26
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (50 bp):
ATAAAAATGAAATCTTTTAAGTAAAAGATTGAATTTTTGATTAATTTATA
Found at i:14757 original size:21 final size:20
Alignment explanation
Indices: 14719--14758 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14709 AATTTATAAA
14719 TAAAAATGAAATCTTTGATC
1 TAAAAATGAAATCTTTGATC
* *
14739 TAAAAGATGGAATTTTTGAT
1 TAAAA-ATGAAATCTTTGAT
14759 TGATTTACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TAAAAATGAAATCTTTGATC
Found at i:14823 original size:100 final size:100
Alignment explanation
Indices: 14667--15265 Score: 559
Period size: 100 Copynumber: 6.0 Consensus size: 100
14657 CTAAATTTGT
* * *
14667 GATAAAAAT-AAAGTCTTAAAG-TAAAAGATTG-AACTTTTAATTAATTTATAAATAAAAATGAA
1 GATAAAAATGAAA-TCTTTAAGCTAAAAGA-TGAAATTTTTGATTAATTTA-AAATAAAAATGAA
*
14729 ATCTTTGATCTAAAAGATGGAATTTTTGATTGATTTAC
63 ATCTTTGAGCTAAAAGATGGAATTTTTGATTGATTTAC
* * *
14767 GATAAAAATGAAATCGTTAGGCTAAAAGATGAAATTTTTGATTGATTTAAAATAAAAATGAAATC
1 GATAAAAATGAAATCTTTAAGCTAAAAGATGAAATTTTTGATTAATTTAAAATAAAAATGAAATC
* * *
14832 TTTAAGCTAAAAGATGAAATTTTTGATTGATTTAT
66 TTTGAGCTAAAAGATGGAATTTTTGATTGATTTAC
* * **
14867 GATAAAAATGAAATCTTTAAGCTAAAAGATGCAATTTTTGATTGATTTATGATAAAAATGAAATC
1 GATAAAAATGAAATCTTTAAGCTAAAAGATGAAATTTTTGATTAATTTAAAATAAAAATGAAATC
* * * * *
14932 TTTGAACTAAATGATGGAACTCTTGATTGATTTGC
66 TTTGAGCTAAAAGATGGAATTTTTGATTGATTTAC
* * * * * * * * *
14967 AATAAAAATGAAATCTTTGAA-CTAAATGAGGGAACTTTTAATTAATTTGTAAATAATAATGAGA
1 GATAAAAATGAAATCTTT-AAGCTAAAAGATGAAATTTTTGATTAATTT-AAAATAAAAATGAAA
* * *
15031 TCTTTG-GACTAAAAGATTGAATTTTTAATTAATTTGTA-
64 TCTTTGAG-CTAAAAGATGGAATTTTTGATTGA-TT-TAC
* *** *
15069 AATAAAAATGAAATCTTTAAGCTAAAAGATGAAATTTTTGATTAATTTGTGATAAAGATGAAATC
1 GATAAAAATGAAATCTTTAAGCTAAAAGATGAAATTTTTGATTAATTTAAAATAAAAATGAAATC
* * * * * *
15134 TTTAAGCTAAAAAATGAAATCTTTGATTAATTTAT
66 TTTGAGCTAAAAGATGGAATTTTTGATTGATTTAC
* * * *** *
15169 GATAAAAATGAAATCTTTAAAG-TAAAAGGTTG-AACTTTTGACTAATTTGTGATGAAAATGAAA
1 GATAAAAATGAAATCTTT-AAGCTAAAA-GATGAAATTTTTGATTAATTTAAAATAAAAATGAAA
* * * * *
15232 TATTTAAG-TAAAAGATTGAACTTTTGATTAATTT
64 TCTTTGAGCTAAAAGATGGAATTTTTGATTGATTT
15266 GAAATAAAAG
Statistics
Matches: 414, Mismatches: 72, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
99 23 0.06
100 246 0.59
101 101 0.24
102 43 0.10
103 1 0.00
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (100 bp):
GATAAAAATGAAATCTTTAAGCTAAAAGATGAAATTTTTGATTAATTTAAAATAAAAATGAAATC
TTTGAGCTAAAAGATGGAATTTTTGATTGATTTAC
Found at i:15109 original size:252 final size:251
Alignment explanation
Indices: 14660--15274 Score: 742
Period size: 252 Copynumber: 2.5 Consensus size: 251
14650 AAATGACCTA
* * * * * * **
14660 AATTTGTGATAAAAAT-AAAGTC-TTAAAGTAAAAGATTGAACTTTTAATTAATTTATAAATAAA
1 AATTTATGATAAAAATGAAA-TCTTTAAACTAAAAGATGGAACTCTTGACTAATTT-GCAATAAA
* * * *
14723 AATGAAATCTTTGATCTAAAAGATGGAATTTTTGATTGA-TT-TACGATAAAAATGAAATCGTTA
64 AATGAAATCTTTGAACTAAAAGATGGAACTTTTGATTAATTTGTA-AATAAAAATGAAATCGTTA
* *
14786 GGCTAAAAGATGAAATTTTTGATTGATTTAAAATAAAAATGAAATCTTTAAGCTAAAAGATGAAA
128 GGCTAAAAGATGAAATTTTTAATTAATTTAAAATAAAAATGAAATCTTTAAGCTAAAAGATGAAA
* * * *
14851 TTTTTGATTGATTTATGATAAAAATGAAATCTTTAAGCTAAAAGATGCAATTTTTGATT
193 TTTTTGATTAATTTATGATAAAAATGAAATCTTTAAGCTAAAAAATGAAATCTTTGATT
* * * * *
14910 GATTTATGATAAAAATGAAATCTTTGAACTAAATGATGGAACTCTTGATTGATTTGCAATAAAAA
1 AATTTATGATAAAAATGAAATCTTTAAACTAAAAGATGGAACTCTTGACTAATTTGCAATAAAAA
* * * * * *
14975 TGAAATCTTTGAACTAAATGAGGGAACTTTTAATTAATTTGTAAATAATAATGAGATC-TTTGGA
66 TGAAATCTTTGAACTAAAAGATGGAACTTTTGATTAATTTGTAAATAAAAATGAAATCGTTAGG-
*
15039 CTAAAAGATTG-AATTTTTAATTAATTTGTAAATAAAAATGAAATCTTTAAGCTAAAAGATGAAA
130 CTAAAAGA-TGAAATTTTTAATTAATTT-AAAATAAAAATGAAATCTTTAAGCTAAAAGATGAAA
* *
15103 TTTTTGATTAATTTGTGATAAAGATGAAATCTTTAAGCTAAAAAATGAAATCTTTGATT
193 TTTTTGATTAATTTATGATAAAAATGAAATCTTTAAGCTAAAAAATGAAATCTTTGATT
* * * * ** *
15162 AATTTATGATAAAAATGAAATCTTTAAAGTAAAAGGTTGAACTTTTGACTAATTTGTGATGAAAA
1 AATTTATGATAAAAATGAAATCTTTAAACTAAAAGATGGAACTCTTGACTAATTTGCAATAAAAA
* * *
15227 TGAAATATTT-AAGTAAAAGATTGAACTTTTGATTAATTTG-AAATAAAA
66 TGAAATCTTTGAACTAAAAGATGGAACTTTTGATTAATTTGTAAATAAAA
15275 GTATGGTTCT
Statistics
Matches: 309, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
250 66 0.21
251 89 0.29
252 154 0.50
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (251 bp):
AATTTATGATAAAAATGAAATCTTTAAACTAAAAGATGGAACTCTTGACTAATTTGCAATAAAAA
TGAAATCTTTGAACTAAAAGATGGAACTTTTGATTAATTTGTAAATAAAAATGAAATCGTTAGGC
TAAAAGATGAAATTTTTAATTAATTTAAAATAAAAATGAAATCTTTAAGCTAAAAGATGAAATTT
TTGATTAATTTATGATAAAAATGAAATCTTTAAGCTAAAAAATGAAATCTTTGATT
Found at i:15803 original size:48 final size:48
Alignment explanation
Indices: 15750--16063 Score: 465
Period size: 48 Copynumber: 6.6 Consensus size: 48
15740 TATTCCCAAA
*
15750 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTATT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
* * * *
15798 TTGCCCTTCTCGGTTGGAAGGTATTGTTTTCAATGTCTCTTTTACTGTT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTC-TTTCCTGTT
*
15847 TTGCCCTTCCCGGTCGAAAGGTGTTG-TTTCAATGTCTCTTTCCTGTT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
* *
15894 TTGCCCTTCCCGGTCGGAAGATGTTGTTTTCAATGTCTCTTTGCTGTT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
* **
15942 TTGCCCTTCCCGGTTGGAAGGTGTTGTTTTCAATGTCTCTTTGTTGTT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
**
15990 TTGCCCTTTTCGGTCGGAA-G-G-TGTTTTCAATGTCTCTTTCCTGTT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
*
16035 TTGCCATTCCCGGTCGGAAGGTGTTGTTT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTT
16064 CCTTCCAATT
Statistics
Matches: 237, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
45 38 0.16
46 2 0.01
47 34 0.14
48 134 0.57
49 29 0.12
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.45
Consensus pattern (48 bp):
TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
Found at i:15921 original size:96 final size:96
Alignment explanation
Indices: 15750--16259 Score: 690
Period size: 96 Copynumber: 5.5 Consensus size: 96
15740 TATTCCCAAA
* *
15750 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTATTTTGCCCTTCTCGGTTGG
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGG
* *
15815 AAGGTATTGTTTTCAATGTCTCTTTTACTGTT
66 AAGGTGTTGTTTTCAATGTCTC-TTTCCTGTT
* *
15847 TTGCCCTTCCCGGTCGAAAGGTGTTG-TTTCAATGTCTCTTTCCTGTTTTGCCCTTCCCGGTCGG
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGG
* *
15911 AAGATGTTGTTTTCAATGTCTCTTTGCTGTT
66 AAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
* ** *
15942 TTGCCCTTCCCGGTTGGAAGGTGTTGTTTTCAATGTCTCTTTGTTGTTTTGCCCTTTTCGGTCGG
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGG
16007 AA-G-G-TGTTTTCAATGTCTCTTTCCTGTT
66 AAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
* ** *
16035 TTGCCATTCCCGGTCGGAAGGTGTTG---T---T-TC-C-TTCCAATTTTGCCCTTCCCGGTCGG
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGG
* *
16091 AAGGTGTTGTTTTCAATGTTTCTTTCCTATT
66 AAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
* * *
16122 TTGCCCTTCCCGATCGGAAGGTGTGGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGT
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGG
*
16187 AAGGTGTTGTTTTCAATGTCTCTTTTCTGTT
66 AAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
**
16218 TTG-CCTTCCCGGTCGGAAGGTGTTGTTCCCAATGTCT-TTTCC
1 TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCC
16260 CAGCTTGCCC
Statistics
Matches: 361, Mismatches: 39, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
84 21 0.06
85 2 0.01
86 3 0.01
87 46 0.13
90 2 0.01
93 48 0.13
94 8 0.02
95 63 0.17
96 143 0.40
97 25 0.07
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (96 bp):
TTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCGG
AAGGTGTTGTTTTCAATGTCTCTTTCCTGTT
Found at i:16130 original size:48 final size:48
Alignment explanation
Indices: 16066--16292 Score: 287
Period size: 48 Copynumber: 4.8 Consensus size: 48
16056 TGTTGTTTCC
* *
16066 TTCCAATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTCT
1 TTCCTATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCT
* *
16114 TTCCTATTTTGCCCTTCCCGATCGGAAGGTGTGGTTTTCAATGTCTCT
1 TTCCTATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCT
* * *
16162 TTCCTGTTTTGCCCTTCTCGGTCGTAAGGTGTTGTTTTCAATGTCTCT
1 TTCCTATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCT
* * **
16210 TTTCTGTTTTG-CCTTCCCGGTCGGAAGGTGTTGTTCCCAATGTCT-T
1 TTCCTATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCT
* ** ***
16256 TTCCCAGCTTGCCCTTCCCCACCGGAAGGTGTTGTTT
1 TTCCTATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTT
16293 ACTTTTCCCA
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
46 7 0.05
47 51 0.33
48 97 0.63
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.42
Consensus pattern (48 bp):
TTCCTATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCT
Found at i:16193 original size:228 final size:227
Alignment explanation
Indices: 15754--16259 Score: 658
Period size: 228 Copynumber: 2.2 Consensus size: 227
15744 CCCAAATTGC
* * * * *
15754 CCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTTCCTATTTTGCCCTTCTCGGTTGGAAGG
1 CCTTCCCGGTCGGAAGGTGTTG-TTCCAATGTCT-TTTCCTGTTTTGCCATTCCCGGTCGGAAGG
* * *
15819 TATTGTTTTCAATGTCTCTTTTACTGTTTTGCCCTTCCCGGTCGAAAGGTGTTGTTTCAATGTCT
64 TGTTG-TTTC-CT-TC-C----A--ATTTTGCCCTTCCCGGTCGAAAGGTGTTGTTTCAATGTCT
* * * *
15884 CTTTCCTGTTTTGCCCTTCCCGGTCGGAAGATGTTGTTTTCAATGTCTCTTTGCTGTTTTGCCCT
119 CTTTCCTATTTTGCCCTTCCCGATCGGAAGATGTGGTTTTCAATGTCTCTTTCCTGTTTTGCCCT
*
15949 TCCCGGTTGGAAGGTGTTGTTTTCAATGTCTCTTTGT-TGTTTTG
184 TCCCGGTCGGAAGGTGTTGTTTTCAATGTCTCTTT-TCTGTTTTG
**
15993 CCCTTTTCGGTCGGAAGGTGTT-TT-CAATGTCTCTTTCCTGTTTTGCCATTCCCGGTCGGAAGG
1 -CCTTCCCGGTCGGAAGGTGTTGTTCCAATGTCT-TTTCCTGTTTTGCCATTCCCGGTCGGAAGG
* *
16056 TGTTGTTTCCTTCCAATTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTCTTTCCTAT
64 TGTTGTTTCCTTCCAATTTTGCCCTTCCCGGTCGAAAGGTGTTG-TTTCAATGTCTCTTTCCTAT
* *
16121 TTTGCCCTTCCCGATCGGAAGGTGTGGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCTCGGTCG
128 TTTGCCCTTCCCGATCGGAAGATGTGGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCCCGGTCG
*
16186 TAAGGTGTTGTTTTCAATGTCTCTTTTCTGTTTTG
193 GAAGGTGTTGTTTTCAATGTCTCTTTTCTGTTTTG
16221 CCTTCCCGGTCGGAAGGTGTTGTTCCCAATGTCTTTTCC
1 CCTTCCCGGTCGGAAGGTGTTGTT-CCAATGTCTTTTCC
16260 CAGCTTGCCC
Statistics
Matches: 240, Mismatches: 21, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
227 47 0.20
228 111 0.46
229 6 0.03
230 8 0.03
233 1 0.00
234 2 0.01
235 1 0.00
236 4 0.02
237 39 0.16
238 2 0.01
240 19 0.08
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (227 bp):
CCTTCCCGGTCGGAAGGTGTTGTTCCAATGTCTTTTCCTGTTTTGCCATTCCCGGTCGGAAGGTG
TTGTTTCCTTCCAATTTTGCCCTTCCCGGTCGAAAGGTGTTGTTTCAATGTCTCTTTCCTATTTT
GCCCTTCCCGATCGGAAGATGTGGTTTTCAATGTCTCTTTCCTGTTTTGCCCTTCCCGGTCGGAA
GGTGTTGTTTTCAATGTCTCTTTTCTGTTTTG
Found at i:16348 original size:42 final size:41
Alignment explanation
Indices: 16253--16436 Score: 185
Period size: 41 Copynumber: 4.5 Consensus size: 41
16243 TTCCCAATGT
* *
16253 CTTTTCCCAGCTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
1 CTTTTCCCAGTTTGCCCTTCCCCACCGGAAGGTATTGTTTA
*
16294 CTTTTCCCAGTTTGCCCTTCCCCATCGGAAAGGTATTGTTTA
1 CTTTTCCCAGTTTGCCCTTCCCCACCGG-AAGGTATTGTTTA
* * * * *
16336 CTATTCCTAGTTTGCCTTTCCTCACCAGAAGGTATTG--T-
1 CTTTTCCCAGTTTGCCCTTCCCCACCGGAAGGTATTGTTTA
**** * *
16374 CTTTTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTTTG
1 CTTTTCCCAGTTTGCCCTTCCCCACCGGAAGGTATTGTTTA
* * *
16415 GTTTTCCCAGTCTGCCTTTCCC
1 CTTTTCCCAGTTTGCCCTTCCC
16437 GGTCGGAAGG
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 27 0.23
39 1 0.01
40 1 0.01
41 54 0.46
42 34 0.29
ACGTcount: A:0.12, C:0.30, G:0.19, T:0.39
Consensus pattern (41 bp):
CTTTTCCCAGTTTGCCCTTCCCCACCGGAAGGTATTGTTTA
Found at i:16437 original size:41 final size:41
Alignment explanation
Indices: 16217--16589 Score: 166
Period size: 41 Copynumber: 8.9 Consensus size: 41
16207 TCTTTTCTGT
*
16217 TTTG-CCTTCCCGGTCGGAAGGTGTTGTTCCCAATGTCTTTTCCCAG
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTT--CAA----TTTTCCCAG
* **** * *
16263 CTTGCCCTTCCCCACCGGAAGGTGTTGTTTACTTTTCCCAG
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTTTCCCAG
** * * * * * *
16304 TTTGCCCTTCCCCATCGGAAAGGTATTGTTTACTATTCCTAG
1 TTTGCCCTTCCCGGTTGG-AAGGTGTTGTTCAATTTTCCCAG
* **** *
16346 TTTGCCTTTCCTC-ACCAGAAGGTATTG-TC--TTTTCCCAG
1 TTTGCCCTTCC-CGGTTGGAAGGTGTTGTTCAATTTTCCCAG
***
16384 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTTGGTTTTCCCAG
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTTTCCCAG
* * * ** * *
16425 TCTGCCTTTCCCGGTCGGAAGGTCCTG-TCAATATTCCGAG
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTTTCCCAG
** * *
16465 TTTGCCCTTCCCGGTTGGAAGGTGTTG-TCAATAGTCACAA
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTTTCCCAG
* ** *
16505 ATTGCCCTTCCCGGTCAGAAGGTGTTGTTTAATTTCGTCCTTTTTCCAG
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTT--T-C-----CCAG
* * *
16554 TTTGCCCTTCCCGATCGGAAGGTGTTGTTTAATTTT
1 TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTTT
16590 GTCTTGTTCC
Statistics
Matches: 257, Mismatches: 54, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
37 1 0.00
38 26 0.10
39 1 0.00
40 64 0.25
41 69 0.27
42 33 0.13
43 2 0.01
44 1 0.00
45 1 0.00
46 3 0.01
47 22 0.09
49 34 0.13
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (41 bp):
TTTGCCCTTCCCGGTTGGAAGGTGTTGTTCAATTTTCCCAG
Found at i:16446 original size:79 final size:79
Alignment explanation
Indices: 16294--16492 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 79
16284 GTGTTGTTTA
** * * * *
16294 CTTTTCCCAGTTTGCCCTTCCCCATCGGAAAGGTATTGTTTACTATTCCTAGTTTGCCTTTCCTC
1 CTTTTCCCAGTTTGCCCTTCCCGGTTGG-AAGGTGTTGTTTACTATTCCCAGTCTGCCTTTCCTC
*
16359 ACCAGAAGGTATTGT
65 ACCAGAAGGTACTGT
** *
16374 CTTTTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTTTGGTTTTCCCAGTCTGCCTTTCC-CG
1 CTTTTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTTTACTATTCCCAGTCTGCCTTTCCTC-
** * *
16438 GTCGGAAGGTCCTGT
65 ACCAGAAGGTACTGT
* *
16453 CAATATTCCGAGTTTGCCCTTCCCGGTTGGAAGGTGTTGT
1 C--TTTTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGT
16493 CAATAGTCAC
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.01
79 39 0.39
80 25 0.25
81 35 0.35
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.38
Consensus pattern (79 bp):
CTTTTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTTTACTATTCCCAGTCTGCCTTTCCTCA
CCAGAAGGTACTGT
Found at i:16485 original size:40 final size:40
Alignment explanation
Indices: 16377--16532 Score: 159
Period size: 40 Copynumber: 3.9 Consensus size: 40
16367 GTATTGTCTT
*** *
16377 TTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTTTGGTT
1 TTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTG-TCAATA
* * * **
16418 TTCCCAGTCTGCCTTTCCCGGTCGGAAGGTCCTGTCAATA
1 TTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTCAATA
*
16458 TTCCGAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTCAATA
1 TTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTCAATA
* * ** **
16498 GTCACAAATTGCCCTTCCCGGTCAGAAGGTGTTGT
1 TTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGT
16533 TTAATTTCGT
Statistics
Matches: 93, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 64 0.69
41 29 0.31
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (40 bp):
TTCCCAGTTTGCCCTTCCCGGTTGGAAGGTGTTGTCAATA
Found at i:16578 original size:49 final size:49
Alignment explanation
Indices: 16506--16675 Score: 189
Period size: 50 Copynumber: 3.4 Consensus size: 49
16496 TAGTCACAAA
* * *
16506 TTGCCCTTCCCGGTCAGAAGGTGTTGTTTAATTTCGTCCTTTTTCCAGT
1 TTGCCCTTCCCGATCGGAAGGTGTTGTTTAATTTCGTCCTTTTCCCAGT
* **
16555 TTGCCCTTCCCGATCGGAAGGTGTTGTTTAATTTTGT-CTTGTTCCCAAAA
1 TTGCCCTTCCCGATCGGAAGGTGTTGTTTAATTTCGTCCTT-TTCCC-AGT
* * * *
16605 TTGCCCTTCCCGATCGAAAAGTGTTGGTCAATTTCGTCCTTTATCCCAGT
1 TTGCCCTTCCCGATCGGAAGGTGTTGTTTAATTTCGTCCTTT-TCCCAGT
* * *
16655 TTGCCTTTCCCGGTTGGAAGG
1 TTGCCCTTCCCGATCGGAAGG
16676 GGCTGTCAAT
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
48 3 0.03
49 38 0.38
50 51 0.52
51 7 0.07
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (49 bp):
TTGCCCTTCCCGATCGGAAGGTGTTGTTTAATTTCGTCCTTTTCCCAGT
Found at i:22885 original size:27 final size:27
Alignment explanation
Indices: 22855--22916 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
22845 TAGGGTCATC
*
22855 CAGGGGCATTTTAGTCATTTGCATGTT
1 CAGGGGCATTTTAGTCATTTGCATATT
*
22882 CAGGGGCATTTTGGTCATTTGCATATT
1 CAGGGGCATTTTAGTCATTTGCATATT
22909 CAGGGGCA
1 CAGGGGCA
22917 CGTTGGTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.35
Consensus pattern (27 bp):
CAGGGGCATTTTAGTCATTTGCATATT
Found at i:22922 original size:27 final size:27
Alignment explanation
Indices: 22868--22927 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
22858 GGGCATTTTA
* **
22868 GTCATTTGCATGTTCAGGGGCATTTTG
1 GTCATTTGCATATTCAGGGGCACGTTG
22895 GTCATTTGCATATTCAGGGGCACGTTG
1 GTCATTTGCATATTCAGGGGCACGTTG
22922 GTCATT
1 GTCATT
22928 CTAATTCCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (27 bp):
GTCATTTGCATATTCAGGGGCACGTTG
Found at i:30428 original size:15 final size:16
Alignment explanation
Indices: 30404--30443 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
30394 AGAGGTTGAA
*
30404 AGAAATCAATTAAAC-
1 AGAAAACAATTAAACT
*
30419 AGAAAACAATTATACT
1 AGAAAACAATTAAACT
30435 AGAAAACAA
1 AGAAAACAA
30444 AGCAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.17
Consensus pattern (16 bp):
AGAAAACAATTAAACT
Found at i:36751 original size:16 final size:17
Alignment explanation
Indices: 36732--36770 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
36722 AGGTTGAAAG
36732 AAACAAATTAAAC-AGA
1 AAACAAATTAAACTAGA
*
36748 AAAC-AATTATACTAGA
1 AAACAAATTAAACTAGA
36764 AAACAAA
1 AAACAAA
36771 GCAAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.67, C:0.13, G:0.05, T:0.15
Consensus pattern (17 bp):
AAACAAATTAAACTAGA
Done.