Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004471.1 Hibiscus syriacus cultivar Beakdansim tig00009858_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: 150280
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:5200 original size:20 final size:20
Alignment explanation
Indices: 5175--5219 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
5165 TATGTACACT
*
5175 TAGTATCGATGTTGTTCATC
1 TAGTATCGATATTGTTCATC
5195 TAGTATCGATATTGTTCATC
1 TAGTATCGATATTGTTCATC
5215 TAGTA
1 TAGTA
5220 CCCATACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (20 bp):
TAGTATCGATATTGTTCATC
Found at i:5265 original size:13 final size:13
Alignment explanation
Indices: 5247--5273 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5237 GCCTCGATAG
5247 GGTATCGATACTA
1 GGTATCGATACTA
5260 GGTATCGATACTA
1 GGTATCGATACTA
5273 G
1 G
5274 TCAGATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (13 bp):
GGTATCGATACTA
Found at i:5729 original size:2 final size:2
Alignment explanation
Indices: 5722--5756 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5712 TTTCGTTTGT
5722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5757 CTTTTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7756 original size:95 final size:95
Alignment explanation
Indices: 7497--7887 Score: 446
Period size: 95 Copynumber: 4.1 Consensus size: 95
7487 AATGAAATAA
* * * * * * *
7497 TACCGATAATGCTGATGCAATACCGATACCGGT-AAAACAGAATGCTATAATGGTA-TCGATATC
1 TACCGATACTGCTGAGGTAGTACCGATA-CTGTCAAAACAGAATGCTAAAATGGTACT-GATACC
*
7560 ATATAGGATATCGATACTACTTAGAGTAGTAG
64 ATATATGATATCGATACTACTTAGAGTAGTAG
* * * * * **
7592 TACCGATACT-CTGAGTTATGGTACCGGTACTGTCAAAACAGAATGCTAAATTGATATTGATATT
1 TACCGATACTGCTGAGGTA--GTACCGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACC
*
7656 ATATATGATATTGATACTACTTAGAGTAGTAG
64 ATATATGATATCGATACTACTTAGAGTAGTAG
* * *
7688 TACTGATACTGCTGAGGCAGTATCGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCAT
1 TACCGATACTGCTGAGGTAGTACCGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCAT
7753 ATATGATATCGATACTACTTAGAGTAGTAG
66 ATATGATATCGATACTACTTAGAGTAGTAG
* * * * * *
7783 TACCGATACTGCTGAGGTAGTACCGATACTATTAAAATATAATGCTAGAATGGTACCGATACCAT
1 TACCGATACTGCTGAGGTAGTACCGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCAT
* * * *
7848 ATGTAATATCGATACCACTTAGATTAGTAG
66 ATATGATATCGATACTACTTAGAGTAGTAG
* *
7878 CACTGATACT
1 TACCGATACT
7888 ATGAGTAATT
Statistics
Matches: 252, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
94 5 0.02
95 170 0.67
96 70 0.28
97 7 0.03
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (95 bp):
TACCGATACTGCTGAGGTAGTACCGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCAT
ATATGATATCGATACTACTTAGAGTAGTAG
Found at i:7908 original size:191 final size:189
Alignment explanation
Indices: 7517--7908 Score: 459
Period size: 191 Copynumber: 2.1 Consensus size: 189
7507 GCTGATGCAA
* * *
7517 TACCGATACCGGTAAAACAGAATGCTATAATGGTATCGATATCATATAGGATATCGATACTACTT
1 TACCGATA-CTGTAAAACAGAATGCTAAAATGGTATCGATACCATATAGGATATCGATACTACTT
* * *
7582 AGAGTAGTAGTACCGATACTCTGAGTTATGGTACCGGTACTGTCAAAACAGAATGCTAAATTGAT
65 AGAGTAGTAGTACCGATACTCTGAGGTA-GGTACCGATACTATCAAAACAGAATGCTAAATTGAT
** ** * * * * * *
7647 ATTGATATTATATATGATATTGATACTACTTAGAGTAGTAGTACTGATACTGCTGAGGCAG
129 ACCGATACCATATATAATATCGATACCACTTAGAGTAGTAGCACTGATACTGATGAGGAAG
* *
7708 TATCGATACTGTCAAAACAGAATGCTAAAATGGTA-CTGATACCATATATGATATCGATACTACT
1 TACCGATACTGT-AAAACAGAATGCTAAAATGGTATC-GATACCATATAGGATATCGATACTACT
* * *
7772 TAGAGTAGTAGTACCGATACTGCTGAGGTA-GTACCGATACTATTAAAATATAATGCTAGAA-TG
64 TAGAGTAGTAGTACCGATACT-CTGAGGTAGGTACCGATACTATCAAAACAGAATGCTA-AATTG
* * * *
7835 GTACCGATACCATATGTAATATCGATACCACTTAGATTAGTAGCACTGATACT-ATGAGTAATTG
127 ATACCGATACCATATATAATATCGATACCACTTAGAGTAGTAGCACTGATACTGATGAGGAA--G
7899 TACCGATACT
1 TACCGATACT
7909 ACTCCTTTAG
Statistics
Matches: 169, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
189 5 0.03
190 71 0.42
191 86 0.51
192 7 0.04
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (189 bp):
TACCGATACTGTAAAACAGAATGCTAAAATGGTATCGATACCATATAGGATATCGATACTACTTA
GAGTAGTAGTACCGATACTCTGAGGTAGGTACCGATACTATCAAAACAGAATGCTAAATTGATAC
CGATACCATATATAATATCGATACCACTTAGAGTAGTAGCACTGATACTGATGAGGAAG
Found at i:13604 original size:29 final size:31
Alignment explanation
Indices: 13571--13628 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
13561 CCATTCAATG
*
13571 ACTGAAATGCAAATTTTA-CAAA-ACAAAAC
1 ACTGAAATGCAAACTTTACCAAATACAAAAC
*
13600 ACTGAAATGTAAACTTTACCAAATACAAA
1 ACTGAAATGCAAACTTTACCAAATACAAA
13629 CCTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 4 0.16
31 5 0.20
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.22
Consensus pattern (31 bp):
ACTGAAATGCAAACTTTACCAAATACAAAAC
Found at i:14781 original size:3 final size:3
Alignment explanation
Indices: 14773--14825 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
14763 TTTTATTAAT
*
14773 TTA TTA TTA ATA TTA TTA TTA TTA TT- TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
14818 TTAA TTA T
1 TT-A TTA T
14826 ATTTTACACA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 40 0.89
4 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17746 original size:3 final size:3
Alignment explanation
Indices: 17738--17802 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
17728 TTTACCCATT
* * * ** *
17738 TTA TTA TTA TTA TAA TTA TTA TCA TAA TTA TTA TTA AAA TTA TAA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
17787 TATA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA
17803 AAAAAATATA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
3 44 0.88
4 6 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:17757 original size:12 final size:12
Alignment explanation
Indices: 17740--17800 Score: 77
Period size: 12 Copynumber: 4.9 Consensus size: 12
17730 TACCCATTTT
17740 ATTATTATTATA
1 ATTATTATTATA
*
17752 ATTATTATCATA
1 ATTATTATTATA
*
17764 ATTATTATTAAA
1 ATTATTATTATA
*
17776 ATTATAATATATA
1 ATTATTAT-TATA
17789 TATTATTATTAT
1 -ATTATTATTAT
17801 TAAAAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
12 28 0.68
13 6 0.15
14 7 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:17828 original size:29 final size:32
Alignment explanation
Indices: 17748--17828 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 32
17738 TTATTATTAT
* * *
17748 TATAAT-TAT-TATCATAATTATTATTAAAAT
1 TATAATATATATATAATAATTATTATAAAAAA
* *
17778 TATAATATATATATTATTATTATTA-AAAAAA
1 TATAATATATATATAATAATTATTATAAAAAA
17809 TATAATA-ATA-ATAATAATTA
1 TATAATATATATATAATAATTA
17829 CAAACAGGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 8 0.19
30 9 0.21
31 14 0.33
32 12 0.28
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
TATAATATATATATAATAATTATTATAAAAAA
Found at i:23273 original size:15 final size:15
Alignment explanation
Indices: 23253--23284 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23243 ATCAATACCT
23253 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
23268 TTTTGCATACATTCA
1 TTTTGCATACATGCA
23283 TT
1 TT
23285 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:28703 original size:12 final size:12
Alignment explanation
Indices: 28683--28762 Score: 83
Period size: 12 Copynumber: 6.6 Consensus size: 12
28673 ACGCTTGAAG
*
28683 AGAAGAAAAAGA
1 AGAAAAAAAAGA
28695 AGAAAAAAAAGA
1 AGAAAAAAAAGA
*
28707 AGAAAAAAGA-A
1 AGAAAAAAAAGA
28718 AGAAAAAGAAA-A
1 AGAAAAA-AAAGA
*
28730 AGAGAAAAAAGAA
1 AGAAAAAAAAG-A
*
28743 AGAAAAAAGAAAA
1 AGAAAAAA-AAGA
28756 AGAAAAA
1 AGAAAAA
28763 TGGGGGTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
11 11 0.19
12 29 0.50
13 16 0.28
14 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAGA
Found at i:28709 original size:26 final size:24
Alignment explanation
Indices: 28683--28762 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 24
28673 ACGCTTGAAG
*
28683 AGAAGAAAAAGAAGAAAAAAAAGA
1 AGAAAAAAAAGAAGAAAAAAAAGA
*
28707 AGAAAAAAGA-AAGAAAAAGAAA-A
1 AGAAAAAAAAGAAGAAAAA-AAAGA
* *
28730 AGAGAAAAAAGAAAGAAAAAAGAAAA
1 AGAAAAAAAAG-AAGAAAAAA-AAGA
28756 AGAAAAA
1 AGAAAAA
28763 TGGGGGTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.37
24 12 0.26
25 10 0.22
26 7 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AGAAAAAAAAGAAGAAAAAAAAGA
Found at i:28723 original size:32 final size:33
Alignment explanation
Indices: 28680--28762 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 33
28670 ATTACGCTTG
28680 AAGAGAAGAAAAAGAAGAAA-A-AAAAGAAGAAA-A
1 AAGA-AAGAAAAAGAA-AAAGAGAAAA-AAGAAAGA
28713 AAGAAAGAAAAAGAAAAAGAGAAAAAAGAAAGA
1 AAGAAAGAAAAAGAAAAAGAGAAAAAAGAAAGA
28746 AA-AAAGAAAAAGAAAAA
1 AAGAAAGAAAAAGAAAAA
28763 TGGGGGTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
31 3 0.06
32 33 0.70
33 11 0.23
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (33 bp):
AAGAAAGAAAAAGAAAAAGAGAAAAAAGAAAGA
Found at i:28735 original size:25 final size:25
Alignment explanation
Indices: 28690--28762 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 25
28680 AAGAGAAGAA
28690 AAAGAAGAAA-AAAAAGAAGAAAAAAG
1 AAAGAA-AAAGAAAAAG-AGAAAAAAG
28716 AAAGAAAAAGAAAAAGAGAAAAAAG
1 AAAGAAAAAGAAAAAGAGAAAAAAG
28741 AAAGAAAAAAGAAAAAGA-AAAA
1 AAAG-AAAAAGAAAAAGAGAAAA
28763 TGGGGGTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 20 0.44
26 25 0.56
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAGAAAAAGAGAAAAAAG
Found at i:28761 original size:11 final size:11
Alignment explanation
Indices: 28680--28761 Score: 66
Period size: 11 Copynumber: 7.6 Consensus size: 11
28670 ATTACGCTTG
*
28680 AAGAGAAGAAA
1 AAGAAAAGAAA
*
28691 AAGAAGAAAAAA
1 AAGAA-AAGAAA
*
28703 AAGAAGA-AAA
1 AAGAAAAGAAA
28713 AAG-AAAGAAA
1 AAGAAAAGAAA
*
28723 AAGAAAA-AGAG
1 AAGAAAAGA-AA
28734 AA-AAAAGAAA
1 AAGAAAAGAAA
28744 GAA-AAAAGAAA
1 -AAGAAAAGAAA
28755 AAGAAAA
1 AAGAAAA
28762 ATGGGGGTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 2 0.03
10 20 0.34
11 26 0.45
12 10 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:30337 original size:92 final size:92
Alignment explanation
Indices: 30131--30403 Score: 397
Period size: 92 Copynumber: 3.1 Consensus size: 92
30121 GCAATACGCC
30131 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-A-AACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
30187 TCATTGAATTT-AAAGATGAATGTGCT
66 TCATTGAATTTGAAAGATGAATATGCT
*
30213 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
30278 TCATTGAATTTGAAAGATGAATATGCT
66 TCATTGAATTTGAAAGATGAATATGCT
30305 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
* *
30370 ATCATT-AGATATTGAAAGATAAATTTGCT
65 ATCATTGA-AT-TTGAAAGATGAATATGCT
*
30399 CATAG
1 AATAG
30404 TAGAAATAAG
Statistics
Matches: 172, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
82 46 0.27
84 1 0.01
89 1 0.01
90 1 0.01
91 17 0.10
92 65 0.38
93 21 0.12
94 20 0.12
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (92 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCATTGAATTTGAAAGATGAATATGCT
Found at i:30511 original size:116 final size:116
Alignment explanation
Indices: 30305--30600 Score: 567
Period size: 116 Copynumber: 2.6 Consensus size: 116
30295 TGAATATGCT
30305 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
30370 ATCATTAGATATTGAAAGATAAATTTGCTCATAGTAGAAATAAGGAGACCC
66 ATCATTAGATATTGAAAGATAAATTTGCTCATAGTAGAAATAAGGAGACCC
30421 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
*
30486 ATCATTAGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCC
66 ATCATTAGATATTGAAAGATAAATTTGCTCATAGTAGAAATAAGGAGACCC
*
30537 AATAGCATCTTCTGGAAGCGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
30601 GTTATTGAAT
Statistics
Matches: 178, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 13 0.07
116 165 0.93
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (116 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
ATCATTAGATATTGAAAGATAAATTTGCTCATAGTAGAAATAAGGAGACCC
Found at i:31616 original size:116 final size:113
Alignment explanation
Indices: 31407--32536 Score: 1436
Period size: 116 Copynumber: 9.8 Consensus size: 113
31397 GCAAAGATTC
* * * *
31407 AAATCCATCAATTGATGGATTAACATTGCTAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCAATTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATCTG
31472 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* *
31523 AAATTCATCAATTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCAATTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATCTG
31588 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* * *
31639 AAATTCATCAATTGATGGATTAACATTGTCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCAATTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATCTG
31704 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* *
31755 AAATTCATCAATTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCAATTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATCTG
31820 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* *
31871 AAATTCATCAATTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCAATTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATCTG
*
31936 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-TCTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAT-TT
* * * * ***
31987 GAATTCATCATTTGATGGATCAGCATTTCCAAAAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTCATCAATTGATGGATCAACATTGCC-AGGTAAAGTTCATAATGAGAAGAACTCATCTGAA
* * **
32052 GAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* * * * * **
32101 GAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTCATCAATTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAA
* * * * **
32166 GGAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* * * * * **
32215 GAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTCATCAATTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAA
** *
32280 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* * * * * **
32329 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTCATCAATTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAA
* * * * * *
32394 GGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
* * * * *
32443 AAATTCATCACTTGATGGATCAACCTTTACAAAAG-AAAGTTCATAATGAGAAGAACTCATCTGA
1 AAATTCATCAATTGATGGATCAA-CATTGC-CAGGTAAAGTTCATAATGAGAAGAACTCATCTGA
* *
32507 AGGAGAAAGAAGAAGTTCATAATGAGAAGA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGA
32537 GCTTATTTAA
Statistics
Matches: 969, Mismatches: 39, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
113 1 0.00
114 458 0.47
115 7 0.01
116 483 0.50
117 20 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
AAATTCATCAATTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
Found at i:32083 original size:114 final size:116
Alignment explanation
Indices: 31443--32552 Score: 1406
Period size: 114 Copynumber: 9.6 Consensus size: 116
31433 TGCTAGGTAG
*
31443 AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAAC-CATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * *** *
31508 TTCAACCTTTTATTTAAATTCATCAATTGATGGATTAACATTGCC-AGGTAG
65 TTCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
*
31559 AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAAC-CATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *** *
31624 TTCAACCTTTTATTTAAATTCATCAATTGATGGATTAACATTGT-C-AGGTAG
65 TTCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATT-TCCAAAAAAA
*
31675 AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAAC-CATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * *** *
31740 TTCAACCTTTTATTTAAATTCATCAATTGATGGATTAACATTGCC-AGGTAG
65 TTCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
*
31791 AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAAC-CATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * *** *
31856 TTCAACCTTTTATTTAAATTCATCAATTGATGGATTAACATTGCC-AGGTAG
65 TTCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
31907 AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAAC-CATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * *
31972 TTCAACCTTTT-TCTTGAATTCATCATTTGATGGATCAGCATTTCCAAAAAAA
65 TTCAACCTTTTAT-TTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
*
32024 AGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 AGTTCATAATGAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
** * * * * *
32087 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAA
66 TCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
* * *
32138 AGTTCATAATGAGAAGAA-C-TCATCTGAAGGAGAAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 AGTTCATAATGAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
** * * * * *
32201 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAA
66 TCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
*
32252 AGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 AGTTCATAATGAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
** * * * * * *
32315 TCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAA
66 TCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
* *
32366 AGTTCATAATGAGAAGAA-C-TCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGTTCATAATGAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * * *
32429 TTAACCTTTTGTTCAAATTCATCACTTGATGGATCAACCTTTACAAAAGAA
66 TCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
* * * *
32480 AGTTCATAATGAGAAGAA-C-TCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTAT
1 AGTTCATAATGAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
*
32543 TTAACCTTTT
66 TCAACCTTTT
32553 GAATGACTCT
Statistics
Matches: 950, Mismatches: 39, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
114 482 0.51
115 2 0.00
116 446 0.47
117 20 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (116 bp):
AGTTCATAATGAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTATTTAAATTCATCAATTGATGGATCAACATTTCCAAAAAAA
Found at i:32796 original size:12 final size:12
Alignment explanation
Indices: 32774--32811 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32764 TTTTTTACCC
32774 ATTTT-ATTATT
1 ATTTTAATTATT
32785 ATTTTAATTATT
1 ATTTTAATTATT
**
32797 ATCATAATTATT
1 ATTTTAATTATT
32809 ATT
1 ATT
32812 AAAATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTTAATTATT
Found at i:38786 original size:16 final size:16
Alignment explanation
Indices: 38765--38798 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
38755 TTACTATTCA
*
38765 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
38781 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
38797 CG
1 CG
38799 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:45921 original size:277 final size:282
Alignment explanation
Indices: 45403--46231 Score: 1451
Period size: 277 Copynumber: 2.9 Consensus size: 282
45393 GATTTGTCCT
* * *
45403 GTTTTTCGGTATTCTACTACTAGAGTTGAGGAACGTGTTGATGTTATGTATGGGAACATAAAGCA
1 GTTTTT-GGTATTCTACTACTAGAGCTGACGAGCGTGTTGATGTTATGTATGGGAACATAAAGCA
*
45468 CGCCTTCTTCCAGCCTGCAGAGAATGAAATGATCACTCTCCTTCACTTTCATCTGCACAATCACA
65 CGCCTTCTTCCAGCCTGCAGAGAAAGAAATGA--ACTCTCCTTC-CTTTCATCTGCACAATCACA
*
45533 TAATGGTGGGAAATAAAAAAACCAAGGATGTACAA-TTTATGTTGAAGTTATGGATGTAGTCCAG
127 TAATGGTGGGAAATAAAAAAACCAAGGATGTGCAATTTTATGTTGAAGTTATGGATGTAGTCCAG
*
45597 ACATTGGGAGGCGCAAAGAGGTTTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGAG
192 ACATTGGGAGGCGCAAAGAGGTCTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGAG
45662 GGATAGGAAGATATGTTGAAGTTATG
257 GGATAGGAAGATATGTTGAAGTTATG
45688 GTTTTTGGTATTCTACTACTAGAGCTGACGAGCGTGTTGATGTTATGTATGGGAACATAAAGCAC
1 GTTTTTGGTATTCTACTACTAGAGCTGACGAGCGTGTTGATGTTATGTATGGGAACATAAAGCAC
*
45753 GCCTTCTTCCAGCCTGTAGAGAAAGAAATG-A-TCT-C-T-CTTTCATCTGCACAATCACATAAT
66 GCCTTCTTCCAGCCTGCAGAGAAAGAAATGAACTCTCCTTCCTTTCATCTGCACAATCACATAAT
*
45813 GGTGGGAAATAAAAAAACCAAGGAAGTGCAATTTTATGTTGAAGTTATGGATGTAGTCCAGACAT
131 GGTGGGAAATAAAAAAACCAAGGATGTGCAATTTTATGTTGAAGTTATGGATGTAGTCCAGACAT
45878 TGGGAGGCGCAAAGAGGTCTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGAGGGAT
196 TGGGAGGCGCAAAGAGGTCTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGAGGGAT
45943 AGGAAGATATGTTGAAGTTATG
261 AGGAAGATATGTTGAAGTTATG
*
45965 GTTTTCGGTATTCTACTACTAGAGCTGACGAGCGTGTTGATGTTATGTATGGGAACATAAAGCAC
1 GTTTTTGGTATTCTACTACTAGAGCTGACGAGCGTGTTGATGTTATGTATGGGAACATAAAGCAC
46030 GCCTTCTTCCAGCCTGCAGAGAAAGAAATGATCACTCTCCTTCGCTTTCATCTGCACAATCACAT
66 GCCTTCTTCCAGCCTGCAGAGAAAGAAATGA--ACTCTCCTTC-CTTTCATCTGCACAATCACAT
46095 AATGGTGGGAAAT-AAAAAACCAAGGATGTGCAATTTTATGTTGAAGTTATGGATGTAGTCCAG-
128 AATGGTGGGAAATAAAAAAACCAAGGATGTGCAATTTTATGTTGAAGTTATGGATGTAGTCCAGA
46158 CATTGGGAGGCGCAAAGAGGTCTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGA-G
193 CATTGGGAGGCGCAAAGAGGTCTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGAGG
46222 GATAGGAAGA
258 GATAGGAAGA
46232 ATAAGATCAA
Statistics
Matches: 524, Mismatches: 11, Indels: 21
0.94 0.02 0.04
Matches are distributed among these distances:
276 53 0.10
277 212 0.40
278 1 0.00
279 1 0.00
280 4 0.01
281 4 0.01
282 12 0.02
283 64 0.12
284 133 0.25
285 40 0.08
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (282 bp):
GTTTTTGGTATTCTACTACTAGAGCTGACGAGCGTGTTGATGTTATGTATGGGAACATAAAGCAC
GCCTTCTTCCAGCCTGCAGAGAAAGAAATGAACTCTCCTTCCTTTCATCTGCACAATCACATAAT
GGTGGGAAATAAAAAAACCAAGGATGTGCAATTTTATGTTGAAGTTATGGATGTAGTCCAGACAT
TGGGAGGCGCAAAGAGGTCTGCTTATGATCCAGATGAGATTGAAGAAGAGCAAAGGGAGAGGGAT
AGGAAGATATGTTGAAGTTATG
Found at i:53635 original size:19 final size:19
Alignment explanation
Indices: 53584--53637 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 19
53574 ACACGTGTCA
*
53584 TATATATATAATTTTAAAAAT
1 TATAT-TATAA-TTAAAAAAT
*
53605 TAT-TT-TATTTAAAAAAT
1 TATATTATAATTAAAAAAT
53622 TATATTATAATTAAAA
1 TATATTATAATTAAAA
53638 CCCCACTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.39
18 4 0.14
19 9 0.32
20 1 0.04
21 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATATTATAATTAAAAAAT
Found at i:57041 original size:37 final size:38
Alignment explanation
Indices: 56963--57044 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
56953 AGCAAGTTAG
* *
56963 AAAATATTTATATATTTTCTTTAAAAAATTTAAACTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAATTAAAAATCAT
*
57002 AAAAATTATATATATTTT-TTTACAAAATTAAAAAT-AT
1 AAAAATT-TATATATTTTCTTTAAAAAATTAAAAATCAT
57039 AAAAAT
1 AAAAAT
57045 GTTTAATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 8 0.21
38 17 0.44
39 14 0.36
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAATTAAAAATCAT
Found at i:57847 original size:3 final size:3
Alignment explanation
Indices: 57839--57929 Score: 155
Period size: 3 Copynumber: 30.3 Consensus size: 3
57829 TTTCTATCTA
57839 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
57887 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG CTT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
57930 ACATATTAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:58344 original size:29 final size:29
Alignment explanation
Indices: 58302--58359 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
58292 CGTATCTGAT
58302 GAACGCATCAACAACAGTGACCAAAATCC
1 GAACGCATCAACAACAGTGACCAAAATCC
58331 GAACGCATCAACAACAGTGACCAAAATCC
1 GAACGCATCAACAACAGTGACCAAAATCC
58360 CTCAAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.31, G:0.14, T:0.10
Consensus pattern (29 bp):
GAACGCATCAACAACAGTGACCAAAATCC
Found at i:61531 original size:32 final size:32
Alignment explanation
Indices: 61495--61557 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
61485 ATTTTACATG
61495 TACTAACTTATTT-TTCTCTTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTC-TTTTGTTTGTGTA
61527 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
61558 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:65785 original size:105 final size:102
Alignment explanation
Indices: 65598--65836 Score: 281
Period size: 105 Copynumber: 2.3 Consensus size: 102
65588 TGAGAATTTT
* * *
65598 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
65663 AAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCA-CTTGAGA-TC--GTTT-TCTCA
* *
65703 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGAT-CAAAATTTCGAATTTGTTTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATAC-AAATTTCGAATTTGATTCAC
* * *
65767 -ATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TA-AAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
65805 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
65837 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
101 3 0.03
102 30 0.25
103 3 0.03
104 7 0.06
105 75 0.64
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:65827 original size:36 final size:36
Alignment explanation
Indices: 65782--65866 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
65772 ACAAAGTTGA
**
65782 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
65818 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* *
65854 TTTCATTTGAGAC
1 TCTCACTTGAGAC
65867 TGTATCTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 7 0.17
36 34 0.83
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:66374 original size:36 final size:36
Alignment explanation
Indices: 66301--66375 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
66291 AACAAACATC
*
66301 TTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCA
1 TTTGAGATCATTTCCCTTTAAACGAATTTTGACTCA
* *
66337 TTTGAGA-CAGTTTTCCTTTAAAC-AATCTTTGAGTCA
1 TTTGAGATCA-TTTCCCTTTAAACGAAT-TTTGACTCA
66373 TTT
1 TTT
66376 CCTTTGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTGAGATCATTTCCCTTTAAACGAATTTTGACTCA
Found at i:66392 original size:63 final size:62
Alignment explanation
Indices: 66294--66411 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 62
66284 GAAACAAAAC
**
66294 AAACATCTTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCATTTGAGACAGTTTTCCTTT
1 AAACATCTTTGAGATCATTTCCCTTTAAAAAAATTTTGTCTCATTTGAGACAGTTTTCCTTT
*
66356 AAACAATCTTTGAG-TCATTT-CCTTTGAAAAAAAATTTTGTCTCTTTTGAGACAGTT
1 AAAC-ATCTTTGAGATCATTTCCCTTT--AAAAAAATTTTGTCTCATTTGAGACAGTT
66412 GCTTTTGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
61 5 0.10
62 10 0.20
63 35 0.70
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (62 bp):
AAACATCTTTGAGATCATTTCCCTTTAAAAAAATTTTGTCTCATTTGAGACAGTTTTCCTTT
Found at i:66825 original size:3 final size:3
Alignment explanation
Indices: 66817--66904 Score: 149
Period size: 3 Copynumber: 29.3 Consensus size: 3
66807 TTTCTATCTA
66817 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
66865 ATT ATT ATT ATT ATT ATT ATT ATT ATG CTT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
66905 ACATATTAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:67319 original size:29 final size:29
Alignment explanation
Indices: 67277--67334 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
67267 CGTATCTGAT
67277 GAACGCATCAACAACAGTGACCAAAATCC
1 GAACGCATCAACAACAGTGACCAAAATCC
67306 GAACGCATCAACAACAGTGACCAAAATCC
1 GAACGCATCAACAACAGTGACCAAAATCC
67335 CTCAAACAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.31, G:0.14, T:0.10
Consensus pattern (29 bp):
GAACGCATCAACAACAGTGACCAAAATCC
Found at i:69745 original size:21 final size:21
Alignment explanation
Indices: 69721--69774 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
69711 GAAAACCGCA
69721 AGAAACGTGTCATAAGAGCATAG
1 AGAAACGTGTCATAAGAGC--AG
*
69744 AAAAACGTGTCATAAGAGCAG
1 AGAAACGTGTCATAAGAGCAG
*
69765 AGAAAAGTGT
1 AGAAACGTGT
69775 GTCACAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.36
23 18 0.64
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (21 bp):
AGAAACGTGTCATAAGAGCAG
Found at i:69778 original size:23 final size:23
Alignment explanation
Indices: 69723--69770 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
69713 AAACCGCAAG
*
69723 AAACGTGTCATAAGAGCATAGAA
1 AAACGTGTCATAAGAGCAGAGAA
69746 AAACGTGTCATAAGAGCAGAGAA
1 AAACGTGTCATAAGAGCAGAGAA
69769 AA
1 AA
69771 GTGTGTCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (23 bp):
AAACGTGTCATAAGAGCAGAGAA
Found at i:71706 original size:20 final size:20
Alignment explanation
Indices: 71678--71715 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
71668 TTTAATATTT
*
71678 TTTATTTAATAAA-ATAAAAA
1 TTTAATTAA-AAATATAAAAA
71698 TTTAATTAAAAATATAAA
1 TTTAATTAAAAATATAAA
71716 GAGTCAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTAATTAAAAATATAAAAA
Found at i:73580 original size:20 final size:20
Alignment explanation
Indices: 73555--73624 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
73545 GCGAAGTTCG
73555 CGTTGCGATTCATTCCAAAT
1 CGTTGCGATTCATTCCAAAT
* * *
73575 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAA-AT
73594 CACGTTGCGATTCATTCCAAAT
1 --CGTTGCGATTCATTCCAAAT
73616 CGTTGCGAT
1 CGTTGCGAT
73625 AGGCAAAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 17 0.44
21 8 0.21
22 2 0.05
23 5 0.13
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAAAT
Found at i:73591 original size:41 final size:42
Alignment explanation
Indices: 73506--73793 Score: 492
Period size: 42 Copynumber: 6.9 Consensus size: 42
73496 GCGATAGTTA
* *
73506 AAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGGCG
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
*
73548 AAGTTCGCGTTGCGATTCATTCCAAA-TCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
* *
73589 AAGTTCACGTTGCGATTCATTCCAAA-TCGTTGCGATAGGCA
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
*
73630 AAGTTCGTGTTGCGATTCATTCC-AATTCGTTGCGATAGGCG
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
73671 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
*
73713 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGTGATAGGCG
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
73755 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAG
1 AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAG
73794 TCCAAATATT
Statistics
Matches: 232, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 109 0.47
42 121 0.52
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
AAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGGCG
Found at i:73882 original size:6 final size:6
Alignment explanation
Indices: 73871--73902 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
73861 GACACGTATT
73871 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
73903 TGACCCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:74756 original size:42 final size:42
Alignment explanation
Indices: 74704--74785 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
74694 AATATTTGGA
*
74704 CTATCGCAACGAATTTGGAATGAATCACAACGCGAACTTCGC
1 CTATCACAACGAATTTGGAATGAATCACAACGCGAACTTCGC
* *
74746 CTATCACAACGAATTTGGAATGAATCGCAACGCGAGCTTC
1 CTATCACAACGAATTTGGAATGAATCACAACGCGAACTTC
74786 ACCTGTCGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
CTATCACAACGAATTTGGAATGAATCACAACGCGAACTTCGC
Found at i:74776 original size:21 final size:21
Alignment explanation
Indices: 74710--74777 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
74700 TGGACTATCG
74710 CAACGAATTTGGAATGAATCA
1 CAACGAATTTGGAATGAATCA
* * **
74731 CAACGCGAACTTCGCCT--ATCA
1 CAA--CGAATTTGGAATGAATCA
*
74752 CAACGAATTTGGAATGAATCG
1 CAACGAATTTGGAATGAATCA
74773 CAACG
1 CAACG
74778 CGAGCTTCAC
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 8 0.24
21 18 0.53
23 8 0.24
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
CAACGAATTTGGAATGAATCA
Found at i:74794 original size:21 final size:21
Alignment explanation
Indices: 74770--74819 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
74760 TTGGAATGAA
74770 TCGCAACGCGAGCTTCACCTG
1 TCGCAACGCGAGCTTCACCTG
* *
74791 TCGCAATGCGAGCTTCGCCTG
1 TCGCAACGCGAGCTTCACCTG
74812 TCGCAACG
1 TCGCAACG
74820 AATTGGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGAGCTTCACCTG
Found at i:74840 original size:62 final size:63
Alignment explanation
Indices: 74735--74858 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 63
74725 GAATCACAAC
* *
74735 GCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCGAGCTTCACCTGTCGCAAT
1 GCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCAAACTTCACCTGTCGCAAT
* * * *
74798 GCGAGCTTCGCCTGTCGCAACGAA-TTGGAATGAATCGCAACGCAAACTTCGCCTGTCGCAA
1 GCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCAAACTTCACCTGTCGCAA
74859 CGATTTGGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 34 0.62
63 21 0.38
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (63 bp):
GCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCAAACTTCACCTGTCGCAAT
Found at i:74858 original size:21 final size:21
Alignment explanation
Indices: 74770--74860 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
74760 TTGGAATGAA
* *
74770 TCGCAACGCGAGCTTCACCTG
1 TCGCAACGCGAACTTCGCCTG
* *
74791 TCGCAATGCGAGCTTCGCCTG
1 TCGCAACGCGAACTTCGCCTG
* **
74812 TCGCAA--CGAA-TTGGAATG
1 TCGCAACGCGAACTTCGCCTG
*
74830 AATCGCAACGCAAACTTCGCCTG
1 --TCGCAACGCGAACTTCGCCTG
74853 TCGCAACG
1 TCGCAACG
74861 ATTTGGAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.09
19 3 0.05
20 6 0.11
21 33 0.60
22 3 0.05
23 5 0.09
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGCCTG
Found at i:74942 original size:21 final size:21
Alignment explanation
Indices: 74913--74980 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
74903 ATTGGAATGA
74913 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * *
74934 ATCGTAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
74953 GAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
74976 ATCGC
1 ATCGC
74981 GTTGCGAATC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 9 0.26
21 17 0.49
23 9 0.26
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:74979 original size:42 final size:41
Alignment explanation
Indices: 74791--74972 Score: 283
Period size: 41 Copynumber: 4.4 Consensus size: 41
74781 GCTTCACCTG
* *
74791 TCGCAATGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
* *
74832 TCGCAACGCAAACTTCGCCTGTCGCAACGATTTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
*
74873 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
* * *
74914 TCGCAACGCGAACTTCGACTATCGTAACGAATTTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAA-TTGGAATGAA
74956 TCGCAACGCGAACTTCG
1 TCGCAACGCGAACTTCG
74973 ACTATCGCGT
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 102 0.79
42 27 0.21
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (41 bp):
TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
Found at i:77395 original size:20 final size:20
Alignment explanation
Indices: 77343--77395 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
77333 CTAACTGAGA
* *
77343 TATAGATACCTTATCTATGG
1 TATAGATACCCTGTCTATGG
77363 TATAGATACCCTGTCTATGG
1 TATAGATACCCTGTCTATGG
77383 TATAGATACCCTG
1 TATAGATACCCTG
77396 ATAACATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
TATAGATACCCTGTCTATGG
Found at i:77469 original size:66 final size:66
Alignment explanation
Indices: 77399--77523 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 66
77389 TACCCTGATA
*
77399 ACATTCTGGAAATTTTCATCTTC-AGGGGGGTATCGATACCCCCT-ATAGGGTATCGATACTATA
1 ACATTCT-GAAATTTT-ATCTTCAAGAGGGGTATCGATACCCCCTCATAGGGTATCGATACTATA
77462 CAC
64 CAC
* * * *
77465 ACATTCTGTAATTTTTTGTTCAAGAGGGGTATCGATACCCCTTCATAGGGTATCGATAC
1 ACATTCTGAAATTTTATCTTCAAGAGGGGTATCGATACCCCCTCATAGGGTATCGATAC
77524 CCTATGACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 4 0.08
65 26 0.50
66 22 0.42
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (66 bp):
ACATTCTGAAATTTTATCTTCAAGAGGGGTATCGATACCCCCTCATAGGGTATCGATACTATACA
C
Found at i:79549 original size:14 final size:14
Alignment explanation
Indices: 79524--79561 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
79514 ACCATATAAT
79524 TAATACATTTTTCTA
1 TAATA-ATTTTTCTA
79539 TAATAATTTTTCTA
1 TAATAATTTTTCTA
*
79553 TAATCATTT
1 TAATAATTT
79562 ATATAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATAATTTTTCTA
Found at i:81835 original size:22 final size:21
Alignment explanation
Indices: 81789--81835 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
81779 GAGATAAACA
*
81789 TTTA-TCAAATTAAATTTTAG
1 TTTATTCAAATTAAATTTAAG
*
81809 TTTATTCAAATTTAATTTAAG
1 TTTATTCAAATTAAATTTAAG
81830 TATTAT
1 T-TTAT
81836 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTATTCAAATTAAATTTAAG
Found at i:82630 original size:2 final size:2
Alignment explanation
Indices: 82623--82672 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
82613 TAATTATGCG
82623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82665 TA TA TA TA
1 TA TA TA TA
82673 ACTAATTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83118 original size:18 final size:15
Alignment explanation
Indices: 83078--83122 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 15
83068 ATTAATCGAT
83078 TTTAAGGTTTTGTTG
1 TTTAAGGTTTTGTTG
83093 TGTTAAGGTTTTGTCTTG
1 T-TTAAGGTTTTG--TTG
83111 ATTTAAGGTTTT
1 -TTTAAGGTTTT
83123 AAGGTCGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 11 0.42
18 13 0.50
19 1 0.04
ACGTcount: A:0.16, C:0.02, G:0.24, T:0.58
Consensus pattern (15 bp):
TTTAAGGTTTTGTTG
Found at i:83934 original size:30 final size:30
Alignment explanation
Indices: 83898--83961 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
83888 GTTGCAAGAG
**
83898 AAAAACAGAAACTTAATGGATTAAAACAGC
1 AAAAACAGAAACTTAAAAGATTAAAACAGC
*
83928 AAAAACAGAAATTTAAAAGATTAAAACAGC
1 AAAAACAGAAACTTAAAAGATTAAAACAGC
83958 AAAA
1 AAAA
83962 TAAGAAGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (30 bp):
AAAAACAGAAACTTAAAAGATTAAAACAGC
Found at i:85103 original size:2 final size:2
Alignment explanation
Indices: 85096--85156 Score: 78
Period size: 2 Copynumber: 33.0 Consensus size: 2
85086 TAATTGTACA
85096 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
85134 AT AT A- AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
85157 TTATTTCGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
1 5 0.10
2 47 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:85690 original size:68 final size:67
Alignment explanation
Indices: 85576--85756 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 67
85566 ACATAATTCA
* * * * * *
85576 TTTCAAGGGAAACGATCTCAGAGATATTTGTTATTTCATGAGAAACTATCTCTAGGGAAACAAAA
1 TTTCAAGGGAAACAATGTCAAAGAT-TTTG-TGTTTCAAGAGAAACTATCTCCAGGGAAACAAAA
85641 TTTTG
64 -TTTG
* * * * * *
85646 TTTTAAGAGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAAAAACTGTCTCCAGTGAGACAAAA
1 TTTCAAG-G-GAAACAATGTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCCAGGGAAACAAAA
85709 TTTG
64 TTTG
*
85713 TTTCAAGGGAAACAATGTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 TTTCAAGGGAAACAATGTCAAAGATTTTGTGTTTCAAGAGAAAC
85757 ATTTTCAAAG
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
65 3 0.03
66 4 0.04
67 35 0.38
68 27 0.29
69 4 0.04
70 13 0.14
71 3 0.03
72 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (67 bp):
TTTCAAGGGAAACAATGTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCCAGGGAAACAAAATT
TG
Found at i:85742 original size:67 final size:66
Alignment explanation
Indices: 85538--85756 Score: 179
Period size: 67 Copynumber: 3.2 Consensus size: 66
85528 GTTCATATGA
** * * ** * *
85538 TGTTTCAAGAAAAGTTGTCTCAAAAGAGACATAATTCATTTCAAGGGAAACGATCTCAGAGATAT
1 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAT-TCAAAGAT-T
85603 TTG
64 TTG
* * * * * * * * *
85606 TTATTTCATGAGAAACTATCTCTAGGGAAACAAAATTTTGTTTTAAGAGAGATA-AATTCAAAGA
1 -TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAG-G-GAAACAATTCAAAGA
85670 TTTTG
62 TTTTG
* * *
85675 TGTTTCAAGAAAAACTGTCTCCAGTGAGACAAAATTTGTTTCAAGGGAAACAATGTCAAAGGTTT
1 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAT-TCAAAGATTT
85740 TG
65 TG
*
85742 TGTTTCAAGAGAAAC
1 TGTTTCAAGAAAAAC
85757 ATTTTCAAAG
Statistics
Matches: 117, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
65 3 0.03
66 4 0.03
67 35 0.30
68 27 0.23
69 27 0.23
70 15 0.13
71 3 0.03
72 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (66 bp):
TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATTCAAAGATTTT
G
Found at i:85777 original size:26 final size:27
Alignment explanation
Indices: 85722--85800 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 27
85712 GTTTCAAGGG
* *
85722 AAACAATGTCAAAGGTTTTGTGTTTCAAGAG
1 AAACAATTTCAAAGG-TTT-T-TTT-AAGAA
*
85753 AAACATTTTCAAA-GTTTTTTTAAGAA
1 AAACAATTTCAAAGGTTTTTTTAAGAA
85779 AAACAATTTCAAAGGTTTTTTT
1 AAACAATTTCAAAGGTTTTTTT
85801 GTGTTTCAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 16 0.37
27 11 0.26
28 1 0.02
29 3 0.07
30 1 0.02
31 11 0.26
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (27 bp):
AAACAATTTCAAAGGTTTTTTTAAGAA
Found at i:85814 original size:60 final size:63
Alignment explanation
Indices: 85713--85912 Score: 223
Period size: 66 Copynumber: 3.2 Consensus size: 63
85703 ACAAAATTTG
** *
85713 TTTCAAGGGAAACAATGTCAAAGG--TTTTGTGTTTCAAGAGAAACATTTTCAAAG-TTT-T-
1 TTTCAAGAAAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACATTTTCAAAGTTTTGTA
85771 TTT-AAGAAAAACAATTTCAAAGGTTTTTTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TTTCAAGAAAAACAATTTCAAAGG-TTTTTTGTGTTTCAAGAGAAACATTTTCAAA-G--TTTTG
85835 TA
62 TA
* * ** * * *
85837 TTTCAAGAGAAGCAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACAAATTCAAAGATTGGTG
1 TTTCAAGAAAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACATTTTCAAAGTTTTGTA
*
85900 TTTCAAGAGAAAC
1 TTTCAAGAAAAAC
85913 TGTCTCAAGA
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
57 17 0.14
58 3 0.02
60 29 0.24
61 1 0.01
63 16 0.13
64 3 0.02
65 2 0.02
66 32 0.26
67 18 0.15
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (63 bp):
TTTCAAGAAAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACATTTTCAAAGTTTTGTA
Found at i:85841 original size:33 final size:33
Alignment explanation
Indices: 85774--85912 Score: 185
Period size: 33 Copynumber: 4.3 Consensus size: 33
85764 AAGTTTTTTT
*
85774 AAGAAAAACAATTTCAAAGGTTTTTTTGTGTTTC
1 AAGAGAAACAATTTCAAAGG-TTTTTTGTGTTTC
* *
85808 AAGAGAAACATTTTCAAAGGTTTTTTGTATTTC
1 AAGAGAAACAATTTCAAAGGTTTTTTGTGTTTC
*
85841 AAGAGAAGCAATTTCAAAGGTTTTTTGTGTTTC
1 AAGAGAAACAATTTCAAAGGTTTTTTGTGTTTC
* * *
85874 AAGAGAAACAAATTCAAA-G--ATTGGTGTTTC
1 AAGAGAAACAATTTCAAAGGTTTTTTGTGTTTC
85904 AAGAGAAAC
1 AAGAGAAAC
85913 TGTCTCAAGA
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 18 0.19
32 1 0.01
33 58 0.61
34 18 0.19
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.35
Consensus pattern (33 bp):
AAGAGAAACAATTTCAAAGGTTTTTTGTGTTTC
Found at i:85970 original size:36 final size:37
Alignment explanation
Indices: 85898--85988 Score: 166
Period size: 38 Copynumber: 2.5 Consensus size: 37
85888 CAAAGATTGG
85898 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAAATT
85936 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
85972 TGTTTCAAGAGAAACTG
1 TGTTTCAAGAGAAACTG
85989 ATTCAAACAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 23 0.43
38 30 0.57
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
Found at i:86672 original size:23 final size:23
Alignment explanation
Indices: 86654--86712 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
86644 CTCGTATAAA
86654 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
86677 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
86699 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
86713 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:87496 original size:67 final size:67
Alignment explanation
Indices: 87323--87474 Score: 225
Period size: 67 Copynumber: 2.3 Consensus size: 67
87313 TTTTTCTCAT
* *
87323 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
87388 ATGA
64 ATGA
* * * *
87392 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
87456 GA
66 GA
87458 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
87475 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
66 23 0.30
67 42 0.55
69 12 0.16
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:93549 original size:23 final size:23
Alignment explanation
Indices: 93531--93589 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
93521 CTCGTATAAA
93531 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
93554 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
93576 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
93590 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:94373 original size:67 final size:67
Alignment explanation
Indices: 94201--94351 Score: 232
Period size: 67 Copynumber: 2.3 Consensus size: 67
94191 TTTTTCTCAT
* *
94201 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
94266 TGA
65 TGA
* * * *
94269 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
94333 GA
66 GA
94335 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
94352 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 23 0.30
67 42 0.55
68 12 0.16
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:95160 original size:15 final size:15
Alignment explanation
Indices: 95142--95179 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
95132 TGTTTATGTT
*
95142 TCAAGAGAAATTGTC
1 TCAAGAGAAACTGTC
95157 TCAATG-GAAACTGTC
1 TCAA-GAGAAACTGTC
95172 TCAAGAGA
1 TCAAGAGA
95180 GACAATGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (15 bp):
TCAAGAGAAACTGTC
Found at i:96151 original size:32 final size:31
Alignment explanation
Indices: 96107--96191 Score: 73
Period size: 32 Copynumber: 2.6 Consensus size: 31
96097 CATCAGGATA
* *
96107 TTGAATTCCCAAAGATGCCCCAATAT-TCGATG
1 TTGAATT-CCAAAGATGCCCCAACATATAG-TG
* * *
96139 TTGAATCTCCAAAAATTCCCAAACATATAGTG
1 TTGAAT-TCCAAAGATGCCCCAACATATAGTG
*
96171 TTGAATATTCAAAGATGCCCC
1 TTGAAT-TCCAAAGATGCCCC
96192 CATTATTCCT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
32 38 0.93
33 3 0.07
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (31 bp):
TTGAATTCCAAAGATGCCCCAACATATAGTG
Found at i:96379 original size:17 final size:17
Alignment explanation
Indices: 96357--96392 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
96347 AAGAGTTTCG
96357 AAAAAATGTTTAATCAA
1 AAAAAATGTTTAATCAA
96374 AAAAAATGTTTAATCAA
1 AAAAAATGTTTAATCAA
96391 AA
1 AA
96393 GTTTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAAATGTTTAATCAA
Found at i:97300 original size:27 final size:26
Alignment explanation
Indices: 97270--97328 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
97260 CCCTTGTCCC
*
97270 TTTTTCTTTTTGATTTTTGTTCTTTCTT
1 TTTTTCCTTTT-ATTTTTGTTC-TTCTT
*
97298 TTTTTCCTTTTCTTTTTGTTCTTCTT
1 TTTTTCCTTTTATTTTTGTTCTTCTT
97324 TTTTT
1 TTTTT
97329 TGTTTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 10 0.34
27 9 0.31
28 10 0.34
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.80
Consensus pattern (26 bp):
TTTTTCCTTTTATTTTTGTTCTTCTT
Found at i:97312 original size:34 final size:35
Alignment explanation
Indices: 97271--97352 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
97261 CCTTGTCCCT
* *
97271 TTTTCTTTTTGATTTTTGTTCTTTCT-TTTTTTCC
1 TTTTCTTTTTGATTCTTCTTCTTTCTGTTTTTTCC
* *
97305 TTTTCTTTTTG-TTCTTCTTTTTTTTGTTTTTTCC
1 TTTTCTTTTTGATTCTTCTTCTTTCTGTTTTTTCC
97339 TTTT-TGTTTTGATT
1 TTTTCT-TTTTGATT
97353 GAATCTTCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 11 0.27
34 28 0.68
35 2 0.05
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.78
Consensus pattern (35 bp):
TTTTCTTTTTGATTCTTCTTCTTTCTGTTTTTTCC
Found at i:97328 original size:29 final size:30
Alignment explanation
Indices: 97289--97346 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
97279 TTGATTTTTG
97289 TTCTTTCTTTTT-TTCCTTTT-CTTTTTGTTC
1 TTCTTTCTTTTTGTT--TTTTCCTTTTTGTTC
97319 TTCTTT-TTTTTGTTTTTTCCTTTTTGTT
1 TTCTTTCTTTTTGTTTTTTCCTTTTTGTT
97347 TTGATTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.15
29 14 0.54
30 8 0.31
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (30 bp):
TTCTTTCTTTTTGTTTTTTCCTTTTTGTTC
Found at i:97335 original size:27 final size:29
Alignment explanation
Indices: 97270--97346 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 29
97260 CCCTTGTCCC
**
97270 TTTTTCT-TTTTGATTTTTGTTCTTTCTT
1 TTTTTCTCTTTTCCTTTTTGTTCTTTCTT
97298 TTTTTC-CTTTT-CTTTTTGTTC-TTCTTT
1 TTTTTCTCTTTTCCTTTTTGTTCTTTC-TT
* *
97325 TTTTTGTTTTTTCCTTTTTGTT
1 TTTTTCTCTTTTCCTTTTTGTT
97347 TTGATTGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.07
27 16 0.38
28 14 0.33
29 9 0.21
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.79
Consensus pattern (29 bp):
TTTTTCTCTTTTCCTTTTTGTTCTTTCTT
Found at i:97347 original size:14 final size:13
Alignment explanation
Indices: 97269--97348 Score: 63
Period size: 14 Copynumber: 5.8 Consensus size: 13
97259 TCCCTTGTCC
* *
97269 CTTTTTCTTTTTG
1 CTTTTTGTTTTTT
* *
97282 ATTTTTGTTCTTT
1 CTTTTTGTTTTTT
97295 CTTTTT-TTCCTTTT
1 CTTTTTGTT--TTTT
97309 CTTTTTGTTCTTCTT
1 CTTTTTGTT-TT-TT
*
97324 TTTTTTGTTTTTT
1 CTTTTTGTTTTTT
97337 CCTTTTTGTTTT
1 -CTTTTTGTTTT
97349 GATTGAATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.04
13 16 0.30
14 24 0.44
15 12 0.22
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (13 bp):
CTTTTTGTTTTTT
Found at i:100471 original size:24 final size:24
Alignment explanation
Indices: 100443--100491 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
100433 AACATAAAAT
* *
100443 AATTGGATGAAACAAAAAAAATGA
1 AATTGAATAAAACAAAAAAAATGA
* *
100467 AATTGAATAAAATAAAATAAATGA
1 AATTGAATAAAACAAAAAAAATGA
100491 A
1 A
100492 GATAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.20
Consensus pattern (24 bp):
AATTGAATAAAACAAAAAAAATGA
Found at i:100601 original size:22 final size:20
Alignment explanation
Indices: 100571--100703 Score: 87
Period size: 21 Copynumber: 6.4 Consensus size: 20
100561 GCAAAGAAAC
100571 TAAA-AATATAATGAAAATAAA
1 TAAATAATATAAT-AAAAT-AA
100592 TAAATAATATAAATAAAATAA
1 TAAATAATAT-AATAAAATAA
*
100613 TAAATATATATATATATATATATA
1 TAAATA-ATATA-ATA-AAATA-A
* *
100637 TATATAA-AT-ATAAAAATGTA
1 TAAATAATATAAT-AAAAT-AA
**
100657 TGTATAATATAATAAAATAA
1 TAAATAATATAATAAAATAA
*
100677 TAAAT-A-GTAATAATAATAA
1 TAAATAATATAATAA-AATAA
100696 TAAATAAT
1 TAAATAAT
100704 GAAAATAAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
18 6 0.07
19 11 0.12
20 17 0.19
21 21 0.23
22 21 0.23
23 8 0.09
24 6 0.07
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAATAATATAATAAAATAA
Found at i:100612 original size:14 final size:13
Alignment explanation
Indices: 100587--100646 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
100577 TATAATGAAA
100587 ATAAATAAATAAT
1 ATAAATAAATAAT
100600 ATAAAT-AA-AAT
1 ATAAATAAATAAT
*
100611 AATAAATATATATAT
1 -ATAAATAAATA-AT
* *
100626 ATATATATATATAT
1 ATAAATAAATA-AT
100640 ATAAATA
1 ATAAATA
100647 TAAAAATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 3 0.08
12 8 0.20
13 7 0.17
14 20 0.50
15 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:100623 original size:2 final size:2
Alignment explanation
Indices: 100616--100648 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
100606 AAAATAATAA
*
100616 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100649 AAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:100647 original size:8 final size:8
Alignment explanation
Indices: 100585--100653 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
100575 AATATAATGA
*
100585 AAATAAAT
1 AAATATAT
100593 AAATAATAT
1 AAAT-ATAT
*
100602 AAATA-AA
1 AAATATAT
*
100609 ATAATAAAT
1 A-AATATAT
*
100618 ATATATAT
1 AAATATAT
*
100626 ATATATAT
1 AAATATAT
*
100634 ATATATAT
1 AAATATAT
*
100642 AAATATAA
1 AAATATAT
100650 AAAT
1 AAAT
100654 GTATGTATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
7 2 0.04
8 40 0.78
9 9 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATATAT
Found at i:100649 original size:6 final size:6
Alignment explanation
Indices: 100587--100763 Score: 59
Period size: 6 Copynumber: 29.0 Consensus size: 6
100577 TATAATGAAA
* * *
100587 ATAAAT AAATAAT ATAAAT A-AAAT AATAAAT AT--AT ATATAT ATATAT
1 ATAAAT ATA-AAT ATAAAT ATAAAT -ATAAAT ATAAAT ATAAAT ATAAAT
* * ** *
100634 ATATAT ATAAAT ATAAAA ATGTAT GTATAAT AT-AAT A-AAAT AATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATA-AAT ATAAAT ATAAAT -ATAAAT
* *
100682 AGT-AAT A-ATAAT AATAAAT AATGAAA- ATAAAT ATACAT AT-AAT ATTAACT
1 A-TAAAT ATA-AAT -ATAAAT -AT-AAAT ATAAAT ATAAAT ATAAAT A-TAAAT
* *
100732 AAAAAT AGTAATAAT AGAAAT ATAAAT A-AAAT
1 ATAAAT A-T-A-AAT ATAAAT ATAAAT ATAAAT
100764 GAAGTAAGAA
Statistics
Matches: 131, Mismatches: 19, Indels: 43
0.68 0.10 0.22
Matches are distributed among these distances:
4 4 0.03
5 21 0.16
6 69 0.53
7 28 0.21
8 5 0.04
9 4 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:100678 original size:3 final size:3
Alignment explanation
Indices: 100660--100747 Score: 51
Period size: 3 Copynumber: 29.0 Consensus size: 3
100650 AAATGTATGT
*
100660 ATA AT- ATA ATA A-A ATA ATAA ATA GTA ATA ATA ATA ATAA ATA ATGA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA AT-A
* * *
100706 A-A ATA A-A TATA CAT- ATA ATA TTA ACTA AAA ATA GTA ATA ATA
1 ATA ATA ATA -ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
100748 GAAATATAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
2 9 0.14
3 43 0.65
4 14 0.21
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:100678 original size:13 final size:13
Alignment explanation
Indices: 100660--100725 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
100650 AAATGTATGT
100660 ATAATATAATAAA
1 ATAATATAATAAA
*
100673 ATAATA-AATAGTA
1 ATAATATAATA-AA
100686 ATAATAATAAT-AA
1 ATAAT-ATAATAAA
*
100699 ATAATGAAAATAAA
1 ATAAT-ATAATAAA
100713 TATACATATAATA
1 -ATA-ATATAATA
100726 TTAACTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
12 4 0.10
13 22 0.52
14 3 0.07
15 11 0.26
16 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (13 bp):
ATAATATAATAAA
Found at i:100780 original size:2 final size:2
Alignment explanation
Indices: 100773--100797 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100763 TGAAGTAAGA
100773 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
100798 ACGTTAGGAA
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:101460 original size:37 final size:36
Alignment explanation
Indices: 101407--101508 Score: 136
Period size: 34 Copynumber: 2.9 Consensus size: 36
101397 ATGCTTATGG
* * *
101407 ATCCTATCTTTGGGAGTTTGAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AACTCT
*
101444 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAACTCT
*
101478 ATCTTATTTTTAGGAGTTTGAATCCTAGTAA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAA
101509 GATGAAAAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
34 31 0.53
35 1 0.02
36 2 0.03
37 24 0.41
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAACTCT
Found at i:101998 original size:24 final size:24
Alignment explanation
Indices: 101966--102012 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
101956 CATGCATTAT
101966 ACATGTATCATCCTTACACGTATG
1 ACATGTATCATCCTTACACGTATG
* * *
101990 ACATTTATCATCTTTACTCGTAT
1 ACATGTATCATCCTTACACGTAT
102013 CTTTCTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (24 bp):
ACATGTATCATCCTTACACGTATG
Found at i:102164 original size:25 final size:22
Alignment explanation
Indices: 102134--102182 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
102124 AATTTTTTTG
102134 TGTTGCGAGAGTTTGAAAAACGTGT
1 TGTTGCGAGAG--TGAAAAA-GTGT
*
102159 TGTTGCGATAGTGAAAAAGTGT
1 TGTTGCGAGAGTGAAAAAGTGT
102181 TG
1 TG
102183 CGATAGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
25 10 0.43
ACGTcount: A:0.29, C:0.06, G:0.33, T:0.33
Consensus pattern (22 bp):
TGTTGCGAGAGTGAAAAAGTGT
Found at i:102183 original size:19 final size:19
Alignment explanation
Indices: 102159--102195 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
102149 AAAAACGTGT
102159 TGTTGCGATAGTGAAAAAG
1 TGTTGCGATAGTGAAAAAG
102178 TGTTGCGATAGTGAAAAA
1 TGTTGCGATAGTGAAAAA
102196 TCTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (19 bp):
TGTTGCGATAGTGAAAAAG
Found at i:102711 original size:21 final size:20
Alignment explanation
Indices: 102687--102745 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
102677 TATTCGCATT
102687 GCGATTTTTTAAAATCGCAAC
1 GCGA-TTTTTAAAATCGCAAC
** *
102708 GCGAATTTGGAAAATCGCAAT
1 GCG-ATTTTTAAAATCGCAAC
*
102729 GCGATATTTAAAATCGC
1 GCGATTTTTAAAATCGC
102746 GTTGCGAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 11 0.35
21 19 0.61
22 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (20 bp):
GCGATTTTTAAAATCGCAAC
Found at i:102751 original size:20 final size:19
Alignment explanation
Indices: 102636--102756 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 19
102626 ACGAATTTGG
* *
102636 AAAATCGCATTGCGATAGTC
1 AAAATCGCATTGCGA-ATTT
* *
102656 AGAATCGCGTTGCG-ATTT
1 AAAATCGCATTGCGAATTT
* *
102674 ACATATTCGCATTGCGATTTTTT
1 A-A-AATCGCATTGCGA--ATTT
**
102697 AAAATCGCAACGCGAATTT
1 AAAATCGCATTGCGAATTT
*
102716 GGAAAATCGCAATGCGATATTT
1 --AAAATCGCATTGCGA-ATTT
*
102738 AAAATCGCGTTGCGAATTT
1 AAAATCGCATTGCGAATTT
102757 GGAAACTGAT
Statistics
Matches: 78, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
18 3 0.04
19 7 0.09
20 35 0.45
21 24 0.31
22 5 0.06
23 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (19 bp):
AAAATCGCATTGCGAATTT
Found at i:102785 original size:40 final size:41
Alignment explanation
Indices: 102708--102913 Score: 129
Period size: 40 Copynumber: 5.1 Consensus size: 41
102698 AAATCGCAAC
* * * *
102708 GCGAATTTGGAAAATCGCA-ATGCGATATTTAAAATCGCGTT
1 GCGAATTTGGAAACTCG-ATTTGCGATACTGAAAATCGCGTT
* *
102749 GCGAATTTGGAAACT-GATTTGCGATACTGGAGATCGCGTT
1 GCGAATTTGGAAACTCGATTTGCGATACTGAAAATCGCGTT
* * ** * * ***
102789 GCG-ATTTAGAGA-TCGCGTTGTGATTTTCT-AAAATCGCAAC
1 GCGAATTTGGAAACTCGATTTGCGA--TACTGAAAATCGCGTT
* * * *
102829 GCGAATTTGGAAAATCGCA-ATGCGATAGTCAAAATCGCGTT
1 GCGAATTTGGAAACTCG-ATTTGCGATACTGAAAATCGCGTT
* * *
102870 GCGAATCTGGAAACT-GATTTGCGATACTGGAGATCGCGTT
1 GCGAATTTGGAAACTCGATTTGCGATACTGAAAATCGCGTT
102910 GCGA
1 GCGA
102914 TTTAGAGATC
Statistics
Matches: 122, Mismatches: 34, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 54 0.44
41 45 0.37
42 7 0.06
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (41 bp):
GCGAATTTGGAAACTCGATTTGCGATACTGAAAATCGCGTT
Found at i:102790 original size:20 final size:19
Alignment explanation
Indices: 102767--102808 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
102757 GGAAACTGAT
*
102767 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCG
*
102787 TTGCGATTTAGAGATCGCG
1 TTGCGATCTAGAGATCGCG
102806 TTG
1 TTG
102809 TGATTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCG
Found at i:102802 original size:19 final size:19
Alignment explanation
Indices: 102778--102814 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102768 TGCGATACTG
102778 GAGATCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
*
102797 GAGATCGCGTTGTGATTT
1 GAGATCGCGTTGCGATTT
102815 TCTAAAATCG
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:0.19, C:0.14, G:0.32, T:0.35
Consensus pattern (19 bp):
GAGATCGCGTTGCGATTTA
Found at i:102843 original size:121 final size:121
Alignment explanation
Indices: 102659--102936 Score: 475
Period size: 121 Copynumber: 2.3 Consensus size: 121
102649 GATAGTCAGA
* * *
102659 ATCGCGTTGCGATTTACATATTCGCATTGCGATTTTTTAAAATCGCAACGCGAATTTGGAAAATC
1 ATCGCGTTGCGATTTAGAGA-TCGCATTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATC
* * *
102724 GCAATGCGATATTTAAAATCGCGTTGCGAATTTGGAAACTGATTTGCGATACTGGAG
65 GCAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
* *
102781 ATCGCGTTGCGATTTAGAGATCGCGTTGTGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCG
1 ATCGCGTTGCGATTTAGAGATCGCATTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCG
102846 CAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
66 CAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
102902 ATCGCGTTGCGATTTAGAGATCGCATTGCGATTTT
1 ATCGCGTTGCGATTTAGAGATCGCATTGCGATTTT
102937 GTTGGTCATT
Statistics
Matches: 146, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
121 128 0.88
122 18 0.12
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (121 bp):
ATCGCGTTGCGATTTAGAGATCGCATTGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCG
CAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
Found at i:102911 original size:20 final size:19
Alignment explanation
Indices: 102888--102933 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
102878 GGAAACTGAT
* *
102888 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
102908 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
102927 TTGCGAT
1 TTGCGAT
102934 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:102923 original size:19 final size:19
Alignment explanation
Indices: 102899--102935 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102889 TGCGATACTG
*
102899 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
102918 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
102936 TGTTGGTCAT
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:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:103244 original size:21 final size:20
Alignment explanation
Indices: 103158--103315 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
103148 AAATGACCAA
**
103158 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
103177 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
103197 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
103217 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
103238 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
103259 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
103279 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
103300 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
103316 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:103308 original size:20 final size:20
Alignment explanation
Indices: 103283--103476 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
103273 GATTTTCAAT
* *
103283 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
103303 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
103323 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
103343 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
103363 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
103383 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
103403 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
103423 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
103444 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
103464 AATCGCAACGCGA
1 AATCGCAACGCGA
103477 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:103328 original size:40 final size:39
Alignment explanation
Indices: 103283--103476 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
103273 GATTTTCAAT
* ** *
103283 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
103323 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
103363 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
103403 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
103444 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
103477 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:103366 original size:60 final size:60
Alignment explanation
Indices: 103283--103475 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
103273 GATTTTCAAT
* ** * *
103283 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
103343 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
103403 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
103464 AATCGCAACGCG
1 AATCGCAACGCG
103476 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:103894 original size:33 final size:33
Alignment explanation
Indices: 103855--103925 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
103845 TTCACTTAGA
*
103855 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
103888 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
103921 TTTCA
1 TTTCA
103926 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:104065 original size:14 final size:14
Alignment explanation
Indices: 104046--104100 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
104036 AGAATGACTG
104046 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
104060 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
104079 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
104093 TCGCAACG
1 TCGCAACG
104101 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:104083 original size:33 final size:33
Alignment explanation
Indices: 104046--104116 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
104036 AGAATGACTG
**
104046 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
104079 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
104112 TCGCA
1 TCGCA
104117 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:104134 original size:19 final size:19
Alignment explanation
Indices: 104112--104209 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
104102 GAAACCAAAA
*
104112 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
104131 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
104145 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
104164 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
104178 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
104197 TCGCGTTGCGATT
1 TCGCGTTGCGATT
104210 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:104153 original size:14 final size:14
Alignment explanation
Indices: 104134--104223 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
104124 TTTCATTTCG
104134 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
104148 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
104167 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
104181 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
104198 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
104214 CGTTGCGATT
1 CGTTGCGATT
104224 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:104159 original size:33 final size:33
Alignment explanation
Indices: 104117--104231 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
104107 CAAAATCGCA
104117 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
104150 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
104183 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
104216 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
104232 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:106456 original size:14 final size:14
Alignment explanation
Indices: 106437--106472 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
106427 TTGCGATAAT
106437 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
106451 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
106465 TGATTTGT
1 TGATTTGT
106473 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:106646 original size:20 final size:19
Alignment explanation
Indices: 106578--106660 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
106568 CAAAATGACT
106578 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
106597 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
106611 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
106630 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
106650 ATCGCAATGCG
1 ATCGCAATGCG
106661 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:106713 original size:19 final size:19
Alignment explanation
Indices: 106689--106943 Score: 325
Period size: 19 Copynumber: 14.4 Consensus size: 19
106679 GATTATCTCG
106689 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
106708 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
106727 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
106741 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
106760 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
106779 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
106798 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
106817 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
106831 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
106850 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
106869 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
106883 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
106903 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
106917 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
106936 TTGCGATT
1 TTGCGATT
106944 GTATTTTCCG
Statistics
Matches: 209, Mismatches: 6, Indels: 42
0.81 0.02 0.16
Matches are distributed among these distances:
14 29 0.14
16 24 0.11
17 21 0.10
18 3 0.01
19 120 0.57
20 12 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:106729 original size:52 final size:52
Alignment explanation
Indices: 106667--106876 Score: 255
Period size: 52 Copynumber: 3.9 Consensus size: 52
106657 TGCGTTTATA
106667 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
106719 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
106771 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
106830 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
106877 CTCTCGTTGC
Statistics
Matches: 141, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
52 91 0.65
54 4 0.03
55 5 0.04
56 2 0.01
57 27 0.19
58 3 0.02
59 9 0.06
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:106794 original size:90 final size:90
Alignment explanation
Indices: 106667--106943 Score: 398
Period size: 90 Copynumber: 3.2 Consensus size: 90
106657 TGCGTTTATA
*
106667 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
106727 TTGCGATTCTTTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
106752 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
106817 TTGCGATTCTCTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
106842 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGC
*
106902 ATTGCGA-T-TTTCATGTTGGGATTTTC
65 ATTGCGATTCTTTC--GTTGCGATTTTC
*
106928 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
106944 GTATTTTCCG
Statistics
Matches: 178, Mismatches: 6, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
84 3 0.02
85 30 0.17
86 36 0.20
87 6 0.03
88 8 0.04
90 95 0.53
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (90 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
TTGCGATTCTTTCGTTGCGATTTTC
Found at i:106877 original size:52 final size:55
Alignment explanation
Indices: 106689--106915 Score: 314
Period size: 52 Copynumber: 4.2 Consensus size: 55
106679 GATTATCTCG
*
106689 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATTTCGCA
*
106741 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATTTCGCA
106798 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATTTCGCA
106850 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATTT-CGCA
106903 TTGCGATTTTCAT
1 TTGCGATTTTCAT
106916 GTTGGGATTT
Statistics
Matches: 168, Mismatches: 1, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
52 111 0.66
53 17 0.10
54 7 0.04
55 8 0.05
57 25 0.15
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (55 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATTTCGCA
Found at i:106887 original size:33 final size:33
Alignment explanation
Indices: 106708--106943 Score: 210
Period size: 33 Copynumber: 6.8 Consensus size: 33
106698 TCATTTCGCA
*
106708 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
106741 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
106777 CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
106815 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
106850 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
106883 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
106917 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
106944 GTATTTTCCG
Statistics
Matches: 176, Mismatches: 14, Indels: 26
0.81 0.06 0.12
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 62 0.35
34 29 0.16
35 6 0.03
36 5 0.03
37 2 0.01
38 46 0.26
39 3 0.02
40 9 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:109450 original size:24 final size:24
Alignment explanation
Indices: 109416--109462 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
109406 CTGAAACATC
109416 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
109440 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
109463 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:110167 original size:20 final size:20
Alignment explanation
Indices: 110139--110528 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
110129 AAATTTCAGT
* * * *
110139 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
110159 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
110179 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
110199 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
110219 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
110239 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
110259 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
110279 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
110299 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
110319 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
110339 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
110359 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
110380 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
110400 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
110420 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
110440 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
110460 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
110480 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
110500 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
110520 GTTGCGATT
1 GTTGCGATT
110529 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:112225 original size:220 final size:216
Alignment explanation
Indices: 111856--112281 Score: 719
Period size: 220 Copynumber: 2.0 Consensus size: 216
111846 CTGACCCGAA
* *
111856 ATATTTATCATCCACCTGACTCCGATCCAACCTAAATTTTTAAAGTATAAAGCTGATCTGACTCG
1 ATATATATCATCCACCTGACTCCGATCCAACCTAAATTTTTAAAGTATAAAGCTGATCTGACTCC
111921 ACTCGATAAAAAAATAAGGATTTAATTAAAAAACTAATAAATTTTTTAAGAACATCACATTATTA
66 ACTCGATAAAAAAATAAGGATTTAATTAAAAAACTAATAAATTTTTTAAGAACATCACATTATTA
* *
111986 TCATCGGGTCAGAGTTTTTCACCCTTCACCCGAACTGACCCGATCTAACCTTATCCCTTAAAACT
131 TCATCGGGTCAAAGTTTTTCACCCTTCACCCGAACTGACCCGACCTAACCTTATCCCTTAAAACT
112051 TCGACCCGACCCAAAATATAT
196 TCGACCCGACCCAAAATATAT
* *
112072 ATATATATCATCCACCTGACTCCGATCCAACCTAAATTTTTAGAGTATAAATCTGATCTGAC-CC
1 ATATATATCATCCACCTGACTCCGATCCAACCTAAATTTTTAAAGTATAAAGCTGATCTGACTCC
112136 ACCTCGATAAAAAAATAAGGAATATTTAATTAAAAAAACTAATAAATTTTTTAAGAACATCACAT
66 A-CTCGATAAAAAAATAAGG---ATTTAATT-AAAAAACTAATAAATTTTTTAAGAACATCACAT
* *
112201 TATTATCATCGGGTCAAAGTTTTTCACCCTTCACCCGAATTGACCCGACCTAACCTTATCTCTTA
126 TATTATCATCGGGTCAAAGTTTTTCACCCTTCACCCGAACTGACCCGACCTAACCTTATCCCTTA
*
112266 AAACTTCGACCTGACC
191 AAACTTCGACCCGACC
112282 TGATTTAAAA
Statistics
Matches: 196, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
215 2 0.01
216 77 0.39
219 8 0.04
220 109 0.56
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (216 bp):
ATATATATCATCCACCTGACTCCGATCCAACCTAAATTTTTAAAGTATAAAGCTGATCTGACTCC
ACTCGATAAAAAAATAAGGATTTAATTAAAAAACTAATAAATTTTTTAAGAACATCACATTATTA
TCATCGGGTCAAAGTTTTTCACCCTTCACCCGAACTGACCCGACCTAACCTTATCCCTTAAAACT
TCGACCCGACCCAAAATATAT
Found at i:114969 original size:3 final size:3
Alignment explanation
Indices: 114963--115032 Score: 88
Period size: 3 Copynumber: 23.3 Consensus size: 3
114953 TTAAATAATA
*
114963 TAT TAT TAT TAT TAT TAT TAT TAT AAT TACT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
115008 TAT TAT TAA TAC TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
115033 TTTGCAGGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:120512 original size:106 final size:106
Alignment explanation
Indices: 120296--121101 Score: 1270
Period size: 106 Copynumber: 7.6 Consensus size: 106
120286 ATATCATGCC
* * * ** * * *
120296 ACTCGAGACAACACAAGTTCAACTTCACGAAGAAGGGACTACTGGTTGTCAAAAAAAATAACTGC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC--AACAAACAACTTC
120361 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
120404 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
120469 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
120510 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
120575 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
120616 ACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
120681 AATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
120722 ACTCCAGACAACGTATGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
120787 AATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
120828 ACTCTAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
120893 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
120934 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
120999 AATTTCAGAGTCAATTTCAACTTCATAGCAAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
121040 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
121102 TCAACTTCAC
Statistics
Matches: 658, Mismatches: 40, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
106 613 0.93
108 45 0.07
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:121334 original size:84 final size:83
Alignment explanation
Indices: 121145--121405 Score: 353
Period size: 84 Copynumber: 3.1 Consensus size: 83
121135 AGGCTATCTG
** * * *
121145 CCAAAGACCCCCGAGTTCGATTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
*
121210 AGAAGGGTTATCTT-CCAA
66 AGAAGGGCTAT-TTGCCAA
* * * * *
121228 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAACATAGCTCAAGGC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
121293 AAGAAGGGCTATTTGCCAA
66 -AGAAGGGCTATTTGCCAA
* *
121312 CCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG-T
* *
121377 GAGAAGGGCTATCTGCCAA
65 CAGAAGGGCTATTTGCCAA
121396 CCAAAGACCT
1 CCAAAGACCT
121406 GATGAGTTCG
Statistics
Matches: 155, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
83 57 0.37
84 98 0.63
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (83 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
AGAAGGGCTATTTGCCAA
Found at i:121656 original size:3 final size:3
Alignment explanation
Indices: 121643--121725 Score: 114
Period size: 3 Copynumber: 27.3 Consensus size: 3
121633 ACTTAAATAA
121643 TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * *
121690 TAT TAT TAT TAT TA- TAT TAA TAC TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
121726 TTTGCAGGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
2 2 0.03
3 64 0.89
4 6 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:125997 original size:20 final size:21
Alignment explanation
Indices: 125972--126019 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
125962 CAATTATAAA
*
125972 AAAATTTAAAAAT-TATTTTT
1 AAAATTTAAAAATGTAGTTTT
*
125992 AAAA-TTAAAATTGTAGTTTT
1 AAAATTTAAAAATGTAGTTTT
126012 AAAATTTA
1 AAAATTTA
126020 TTTGTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 14 0.58
21 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
AAAATTTAAAAATGTAGTTTT
Found at i:127825 original size:244 final size:242
Alignment explanation
Indices: 127393--128256 Score: 1139
Period size: 244 Copynumber: 3.6 Consensus size: 242
127383 CTTTGTCCAC
* * * *
127393 ATTATGTTTTTTTGTTCTCTTCTTCACTGAATGAGGAAGGCTGTTCATTCTGTGGCAAATATTAC
1 ATTATG-TTTTTTGTTCTCCTCTTCACTGAATGAGGAAGACTATTCATTTTGTGGCAAATATTAC
* * *
127458 ACACCTATTTACCTTTATGCCTGCCTGTGTTCATAACAGTTTTGGTTTGTGGTCATTGATATGCT
65 ATACCTATTTACCTTTATGCC-GTCTTTGTTCATAACAGTTTTGGTTTGTGGTCATTGATATGCT
* *
127523 TACACTCATCATCATGCATGTTCCTTGTTATTAATGTGCTTATGGACGGTCTTGTGCTGATTAGA
129 TACACTCATCATCTTGCATGTTCCTTGTTATTAATGTGCTTATGGACGGTCCTGTGCTGATTAGA
* * *
127588 TTGTTTTCCTTCAGCACATAACATATTCATAAGCTACATGTATGGCCGT
194 TTGTTCTCCATCAGCACATAACATATTCATAAGCTACATGTATGGCCAT
* * *
127637 -TTATGTTCTTTTGTTTTCCTCTTCACTGAATGAGGAACACTATCCATTTTGTGGCAAATATTAC
1 ATTATGTT-TTTTGTTCTCCTCTTCACTGAATGAGGAAGACTATTCATTTTGTGGCAAATATTAC
127701 ATACCTATTTACCTTTATGCCGTCTTCCTGTTCATAACAGTTTTGGTTTGTGGTCATTGATATGC
65 ATACCTATTTACCTTTATGCCGTCTT--TGTTCATAACAGTTTTGGTTTGTGGTCATTGATATGC
* *
127766 TTACACACATCATCTTGCATGTTCTTTGTTATTAATGTGCTTATGGACGGTCCTGTGCTGATTAG
128 TTACACTCATCATCTTGCATGTTCCTTGTTATTAATGTGCTTATGGACGGTCCTGTGCTGATTAG
*
127831 ATTGTTCTCCATCAGCACATAACATATTCATAAGCTACACGTATGGCCAT
193 ATTGTTCTCCATCAGCACATAACATATTCATAAGCTACATGTATGGCCAT
*
127881 ATTATGTTTTTTGTTCTCCTCTTAACTGAATGAGGAAGACTATTCATTCTT-TGGCAAATATTAC
1 ATTATGTTTTTTGTTCTCCTCTTCACTGAATGAGGAAGACTATTCATT-TTGTGGCAAATATTAC
* ** * *
127945 ATACCTGTTTACCTTTACACCTGTCTGTT-TTCCATAGCAGTTTT-GTTTGGTGGTCATTGATGT
65 ATACCTATTTACCTTTATGCC-GTCT-TTGTT-CATAACAGTTTTGGTTT-GTGGTCATTGATAT
* *
128008 GCTTACACTCATCATCTTGTATGTTCCTTGTTCTTAATGTGCTTATGGACGGTCCTGTGCTGATT
126 GCTTACACTCATCATCTTGCATGTTCCTTGTTATTAATGTGCTTATGGACGGTCCTGTGCTGATT
* *
128073 AGATTGTTCTCCGTCAGCACATAACATATTCATAAGCTACATATATGGCCAT
191 AGATTGTTCTCCATCAGCACATAACATATTCATAAGCTACATGTATGGCCAT
* *
128125 ATCCCATATTTTTTTTGTTCTCCTC--CACTGAATGAGGAAGA-TCATTCATTCTT-TGGCAAAA
1 AT----TATGTTTTTTGTTCTCCTCTTCACTGAATGAGGAAGACT-ATTCATT-TTGTGGCAAAT
* * * *
128186 ATTCCATACCTATTTA----TA--CCTGTCTGTT-TCCATAGCAGTTTT-GTTTGGTGGTCATTA
60 ATTACATACCTATTTACCTTTATGCC-GTCT-TTGTTCATAACAGTTTTGGTTT-GTGGTCATTG
128243 ATATGCTTACACTC
122 ATATGCTTACACTC
128257 TTTCTCTGAT
Statistics
Matches: 564, Mismatches: 42, Indels: 33
0.88 0.07 0.05
Matches are distributed among these distances:
239 39 0.07
240 11 0.02
242 7 0.01
243 80 0.14
244 348 0.62
245 14 0.02
246 47 0.08
248 18 0.03
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (242 bp):
ATTATGTTTTTTGTTCTCCTCTTCACTGAATGAGGAAGACTATTCATTTTGTGGCAAATATTACA
TACCTATTTACCTTTATGCCGTCTTTGTTCATAACAGTTTTGGTTTGTGGTCATTGATATGCTTA
CACTCATCATCTTGCATGTTCCTTGTTATTAATGTGCTTATGGACGGTCCTGTGCTGATTAGATT
GTTCTCCATCAGCACATAACATATTCATAAGCTACATGTATGGCCAT
Done.