Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003242.1 Hibiscus syriacus cultivar Beakdansim tig00006819_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135796
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6650 original size:176 final size:172
Alignment explanation
Indices: 6355--6707 Score: 537
Period size: 176 Copynumber: 2.0 Consensus size: 172
6345 ATATCTATTA
*
6355 ATTTTTATATTTAGTCTCTCCAATTTTCTCTAATCTTTTATTTTGATAAATATGTGGTGAATATA
1 ATTTTTATATTTAATCTCTCCAATTTTCTCTAATCTTTTATTTTGATAAATATGTGGTGAATATA
* * * * *
6420 AGATATTATTTGTTCAAAGATTCTCAACTATTCAATAATAAACGTTCCTAGTCCTACATATGTGG
66 AGATATTATTTGTTCAAAGATTCTCAACCATTCAACAATAAACGTTCATAGTCCTACATATATGA
*
6485 TGCTTGAACTAGAGACATCAATAGATAACA-AAAATCTTTTAAC
131 TGCTCGAACTAGAGACATC-A-AGATAACAGAAAATCTTTTAAC
* * *
6528 CTTTTTATATTTAATCTCTCCAATTTTCTCTAATCTTTTTTTTTTTTGATAAATCTGTGGTGAAT
1 ATTTTTATATTTAATCTCTCCAATTTTCTCTAATC---TTTTATTTTGATAAATATGTGGTGAAT
**
6593 ATAAGATATTATTTGTTCAAAGATTCTCAACCATTCGGCAATAAACGTTCATAGTCCTACATATA
63 ATAAGATATTATTTGTTCAAAGATTCTCAACCATTCAACAATAAACGTTCATAGTCCTACATATA
*
6658 TGATGCTCGAACTAGTGACATCAAGATAACAGAAAATCTTTTAAC
128 TGATGCTCGAACTAGAGACATCAAGATAACAGAAAATCTTTTAAC
6703 ATTTT
1 ATTTT
6708 AATCGCTTCA
Statistics
Matches: 162, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
173 33 0.20
174 8 0.05
175 18 0.11
176 103 0.64
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (172 bp):
ATTTTTATATTTAATCTCTCCAATTTTCTCTAATCTTTTATTTTGATAAATATGTGGTGAATATA
AGATATTATTTGTTCAAAGATTCTCAACCATTCAACAATAAACGTTCATAGTCCTACATATATGA
TGCTCGAACTAGAGACATCAAGATAACAGAAAATCTTTTAAC
Found at i:8874 original size:15 final size:14
Alignment explanation
Indices: 8856--8894 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
8846 TTAATTTAAT
8856 TTTTATTTTTAAGCA
1 TTTTATTTTTAA-CA
8871 TTTTATTTATTAACA
1 TTTTATTT-TTAACA
*
8886 TTTAATTTT
1 TTTTATTTT
8895 AAGATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.77
16 4 0.18
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (14 bp):
TTTTATTTTTAACA
Found at i:15053 original size:15 final size:14
Alignment explanation
Indices: 15033--15085 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
15023 AAAAATAAAA
15033 AAAATATTAATAAT
1 AAAATATTAATAAT
*
15047 AATAATAATAAATAAAT
1 AA-AAT-ATTAAT-AAT
15064 AAATATATT-ATAAT
1 AAA-ATATTAATAAT
15078 AAAATATT
1 AAAATATT
15086 TTTATAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.15
14 8 0.24
15 5 0.15
16 8 0.24
17 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATATTAATAAT
Found at i:15061 original size:31 final size:30
Alignment explanation
Indices: 15025--15083 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
15015 GGGCTTGCAA
15025 AAATAAA-AAAAATATTAATAATAATAATAAT
1 AAATAAATAAAAATATT-ATAATAA-AATAAT
*
15056 AAATAAATAAATATATTATAATAAAATA
1 AAATAAATAAAAATATTATAATAAAATA
15084 TTTTTATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 14 0.54
32 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (30 bp):
AAATAAATAAAAATATTATAATAAAATAAT
Found at i:24903 original size:17 final size:18
Alignment explanation
Indices: 24880--24923 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
24870 TATGATATTA
24880 AAAATAATATTTATGAAT
1 AAAATAATATTTATGAAT
* *
24898 -AAATAA-ATTTGTGATT
1 AAAATAATATTTATGAAT
24914 AAAATAATAT
1 AAAATAATAT
24924 AATTTGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.36
17 12 0.55
18 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
AAAATAATATTTATGAAT
Found at i:25879 original size:16 final size:16
Alignment explanation
Indices: 25796--25887 Score: 53
Period size: 16 Copynumber: 5.8 Consensus size: 16
25786 AAGCATGAGT
*
25796 CATAACATGTATTGAA
1 CATAACAAGTATTGAA
** * *
25812 CGCAACAAGCA-TGAGT
1 CATAACAAGTATTGA-A
*
25828 CATAACATGTATTGAA
1 CATAACAAGTATTGAA
** * *
25844 CGCAACAAGCA-TGAGT
1 CATAACAAGTATTGA-A
*
25860 CATAACATGTATTGAA
1 CATAACAAGTATTGAA
25876 CATAACAAGTAT
1 CATAACAAGTAT
25888 AAGTATGCCA
Statistics
Matches: 51, Mismatches: 21, Indels: 8
0.64 0.26 0.10
Matches are distributed among these distances:
15 6 0.12
16 39 0.76
17 6 0.12
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.24
Consensus pattern (16 bp):
CATAACAAGTATTGAA
Found at i:25884 original size:32 final size:32
Alignment explanation
Indices: 25781--25876 Score: 192
Period size: 32 Copynumber: 3.0 Consensus size: 32
25771 ACAATGTACT
25781 GCAACAAGCATGAGTCATAACATGTATTGAAC
1 GCAACAAGCATGAGTCATAACATGTATTGAAC
25813 GCAACAAGCATGAGTCATAACATGTATTGAAC
1 GCAACAAGCATGAGTCATAACATGTATTGAAC
25845 GCAACAAGCATGAGTCATAACATGTATTGAAC
1 GCAACAAGCATGAGTCATAACATGTATTGAAC
25877 ATAACAAGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (32 bp):
GCAACAAGCATGAGTCATAACATGTATTGAAC
Found at i:26019 original size:22 final size:22
Alignment explanation
Indices: 25940--26020 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 22
25930 TGAATAACGG
* *
25940 AAGTGCCATAGCATTGTTATTA
1 AAGTGCCATAGCACTGCTATTA
* * * * **
25962 AAGGGCCTTAGCACAGGTACGA
1 AAGTGCCATAGCACTGCTATTA
*
25984 AAGTG-CAAATGCACTGCTATTA
1 AAGTGCCATA-GCACTGCTATTA
*
26006 AAGTGCCTTAGCACT
1 AAGTGCCATAGCACT
26021 ACAAGAGAGA
Statistics
Matches: 41, Mismatches: 16, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
21 2 0.05
22 37 0.90
23 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (22 bp):
AAGTGCCATAGCACTGCTATTA
Found at i:28525 original size:29 final size:29
Alignment explanation
Indices: 28443--28651 Score: 117
Period size: 29 Copynumber: 7.1 Consensus size: 29
28433 TTATTAAATA
*
28443 TATTTTATTTTAA-TTTAAAAATTATATTA
1 TATTTTATTTTAATTTTAAAAA-TATATTT
*
28472 TATTTTAATTTTGATTTTAAAAATATATTT
1 TATTTT-ATTTTAATTTTAAAAATATATTT
28502 TATTTT-TTATTAATTTTAAAAATATA-TT
1 TATTTTATT-TTAATTTTAAAAATATATTT
* * * * * *
28530 TGTTATATCTTAACTTCAAATATATATGTTT
1 TATTTTATTTTAATTTTAAA-A-ATATATTT
* *
28561 TATTCTATTATTAA-CTTAAAAA-ATATTT
1 TATTTTATT-TTAATTTTAAAAATATATTT
* * * * * * *
28589 TGTCATTATCTTAACTTCAAATATATATAT
1 TAT-TTTATTTTAATTTTAAAAATATATTT
* *
28619 TATTCTT-TTATTAA-CTTAAAAATGTATTT
1 TATT-TTATT-TTAATTTTAAAAATATATTT
28648 TATT
1 TATT
28652 ATTAACTTGG
Statistics
Matches: 136, Mismatches: 31, Indels: 26
0.70 0.16 0.13
Matches are distributed among these distances:
28 28 0.21
29 48 0.35
30 36 0.26
31 20 0.15
32 4 0.03
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
TATTTTATTTTAATTTTAAAAATATATTT
Found at i:28555 original size:28 final size:29
Alignment explanation
Indices: 28523--28616 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 29
28513 AATTTTAAAA
28523 ATATATTTGTTA-TATCTTAACTTCAAAT
1 ATATATTTGTTATTATCTTAACTTCAAAT
* * *
28551 ATATATGTT-TTATTCTATTATTAACTTAAAAA
1 ATATAT-TTGTTA-T-TA-TCTTAACTTCAAAT
*
28583 ATAT-TTTGTCATTATCTTAACTTCAAAT
1 ATATATTTGTTATTATCTTAACTTCAAAT
28611 ATATAT
1 ATATAT
28617 ATTATTCTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
28 24 0.46
29 5 0.10
30 3 0.06
31 5 0.10
32 15 0.29
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (29 bp):
ATATATTTGTTATTATCTTAACTTCAAAT
Found at i:28623 original size:58 final size:58
Alignment explanation
Indices: 28494--28640 Score: 208
Period size: 60 Copynumber: 2.5 Consensus size: 58
28484 GATTTTAAAA
* * *
28494 ATATATTTTATT-TTTTATTAATTTTAAAAATATATTTGTTATATCTTAACTTCAAAT
1 ATATATTTTATTCTTTTATTAACTTAAAAAATATATTTGTCATATCTTAACTTCAAAT
*
28551 ATATATGTTTTATTCTATTATTAACTTAAAAAATAT-TTTGTCATTATCTTAACTTCAAAT
1 ATATA--TTTTATTCTTTTATTAACTTAAAAAATATATTTGTCA-TATCTTAACTTCAAAT
*
28611 ATATATATTATTCTTTTATTAACTTAAAAA
1 ATATATTTTATTCTTTTATTAACTTAAAAA
28641 TGTATTTTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
57 5 0.06
58 23 0.29
59 13 0.16
60 39 0.49
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (58 bp):
ATATATTTTATTCTTTTATTAACTTAAAAAATATATTTGTCATATCTTAACTTCAAAT
Found at i:28740 original size:29 final size:29
Alignment explanation
Indices: 28663--28774 Score: 104
Period size: 29 Copynumber: 3.8 Consensus size: 29
28653 TTAACTTGGG
*
28663 TTAATAAAAGAATAAAATATATTGTTTGAAGA
1 TTAATAAAAGAATAAAATATA-TATTT-AA-A
* *
28695 -TAAGTTAAA-AACAAAATATATATTTAAA
1 TTAA-TAAAAGAATAAAATATATATTTAAA
* *
28723 TTAATAAAATAATAAAATATATTTTTAAA
1 TTAATAAAAGAATAAAATATATATTTAAA
28752 GTTAA-AATAAGAATAAAATATAT
1 -TTAATAA-AAGAATAAAATATAT
28775 TTAATAAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
28 5 0.07
29 24 0.35
30 22 0.32
31 13 0.19
32 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (29 bp):
TTAATAAAAGAATAAAATATATATTTAAA
Found at i:32096 original size:15 final size:16
Alignment explanation
Indices: 32076--32106 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32066 GATATATTCG
32076 AATATGAAT-TAAAAT
1 AATATGAATATAAAAT
32091 AATATGAATATAAAAT
1 AATATGAATATAAAAT
32107 CCACATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AATATGAATATAAAAT
Found at i:32354 original size:23 final size:23
Alignment explanation
Indices: 32312--32421 Score: 168
Period size: 23 Copynumber: 4.8 Consensus size: 23
32302 GCCATCCAAC
* * *
32312 CGAGGCCATCCGAGCAAGCTATG
1 CGAGGGCAGCCGAGCGAGCTATG
*
32335 CGATGGCAGCCGAGCGAGCTATG
1 CGAGGGCAGCCGAGCGAGCTATG
32358 CGAGGGCAGCCGAGCGAGCTATG
1 CGAGGGCAGCCGAGCGAGCTATG
32381 CGAGGGCAGCCGAGCGAGCTATG
1 CGAGGGCAGCCGAGCGAGCTATG
*
32404 CGAGGGCATCC-AGCGAGC
1 CGAGGGCAGCCGAGCGAGC
32422 GAGCAAGGGT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
22 7 0.09
23 74 0.91
ACGTcount: A:0.23, C:0.28, G:0.39, T:0.10
Consensus pattern (23 bp):
CGAGGGCAGCCGAGCGAGCTATG
Found at i:38375 original size:18 final size:20
Alignment explanation
Indices: 38352--38388 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
38342 CTCAATTTCG
38352 TAAA-TTTAAAATA-TATAT
1 TAAATTTTAAAATAGTATAT
38370 TAAATTTTAAAATAGTATA
1 TAAATTTTAAAATAGTATA
38389 AATACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (20 bp):
TAAATTTTAAAATAGTATAT
Found at i:41744 original size:24 final size:24
Alignment explanation
Indices: 41712--41761 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
41702 TGATTTAGTA
41712 ATCGTCATTGGTAAGTATTCATTT
1 ATCGTCATTGGTAAGTATTCATTT
41736 ATCGTCATTGGTAAGTATTCATTT
1 ATCGTCATTGGTAAGTATTCATTT
41760 AT
1 AT
41762 TTACTTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (24 bp):
ATCGTCATTGGTAAGTATTCATTT
Found at i:46134 original size:31 final size:28
Alignment explanation
Indices: 46055--46126 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
46045 TATTGACTGG
**
46055 AATGTAAATTTTGAAAGTTTGGGGACTAA
1 AATGTAAATTTT-AAAGTTTAAGGACTAA
* *
46084 AGTGTAAAGTTGTAAAAGTTTAAGGACTAGA
1 AATGTAAA-TT-TTAAAGTTTAAGGACTA-A
46115 AATGTAAATTTT
1 AATGTAAATTTT
46127 CAGAAGTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
29 8 0.24
30 17 0.50
31 9 0.26
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (28 bp):
AATGTAAATTTTAAAGTTTAAGGACTAA
Found at i:63337 original size:16 final size:16
Alignment explanation
Indices: 63318--63380 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
63308 AAAAAAGATG
63318 ATAAATTACTAATATA
1 ATAAATTACTAATATA
* * *
63334 ATAACTTTCTAATA-G
1 ATAAATTACTAATATA
63349 AT-AATTA--AATATA
1 ATAAATTACTAATATA
*
63362 TTAAATTACTAAT-TA
1 ATAAATTACTAATATA
63377 ATAA
1 ATAA
63381 TTATTATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
12 4 0.11
13 1 0.03
14 8 0.23
15 7 0.20
16 15 0.43
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (16 bp):
ATAAATTACTAATATA
Found at i:63373 original size:28 final size:28
Alignment explanation
Indices: 63328--63383 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
63318 ATAAATTACT
* *
63328 AATATAATAACTTTCTAA-TAGATAATTA
1 AATATAATAAATTACTAATTA-ATAATTA
*
63356 AATATATTAAATTACTAATTAATAATTA
1 AATATAATAAATTACTAATTAATAATTA
63384 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
AATATAATAAATTACTAATTAATAATTA
Found at i:63382 original size:14 final size:15
Alignment explanation
Indices: 63321--63383 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 15
63311 AAAGATGATA
63321 AATTACTAATATAAT
1 AATTACTAATATAAT
* *
63336 AACTTTCTAATA-GAT
1 AA-TTACTAATATAAT
*
63351 AATTA--AATATATT
1 AATTACTAATATAAT
63364 AAATTACTAAT-TAAT
1 -AATTACTAATATAAT
63379 AATTA
1 AATTA
63384 TTATTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
12 4 0.11
13 1 0.03
14 12 0.32
15 9 0.24
16 11 0.30
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (15 bp):
AATTACTAATATAAT
Found at i:70523 original size:15 final size:15
Alignment explanation
Indices: 70494--70537 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
70484 GTATACAAAA
70494 ATAT-TTTATTATATT
1 ATATATTTATT-TATT
70509 ATATATTTATTTATT
1 ATATATTTATTTATT
70524 AT-TA-TTA-TTATT
1 ATATATTTATTTATT
70536 AT
1 AT
70538 TTCATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 2 0.07
15 10 0.36
16 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATATTTATTTATT
Found at i:70546 original size:20 final size:21
Alignment explanation
Indices: 70498--70546 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
70488 ACAAAAATAT
70498 TTTATTA-TATTATATATTTA
1 TTTATTATTATTATATATTTA
70518 TTTATTATTATTAT-TA-TTA
1 TTTATTATTATTATATATTTA
70537 TTTCATTATT
1 TTT-ATTATT
70547 TTTTCAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.22
20 15 0.56
21 6 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTATTATTATATATTTA
Found at i:71240 original size:25 final size:23
Alignment explanation
Indices: 71212--71271 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
71202 ATTTTTAGCA
71212 TTTTTTATTATTATT-TATTTTAT
1 TTTTTTATTATTATTAT-TTTTAT
*
71235 GTTTTTTACTTCTTATTATTTTTAT
1 -TTTTTTA-TTATTATTATTTTTAT
*
71260 TTTATT-TTATTA
1 TTTTTTATTATTA
71272 CTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.16
24 12 0.39
25 13 0.42
26 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTATTATTATTATTTTTAT
Found at i:71241 original size:34 final size:30
Alignment explanation
Indices: 71216--71274 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71206 TTAGCATTTT
71216 TTATTATTATTTATTTTATGTTTTTTACTTC
1 TTATTATT-TTTATTTTATGTTTTTTACTTC
*
71247 TTATTATTTTTATTTTAT-TTTATTACTT
1 TTATTATTTTTATTTTATGTTTTTTACTT
71275 TTAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 10 0.37
31 8 0.30
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (30 bp):
TTATTATTTTTATTTTATGTTTTTTACTTC
Found at i:72778 original size:151 final size:151
Alignment explanation
Indices: 72504--73573 Score: 2090
Period size: 151 Copynumber: 7.1 Consensus size: 151
72494 AATTAATTCG
72504 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
*
72569 TGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
72634 CATCCTAAACTATTAAAAATA
131 CATCCTAAACTATTAAAAATA
72655 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
72720 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
72785 CATCCTAAACTATT-AAAATA
131 CATCCTAAACTATTAAAAATA
72805 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
*
72870 GGTTTCGGGTTTGAACATTGTCTTTAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
72935 CATCCTAAACTATTAAAAATA
131 CATCCTAAACTATTAAAAATA
72956 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
73021 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
73086 CATCCTAAACTATTAAAAATA
131 CATCCTAAACTATTAAAAATA
73107 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
73172 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
73237 CATCCTAAACTATTAAAAATA
131 CATCCTAAACTATTAAAAATA
73258 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
*
73323 GGTTTCGGGTTTGAACATTGTCTTTAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
73388 CATCCTAAACTATTAAAAATA
131 CATCCTAAACTATTAAAAATA
73409 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
1 ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
73474 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
66 GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
*
73539 CACCCTAAACTATTAAAAATA
131 CATCCTAAACTATTAAAAATA
73560 ACATTGTAA-GGCTA
1 ACATTGTAATGGCTA
73574 TAGTTTCTGG
Statistics
Matches: 912, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
150 154 0.17
151 758 0.83
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (151 bp):
ACATTGTAATGGCTACAACTCATTGAACGGCTTTAGGGGTGGAAGGGAGTGTTGTTTGTTTTAGA
GGTTTCGGGTTTGAACATTGTCTTCAGGGGTTAAGATAGATTTTGGATAGATACTATTTTGTAAT
CATCCTAAACTATTAAAAATA
Found at i:90107 original size:31 final size:31
Alignment explanation
Indices: 90072--90134 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
90062 CTCTCCGTCG
90072 TCTTCTCTTCTCCCTTCTAATCTCTCCACCA
1 TCTTCTCTTCTCCCTTCTAATCTCTCCACCA
* *
90103 TCTTCTCTTTTCCCTTCTAATCTCTTCACCA
1 TCTTCTCTTCTCCCTTCTAATCTCTCCACCA
90134 T
1 T
90135 TCGACGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.41, G:0.00, T:0.46
Consensus pattern (31 bp):
TCTTCTCTTCTCCCTTCTAATCTCTCCACCA
Found at i:90846 original size:20 final size:19
Alignment explanation
Indices: 90819--90866 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
90809 GGTTGGGGAT
90819 ATTAAAAAAAT-TATAAATA
1 ATTAAAAAAATAT-TAAATA
*
90838 ATATAAAAAAATATTAATTA
1 AT-TAAAAAAATATTAAATA
90858 ATTAAAAAA
1 ATTAAAAAA
90867 TTAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 16 0.62
21 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTAAAAAAATATTAAATA
Found at i:90847 original size:19 final size:18
Alignment explanation
Indices: 90823--90874 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
90813 GGGGATATTA
90823 AAAAAATTATAAATAATAT
1 AAAAAATTATAAATAAT-T
* *
90842 AAAAAAATATTAATTAATT
1 AAAAAATTA-TAAATAATT
90861 AAAAAATTAATAAA
1 AAAAAATT-ATAAA
90875 AAAAGTCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATTATAAATAATT
Found at i:91931 original size:20 final size:20
Alignment explanation
Indices: 91884--92335 Score: 419
Period size: 20 Copynumber: 22.2 Consensus size: 20
91874 AATGACCAAC
91884 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
* *
91903 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* * **
91923 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
*
91943 AAGATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
91963 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
91983 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
92005 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
92025 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
92045 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
92065 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
92085 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
92105 AGAATCGCAACGCGATCCAG
1 AAAATCGCAACGCGATTCAG
92125 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
92145 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
92167 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
92187 AAAATCGCAACGCGATCTTCTA-
1 AAAATCGCAACGCGA--TTC-AG
*
92209 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
92231 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
92251 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
92271 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
92291 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
92311 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
92331 AAAAT
1 AAAAT
92336 GAGTAAATTC
Statistics
Matches: 378, Mismatches: 32, Indels: 45
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.00
19 26 0.07
20 267 0.71
21 7 0.02
22 73 0.19
23 4 0.01
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:91990 original size:40 final size:40
Alignment explanation
Indices: 91884--92335 Score: 487
Period size: 40 Copynumber: 11.1 Consensus size: 40
91874 AATGACCAAC
* *
91884 AAAATCGCAACGCGATAT-CAA-AACCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTCAG
* * ****
91923 AAAAGCGCAACGTTGAAAAGAAG-ATCGCAACGCGATTCAG
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGATTCAG
*
91963 AAAATCGCAACGCGATT-CAGAAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TT-CAG
*
92005 AGAATCGCAACGCGATT--AAGAAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATTCCAAG--AATCGCAACGCGATT-CAG
*
92045 AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT-CAG
* *
92085 AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATCCAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
92125 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGA--TT-CAG
* *
92167 AGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATCTTCTA-
1 AAAATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TTC-AG
* *
92209 AGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCAG
*
92251 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
92291 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
92331 AAAAT
1 AAAAT
92336 GAGTAAATTC
Statistics
Matches: 367, Mismatches: 24, Indels: 43
0.85 0.06 0.10
Matches are distributed among these distances:
38 1 0.00
39 16 0.04
40 222 0.60
41 5 0.01
42 101 0.28
43 4 0.01
44 16 0.04
45 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
Found at i:92442 original size:6 final size:6
Alignment explanation
Indices: 92431--92584 Score: 273
Period size: 6 Copynumber: 26.5 Consensus size: 6
92421 GACACGTATT
92431 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
92479 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
92527 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
92572 ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACC
92585 CGAGACGAGA
Statistics
Matches: 148, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.17
6 123 0.83
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:93109 original size:6 final size:6
Alignment explanation
Indices: 93083--93142 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
93073 TCTCGTCTCG
93083 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
93128 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
93143 AATGGTAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.28
6 39 0.72
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:93148 original size:6 final size:6
Alignment explanation
Indices: 93139--93163 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93129 GTCGTGGTCG
93139 TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA T
93164 ACGTGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGTAA
Found at i:93293 original size:22 final size:21
Alignment explanation
Indices: 93264--93612 Score: 366
Period size: 20 Copynumber: 16.7 Consensus size: 21
93254 TCATTTTCTG
93264 AATCGCGTTGCGATTCTTGGA
1 AATCGCGTTGCGATTCTTGGA
*
93285 AGATCGCGTTGCGATT-TTCTG-
1 A-ATCGCGTTGCGATTCTT-GGA
***
93306 AATCGCGTTGCGATT-TTCTT
1 AATCGCGTTGCGATTCTTGGA
93326 AATCGCGTTGCGATTCTTGGA
1 AATCGCGTTGCGATTCTTGGA
93347 AGATCGCGTTGCGATTCTTGGA
1 A-ATCGCGTTGCGATTCTTGGA
93369 AGATCGCGTTGCGATTCTTGGA
1 A-ATCGCGTTGCGATTCTTGGA
93391 AGATCGCGTTGCGATTCTTGG-
1 A-ATCGCGTTGCGATTCTTGGA
***
93412 AATCGCGTTGCGATT-TTCTT
1 AATCGCGTTGCGATTCTTGGA
93432 AATCGCGTTGCGATTCTTGG-
1 AATCGCGTTGCGATTCTTGGA
*
93452 AATCGCGTTGCGATT-TTCTG-
1 AATCGCGTTGCGATTCTT-GGA
*
93472 AATCGCGTTGCAATTCTTGGA
1 AATCGCGTTGCGATTCTTGGA
*
93493 AGATCGCGTTGCGATT-TTCTG-
1 A-ATCGCGTTGCGATTCTT-GGA
*
93514 AATCGCGTTGCGATT-TTCTG-
1 AATCGCGTTGCGATTCTT-GGA
93534 AATCGCGTTGCGATTCTTGGA
1 AATCGCGTTGCGATTCTTGGA
*
93555 AGATCGCGTTGCGATT-TTATG-
1 A-ATCGCGTTGCGATTCTT-GGA
* *
93576 AATCGCATTGCGATTCTTGTA
1 AATCGCGTTGCGATTCTTGGA
93597 AGATCGCGTTGCGATT
1 A-ATCGCGTTGCGATT
93613 TTCTTTTCAA
Statistics
Matches: 288, Mismatches: 21, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.01
20 139 0.48
21 25 0.09
22 120 0.42
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.36
Consensus pattern (21 bp):
AATCGCGTTGCGATTCTTGGA
Found at i:93312 original size:20 final size:19
Alignment explanation
Indices: 93256--93673 Score: 336
Period size: 20 Copynumber: 20.3 Consensus size: 19
93246 GAATTTACTC
93256 ATTTTCTGAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93276 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
93298 ATTTTCTGAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93318 ATTTTCTTAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93338 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
*
93360 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
*
93382 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
*
93404 ATTCTTGGAATCGCGTTGCG
1 ATT-TTTGAATCGCGTTGCG
*
93424 ATTTTCTTAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93444 ATTCTTGGAATCGCGTTGCG
1 ATT-TTTGAATCGCGTTGCG
*
93464 ATTTTCTGAATCGCGTTGCA
1 ATTTT-TGAATCGCGTTGCG
*
93484 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
93506 ATTTTCTGAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
93526 ATTTTCTGAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93546 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
*
93568 ATTTTATGAATCGCATTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93588 ATTCTTGTAAGATCGCGTTGCG
1 ATT-TT-TGA-ATCGCGTTGCG
** *
93610 ATTTTCT-TTTCAACGTTGCG
1 ATTTT-TGAATC-GCGTTGCG
* *
93630 CTTTTCTAAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
93650 -GTTTTGATATCGCGTTGCG
1 ATTTTTGA-ATCGCGTTGCG
93669 ATTTT
1 ATTTT
93674 GTTGGTCATT
Statistics
Matches: 343, Mismatches: 31, Indels: 48
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.01
19 20 0.06
20 168 0.49
21 33 0.10
22 120 0.35
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
ATTTTTGAATCGCGTTGCG
Found at i:93315 original size:42 final size:41
Alignment explanation
Indices: 93256--93673 Score: 389
Period size: 42 Copynumber: 10.1 Consensus size: 41
93246 GAATTTACTC
93256 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAA-ATCGCGTTGCG
***
93298 ATTTTCTGAATCGCGTTGCGATT-TTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAATCGCGTTGCG
*
93338 ATTCTT-GGAAGATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTTGGAA-ATCGCGTTGCG
*
93382 ATTCTT-GGAAGATCGCGTTGCGATTCTTGG-AATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTTGGAAATCGCGTTGCG
*
93424 ATTTTCTTAATCGCGTTGCGATTCTTGG-AATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAATCGCGTTGCG
*
93464 ATTTTCTGAATCGCGTTGCAATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAA-ATCGCGTTGCG
*
93506 ATTTTCTGAATCGCGTTGCGATT-TTCTG-AATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTT-GGAAATCGCGTTGCG
* * *
93546 ATTCTT-GGAAGATCGCGTTGCGATT-TTATG-AATCGCATTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTT-GGAAATCGCGTTGCG
* * ***
93588 ATTCTTGTAAGATCGCGTTGCGATTTTCTTTTCAA---CGTTGCG
1 ATT-TTCTGA-ATCGCGTTGCGA--TTCTTGGAAATCGCGTTGCG
* * * *
93630 CTTTTCTAAATCGCGTTGCGGTT-TT-GATATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAATCGCGTTGCG
93669 ATTTT
1 ATTTT
93674 GTTGGTCATT
Statistics
Matches: 329, Mismatches: 27, Indels: 43
0.82 0.07 0.11
Matches are distributed among these distances:
36 1 0.00
37 2 0.01
38 2 0.01
39 11 0.03
40 98 0.30
41 21 0.06
42 142 0.43
43 4 0.01
44 44 0.13
45 4 0.01
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (41 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAAATCGCGTTGCG
Found at i:93332 original size:62 final size:61
Alignment explanation
Indices: 93256--93674 Score: 410
Period size: 62 Copynumber: 6.8 Consensus size: 61
93246 GAATTTACTC
*
93256 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTG-A-ATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCGATTTT-GGAAGATCGCGTTGCG
*
93318 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCGATT-TTGGAAGATCGCGTTGCG
* ***
93382 ATTCTT-GGAAGATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTTA-ATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTGGAAGATCGCGTTGCG
* * *
93444 ATTCTT-GGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCAATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCGATT-TTGGAAGATCGCGTTGCG
*
93506 ATTTTCTGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCGATT-TTGGAAGATCGCGTTGCG
* * * **** *
93568 ATTTTATGAATCGCATTGCGATTCTTGTAAGATCGCGTTGCGATTTT--CTTTTCAACGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTG-GA-ATCGCGTTGCGATTTTGGAAGATC-GCGTTGCG
* * *
93630 CTTTTCTAAATCGCGTTGCGGTT-TT-GATATCGCGTTGCGATTTTG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGA-ATCGCGTTGCGATTTTG
93675 TTGGTCATTT
Statistics
Matches: 312, Mismatches: 30, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
59 19 0.06
60 29 0.09
61 10 0.03
62 178 0.57
63 11 0.04
64 42 0.13
65 4 0.01
66 19 0.06
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (61 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTGGAAGATCGCGTTGCG
Found at i:96190 original size:2 final size:2
Alignment explanation
Indices: 96183--96210 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96173 TGGTTTCTCA
96183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96211 TGCTGTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97130 original size:37 final size:37
Alignment explanation
Indices: 97047--97123 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
97037 TAAGGGACAA
97047 TCTCATATAAAGACATGATCCCATGTTGATTTTTCTT
1 TCTCATATAAAGACATGATCCCATGTTGATTTTTCTT
97084 TCTCATATAAAGACATGATCCCATGTTGATTTTTCTT
1 TCTCATATAAAGACATGATCCCATGTTGATTTTTCTT
97121 TCT
1 TCT
97124 TTTATAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.44
Consensus pattern (37 bp):
TCTCATATAAAGACATGATCCCATGTTGATTTTTCTT
Found at i:97750 original size:33 final size:34
Alignment explanation
Indices: 97713--97819 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 34
97703 GGTAAGAAAT
* * *
97713 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
97746 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
* * *
97780 -T-TTTTTAT-TAAAATAATATTTATATAATTATTA
1 TTATTTTTATAT-TAAT-ATATTTATGTAAATATTA
97813 TTTATTT
1 -TTATTT
97820 AGAATTATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
31 1 0.02
32 10 0.16
33 33 0.54
34 6 0.10
35 8 0.13
36 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:97797 original size:35 final size:33
Alignment explanation
Indices: 97744--97820 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
97734 TTTAAATAGT
*
97744 TATTATTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTT-TATTAAAATAATATTTATATAAA
*
97775 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATTAAAATAATATTTATATAAA
97808 TATTATTTATTTA
1 TATTATTT-TTTA
97821 GAATTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 4 0.10
31 10 0.25
32 3 0.08
33 19 0.47
34 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATTATTTTTTATTAAAATAATATTTATATAAA
Found at i:97810 original size:30 final size:30
Alignment explanation
Indices: 97744--97818 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
97734 TTTAAATAGT
* *
97744 TATTATTTTTATATTAATATATTTATGTAAA
1 TATTATTTTT-TATTAAAATATATATGTAAA
* *
97775 TATTATTTTTTATTAAAATA-ATATTTATA
1 TATTATTTTTTATTAAAATATATATGTAAA
*
97804 TAATTATTATTTATT
1 T-ATTATTTTTTATT
97819 TAGAATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 7 0.18
30 21 0.55
31 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TATTATTTTTTATTAAAATATATATGTAAA
Found at i:97982 original size:17 final size:17
Alignment explanation
Indices: 97960--98013 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
97950 AATGTTAATA
97960 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
97977 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
97994 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
98011 TTT
1 TTT
98014 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:100194 original size:34 final size:34
Alignment explanation
Indices: 100156--100252 Score: 140
Period size: 34 Copynumber: 2.9 Consensus size: 34
100146 AATGTTTGAT
*
100156 AAATACAAATTATATTATTCGAAATTTAAAATAA
1 AAATAAAAATTATATTATTCGAAATTTAAAATAA
* * *
100190 AAATAAAAATAATATTATTCGAAATTTAAATTTA
1 AAATAAAAATTATATTATTCGAAATTTAAAATAA
* *
100224 AAATATAAATTATAGTATTCGAAATTTAA
1 AAATAAAAATTATATTATTCGAAATTTAA
100253 CATTAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (34 bp):
AAATAAAAATTATATTATTCGAAATTTAAAATAA
Found at i:100882 original size:128 final size:127
Alignment explanation
Indices: 100652--101278 Score: 1053
Period size: 128 Copynumber: 4.9 Consensus size: 127
100642 TTACCTGATT
* *
100652 TACTGATATATCTAGTGTCCCCGAGAGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* ***
100717 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGA-AAATAATAGG
* *
100780 TACTGATATGA-ATAATGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
1 TACTGATAT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
* *
100844 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGG
65 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAG-AAAATAATAGG
100908 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
100973 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTGAATAGTAAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAG-AAAATAATAGG
101036 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
101101 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGTAAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAG-AAAATAATAGG
101164 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT-
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
101228 TGACAAAATAATGGAAGGCGCACCCCCGGGAACGCGCCTTCATGTTAATAG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAG
101279 TACTCCGATT
Statistics
Matches: 476, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
127 51 0.11
128 424 0.89
129 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (127 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGAAAATAATAGG
Found at i:101365 original size:8 final size:8
Alignment explanation
Indices: 101352--101390 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
101342 ACAAGCTTTA
101352 AAATTCTC
1 AAATTCTC
*
101360 AAATTCCC
1 AAATTCTC
*
101368 AAACTCT-
1 AAATTCTC
101375 AAATTCTC
1 AAATTCTC
101383 AAATTCTC
1 AAATTCTC
101391 TGAAAATGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTCTC
Found at i:105449 original size:14 final size:14
Alignment explanation
Indices: 105430--105499 Score: 94
Period size: 14 Copynumber: 5.3 Consensus size: 14
105420 AGTTCGTGAA
105430 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
105444 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
105458 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
105472 CG-T---TTATGTT
1 CGTTCAGTTATGTT
* *
105482 TGTTCGGTTATGTT
1 CGTTCAGTTATGTT
105496 CGTT
1 CGTT
105500 TATGTTCATT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
10 8 0.16
11 1 0.02
13 1 0.02
14 40 0.80
ACGTcount: A:0.11, C:0.13, G:0.23, T:0.53
Consensus pattern (14 bp):
CGTTCAGTTATGTT
Found at i:105478 original size:24 final size:24
Alignment explanation
Indices: 105430--105519 Score: 108
Period size: 24 Copynumber: 3.6 Consensus size: 24
105420 AGTTCGTGAA
105430 CGTTCAGTTATGTTCGTTCAGTTATGTT
1 CGTTCAGTTATGTTCG-T---TTATGTT
105458 CGTTCAGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
* *
105482 TGTTCGGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
* *
105506 CATTCATTTATGTT
1 CGTTCAGTTATGTT
105520 TAAGCCAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 39 0.70
27 1 0.02
28 16 0.29
ACGTcount: A:0.13, C:0.12, G:0.20, T:0.54
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATGTT
Found at i:105516 original size:38 final size:37
Alignment explanation
Indices: 105431--105520 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 37
105421 GTTCGTGAAC
* *
105431 GTTCAGTTATGTTCGTTCAGTTATGTTCGTTCAGTTA
1 GTTCATTTATGTTTGTTCAGTTATGTTCGTTCAGTTA
* * *
105468 TGTTCGTTTATGTTTGTTCGGTTATGTTCGTTTATGTTCA
1 -GTTCATTTATGTTTGTTCAGTTATGTTCGTTCA-GTT-A
105508 -TTCATTTATGTTT
1 GTTCATTTATGTTT
105521 AAGCCAATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
38 40 0.91
39 3 0.07
40 1 0.02
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (37 bp):
GTTCATTTATGTTTGTTCAGTTATGTTCGTTCAGTTA
Found at i:106052 original size:16 final size:16
Alignment explanation
Indices: 106031--106061 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
106021 AAAAACATTT
106031 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
106047 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
106062 TTTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:106600 original size:90 final size:89
Alignment explanation
Indices: 106445--106620 Score: 318
Period size: 89 Copynumber: 2.0 Consensus size: 89
106435 CGACCGTGCA
106445 TCAAAAATTCATGCAACAATACTAACATTTAGAAAAGCTTCAAACAATTCATTTG-ATTATATAT
1 TCAAAAATTCATGCAACAATACTAACATTTAGAAAAGCTTCAAACAATTCATTTGAATTATATAT
106509 ATGTAAAGAGAAAGAATTCTAGGTG
66 ATGTAAAGAGAAAG-ATTCTAGGTG
106534 TCAAAAATTCATGCAACAATACTAACATTTAAGAAAAGCTTCAAACAATTCATTTTGAATTATAT
1 TCAAAAATTCATGCAACAATACTAACATTT-AGAAAAGCTTCAAACAATTCA-TTTGAATTATAT
106599 ATATGTAAAGAGAAAGATTCTA
64 ATATGTAAAGAGAAAGATTCTA
106621 CTAACATTAA
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
89 30 0.36
90 21 0.25
91 10 0.12
92 23 0.27
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (89 bp):
TCAAAAATTCATGCAACAATACTAACATTTAGAAAAGCTTCAAACAATTCATTTGAATTATATAT
ATGTAAAGAGAAAGATTCTAGGTG
Found at i:108182 original size:29 final size:29
Alignment explanation
Indices: 108145--108217 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
108135 TAAGAGTATG
* *
108145 CTCATAATAACAAATATTTAAAAATTGAAC
1 CTCATAATAACAAATACTGAAAAATTG-AC
* *
108175 CTC-TAATAA-AAGTACTGAAAAATTGGC
1 CTCATAATAACAAATACTGAAAAATTGAC
*
108202 CTCATAACAACAAATA
1 CTCATAATAACAAATA
108218 AATATTAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.11
28 18 0.51
29 10 0.29
30 3 0.09
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (29 bp):
CTCATAATAACAAATACTGAAAAATTGAC
Found at i:109985 original size:17 final size:18
Alignment explanation
Indices: 109963--109996 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109953 TAATTTTGAT
109963 AAATGC-AACACAATCGA
1 AAATGCGAACACAATCGA
*
109980 AAATGCGATCACAATCG
1 AAATGCGAACACAATCG
109997 TAATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.24, G:0.15, T:0.15
Consensus pattern (18 bp):
AAATGCGAACACAATCGA
Found at i:112039 original size:2 final size:2
Alignment explanation
Indices: 112032--112071 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
112022 TTGGCAAGTA
112032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112072 TGATGAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117721 original size:28 final size:26
Alignment explanation
Indices: 117671--117729 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
117661 TTTAAAATTT
*
117671 TAATTTTATTTTAAAATAATAGATATA
1 TAATTTTATTTTAAAACAATAGAT-TA
* *
117698 TAATTTTTTTCTTAAAACATTAGATTA
1 TAATTTTATT-TTAAAACAATAGATTA
117725 -AATTT
1 TAATTT
117730 AATCATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.18
27 11 0.39
28 12 0.43
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (26 bp):
TAATTTTATTTTAAAACAATAGATTA
Found at i:119537 original size:30 final size:30
Alignment explanation
Indices: 119496--119554 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
119486 GACATGAACC
119496 TTTTCAAAAATAAATAAACGAACACGAATG
1 TTTTCAAAAATAAATAAACGAACACGAATG
* *
119526 TTTTGAAAAATAAATAAACGAATACGAAT
1 TTTTCAAAAATAAATAAACGAACACGAAT
119555 ATAACTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.25
Consensus pattern (30 bp):
TTTTCAAAAATAAATAAACGAACACGAATG
Found at i:122928 original size:2 final size:2
Alignment explanation
Indices: 122921--122945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122911 TCGATGTTCG
122921 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 A
122946 AACATGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126845 original size:24 final size:24
Alignment explanation
Indices: 126813--126871 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
126803 GATCCAAGGA
126813 CACTGCTTTACCCATGGGGGGAAT
1 CACTGCTTTACCCATGGGGGGAAT
126837 CACTGCTTTACCCATGGGGGGAAT
1 CACTGCTTTACCCATGGGGGGAAT
126861 CACTGCTTTAC
1 CACTGCTTTAC
126872 TTTCTTTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (24 bp):
CACTGCTTTACCCATGGGGGGAAT
Found at i:130717 original size:24 final size:24
Alignment explanation
Indices: 130686--130807 Score: 210
Period size: 24 Copynumber: 5.1 Consensus size: 24
130676 ATCGTATTCA
*
130686 TGTGCCTGATTCTGGTATTG-TGGC
1 TGTGCCTGGTTCTGGTATTGCT-GC
*
130710 TGCGCCTGGTTCTGGTATTGCTGC
1 TGTGCCTGGTTCTGGTATTGCTGC
130734 TGTGCCTGGTTCTGGTATTGCTGC
1 TGTGCCTGGTTCTGGTATTGCTGC
130758 TGTGCCTGGTTCTGGTATTGCTGC
1 TGTGCCTGGTTCTGGTATTGCTGC
130782 TGTGCCTGGTTCTGGTATTGCTGC
1 TGTGCCTGGTTCTGGTATTGCTGC
130806 TG
1 TG
130808 CTGCTCGGCC
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
24 93 0.99
25 1 0.01
ACGTcount: A:0.05, C:0.20, G:0.34, T:0.41
Consensus pattern (24 bp):
TGTGCCTGGTTCTGGTATTGCTGC
Found at i:135700 original size:10 final size:10
Alignment explanation
Indices: 135685--135709 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
135675 TACTGAAAGG
135685 AAAAAAAGAA
1 AAAAAAAGAA
135695 AAAAAAAGAA
1 AAAAAAAGAA
135705 AAAAA
1 AAAAA
135710 TGTGTAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Done.