Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008373.1 Hibiscus syriacus cultivar Beakdansim tig00111129_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: 1027749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:720919 original size:15 final size:15
Alignment explanation
Indices: 720901--720946 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
720891 TCTAGATGAC
720901 TAGTGTGAAAACGAT
1 TAGTGTGAAAACGAT
720916 TAGTGTGAAAACGAT
1 TAGTGTGAAAACGAT
720931 TAGTGTGAAAACGAT
1 TAGTGTGAAAACGAT
720946 T
1 T
720947 GTACTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (15 bp):
TAGTGTGAAAACGAT
Found at i:725569 original size:14 final size:14
Alignment explanation
Indices: 725550--725580 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
725540 AAAATTCATG
*
725550 AAAAAATAATAATA
1 AAAAAATAAAAATA
725564 AAAAAATAAAAATA
1 AAAAAATAAAAATA
725578 AAA
1 AAA
725581 TAATGTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:725710 original size:5 final size:5
Alignment explanation
Indices: 725700--725795 Score: 85
Period size: 5 Copynumber: 19.6 Consensus size: 5
725690 ATAACTAAAG
* * *
725700 AATAA AATAA AAGAA AAT-- AATAA AAGAA AATAA AGTAA AATAGAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT--AA AATAA
* *
725750 AACAA AAT-- AATAA AATAA AAT-A AATAAA AATAA AATAA AACAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AAT
725796 GAAGGGAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
3 6 0.08
4 4 0.05
5 54 0.74
6 4 0.05
7 5 0.07
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:725712 original size:13 final size:13
Alignment explanation
Indices: 725696--725784 Score: 59
Period size: 13 Copynumber: 7.2 Consensus size: 13
725686 GAAAATAACT
725696 AAAGAATAAAATA
1 AAAGAATAAAATA
725709 AAAGAA-AATAATA
1 AAAGAATAA-AATA
725722 AAAG---AAAAT-
1 AAAGAATAAAATA
725731 AAAG--TAAAATA
1 AAAGAATAAAATA
* *
725742 GAA-AATAAAACA
1 AAAGAATAAAATA
*
725754 AAATAATAAAATA
1 AAAGAATAAAATA
*
725767 AAATAAATAAAAATA
1 AAA-GAAT-AAAATA
725782 AAA
1 AAA
725785 TAAAACAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.06
10 8 0.13
11 4 0.06
12 10 0.16
13 25 0.40
14 3 0.05
15 9 0.14
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.16
Consensus pattern (13 bp):
AAAGAATAAAATA
Found at i:725746 original size:17 final size:17
Alignment explanation
Indices: 725700--725789 Score: 89
Period size: 17 Copynumber: 5.4 Consensus size: 17
725690 ATAACTAAAG
*
725700 AATAAAAT--AAAAGAA
1 AATAAAATAGAAAATAA
*
725715 AATAATAAAAGAAAATAA
1 AATAA-AATAGAAAATAA
*
725733 AGTAAAATAGAAAATAA
1 AATAAAATAGAAAATAA
* *
725750 AACAAAATAATAAAATAA
1 AATAAAAT-AGAAAATAA
725768 AAT-AAATA-AAAATAA
1 AATAAAATAGAAAATAA
725783 AATAAAA
1 AATAAAA
725790 CAAAATGAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
15 15 0.24
16 6 0.10
17 21 0.34
18 20 0.32
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (17 bp):
AATAAAATAGAAAATAA
Found at i:725757 original size:40 final size:38
Alignment explanation
Indices: 725684--725795 Score: 152
Period size: 40 Copynumber: 2.9 Consensus size: 38
725674 TAAAAACCCT
* * *
725684 AAGAAAATAACTAAAGAATAAAATAAAAGAAAATAATAA
1 AAGAAAATAAATAAA-AAGAAAATAAAACAAAATAATAA
725723 AAGAAAATAAAGTAAAATAGAAAATAAAACAAAATAATAA
1 AAGAAAATAAA-TAAAA-AGAAAATAAAACAAAATAATAA
* *
725763 AATAAAATAAATAAAAATAAAATAAAACAAAAT
1 AAGAAAATAAATAAAAAGAAAATAAAACAAAAT
725796 GAAGGGAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
38 16 0.24
39 16 0.24
40 34 0.52
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (38 bp):
AAGAAAATAAATAAAAAGAAAATAAAACAAAATAATAA
Found at i:726104 original size:11 final size:10
Alignment explanation
Indices: 726090--726159 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 10
726080 GTATAGTATT
726090 AAATAAGTAAA
1 AAATAA-TAAA
726101 AAATAA-AATA
1 AAATAATAA-A
726111 AAATAAGATAAA
1 AAAT-A-ATAAA
726123 ACAATGAATAAA
1 A-AAT-AATAAA
726135 TAAATAATAAA
1 -AAATAATAAA
726146 TAAATAAATAAA
1 -AAAT-AATAAA
726158 AA
1 AA
726160 TCCAAACAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
11 20 0.39
12 17 0.33
13 7 0.14
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (10 bp):
AAATAATAAA
Found at i:726138 original size:4 final size:4
Alignment explanation
Indices: 726089--726157 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
726079 AGTATAGTAT
* *
726089 TAAA TAAG TAAA -AAA TAAAA TAAAA TAAGA TAAA -ACAA TGAA TAAA
1 TAAA TAAA TAAA TAAA T-AAA T-AAA TAA-A TAAA TA-AA TAAA TAAA
726135 TAAA T-AA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA
726158 AATCCAAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
3 7 0.13
4 35 0.64
5 13 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:726149 original size:15 final size:15
Alignment explanation
Indices: 726089--726160 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 15
726079 AGTATAGTAT
726089 TAAATAAGTAAA-AAA
1 TAAATAA-TAAATAAA
726104 T-AA-AATAAAATAAGA
1 TAAATAAT-AAATAA-A
* *
726119 TAAAACAATGAATAAA
1 T-AAATAATAAATAAA
726135 TAAATAATAAATAAA
1 TAAATAATAAATAAA
726150 TAAATAA-AAAT
1 TAAATAATAAAT
726161 CCAAACAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.02
13 5 0.10
14 8 0.17
15 22 0.46
16 2 0.04
17 7 0.15
18 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (15 bp):
TAAATAATAAATAAA
Found at i:731713 original size:3 final size:3
Alignment explanation
Indices: 731649--731695 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
731639 AAGTTTATAT
731649 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
731696 CTAGATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:731742 original size:28 final size:28
Alignment explanation
Indices: 731679--731751 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
731669 AATAATAATA
* *
731679 ATAATAA-TAATAATAATCTAGATGTTT
1 ATAATAATTAATATTAATCTAGATATTT
*
731706 GTAATAATTAATATTATATCTAGATATTT
1 ATAATAATTAATATTA-ATCTAGATATTT
731735 ATAA-AATTAATGATTAA
1 ATAATAATTAAT-ATTAA
731752 GATGTTGACA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 6 0.15
28 15 0.38
29 18 0.46
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (28 bp):
ATAATAATTAATATTAATCTAGATATTT
Found at i:738624 original size:3 final size:3
Alignment explanation
Indices: 738616--738693 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
738606 CTCTGTTTGT
738616 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
738664 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
738694 CAACAACAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:738736 original size:25 final size:25
Alignment explanation
Indices: 738708--738755 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
738698 AACAACAACA
738708 AAAAATGATGATTACAAAGTGTAAC
1 AAAAATGATGATTACAAAGTGTAAC
738733 AAAAATGATGATTACAAAGTGTA
1 AAAAATGATGATTACAAAGTGTA
738756 CTTATAAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAAATGATGATTACAAAGTGTAAC
Found at i:739074 original size:16 final size:14
Alignment explanation
Indices: 739055--739093 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
739045 GTTTGTAGAA
739055 AGAGAGAAAAGCTT
1 AGAGAGAAAAGCTT
739069 AGAGAGAAAAGCTT
1 AGAGAGAAAAGCTT
739083 AGAGAGAAAAG
1 AGAGAGAAAAG
739094 AAGAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.31, T:0.10
Consensus pattern (14 bp):
AGAGAGAAAAGCTT
Found at i:740434 original size:65 final size:63
Alignment explanation
Indices: 740365--740521 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 63
740355 GAATAAATTG
* * *
740365 AACATTGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATTCACTCAGGGTT-TTATG
1 AACATCGAATGCATTTCATGCATCGATGCACA-AGCC-TGCATCGATGCACTCA-GGTTATTATG
740428 AA
63 -A
* *
740430 AACATCGAATGCATTTGATGCATCGATGCACAAGTCCTGCATCGATGCACTCAGGTTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAG-CCTGCATCGATGCACTCAGGTTATTATGA
* *
740494 AACATCAAATGCACTTCATGCATCGATG
1 AACATCGAATGCATTTCATGCATCGATG
740522 AAATCTTAGT
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
64 31 0.38
65 49 0.60
66 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCTGCATCGATGCACTCAGGTTATTATGA
Found at i:747962 original size:12 final size:12
Alignment explanation
Indices: 747945--747974 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
747935 TAAGGGGGAG
747945 TAATTTAAAAAT
1 TAATTTAAAAAT
747957 TAATTTAAAAAT
1 TAATTTAAAAAT
747969 TAATTT
1 TAATTT
747975 TTAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATTTAAAAAT
Found at i:751173 original size:30 final size:31
Alignment explanation
Indices: 751116--751176 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
751106 GCTAACCAAT
*
751116 TATTTTCTCAACATTCTTAATTTTAAACAAC
1 TATTTTCTCAACATTCTTAACTTTAAACAAC
*
751147 TATTTTCTCAATATTCTT-ACTTTAAACAAC
1 TATTTTCTCAACATTCTTAACTTTAAACAAC
751177 CATAAACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTTCTCAACATTCTTAACTTTAAACAAC
Found at i:751489 original size:44 final size:40
Alignment explanation
Indices: 751391--751490 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 40
751381 AACCAACGAT
*
751391 AGCAGCCCCTCCACGTGCATTTACAACAGCTTCCAGTGCC
1 AGCAGCCCCTCCACGTGCAATTACAACAGCTTCCAGTGCC
* * *
751431 AGCATCCCCTCCACGTGCAAATTCCAATAGCTTCCAGCACTGCC
1 AGCAGCCCCTCCACGTGC-AATTACAACAGCTTCCAG---TGCC
*
751475 AGCAGCCCTTCCACGT
1 AGCAGCCCCTCCACGT
751491 CCTCATTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 17 0.34
41 15 0.30
44 18 0.36
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (40 bp):
AGCAGCCCCTCCACGTGCAATTACAACAGCTTCCAGTGCC
Found at i:753343 original size:28 final size:27
Alignment explanation
Indices: 753312--753365 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
753302 TAATTCTTTT
*
753312 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
* *
753340 TTTTTATAATATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
753366 TTCAAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:753375 original size:23 final size:23
Alignment explanation
Indices: 753335--753389 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
753325 TATATATACT
*
753335 TATTATTTTTATAATATTTATATA
1 TATTATTTTCATAATATTT-TATA
* *
753359 TATTATTTTCA-AGTATTTTATT
1 TATTATTTTCATAATATTTTATA
753381 TCATTATTT
1 T-ATTATTT
753390 ATTGTCTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 13 0.48
24 10 0.37
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTATTTTCATAATATTTTATA
Found at i:762292 original size:112 final size:111
Alignment explanation
Indices: 761988--762874 Score: 1093
Period size: 112 Copynumber: 7.8 Consensus size: 111
761978 CCATTACTCA
* * *
761988 ATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGT
* ** *
762052 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCTG
64 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
* * * * *
762100 ATGGATTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAGT
1 ATGGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGT
* *
762165 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTG
64 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
* *
762213 ATGGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTT
1 ATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTT
*
762278 CATAATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTG
65 CATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
* * *
762325 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATT
1 ATGGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
* *
762390 CATAATGAGAAGAATTTGTTTAACCTTTTGC-CTGAATTCATCACTTG
65 CATAATGAGAAGAACTTGTTCAACCTTTTGCTC-GAATTCATCACTTG
* * * *
762437 ATGGATTAACTTTTTCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGT
1 ATGGATCAACATTTCCAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGT
* *
762501 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATTACTCG
64 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
* *
762549 ATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGATGAAGAAGAAGTT
1 ATGGATCAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
* * * *
762614 CATAATGAGAAGAACTTATTCAATCTTTTGCTTGAATTCATCACTCG
65 CATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
* * * ** *
762661 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCAT-CTGACGAAGAAGAAGT
1 ATGGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATC-TGAAGAGGAAGAAGAAGT
* *
762725 TCATAATGAGAAGAACTTGTTCAACCTTTTGC-CTG-ACTCTATCACAGAAGAAGATAG
64 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTC-GAATTC-ATCAC---------TTG
* *
762782 ATCAGCATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
1 AT--GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
* *
762847 TCATAATGAGAAGAATTTATTCAACCTT
64 TCATAATGAGAAGAACTTGTTCAACCTT
762875 GCCTTAATTC
Statistics
Matches: 680, Mismatches: 70, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
111 7 0.01
112 450 0.66
113 141 0.21
121 5 0.01
122 62 0.09
123 15 0.02
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (111 bp):
ATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
Found at i:762678 original size:336 final size:337
Alignment explanation
Indices: 761974--762874 Score: 1224
Period size: 336 Copynumber: 2.6 Consensus size: 337
761964 GCAAAGATTT
* * * * * * *
761974 GAATCCATTACTCAATGGATCAACA-TGCCAG-GTAGAGTTCATAATGAGAAGAACTCATATGAA
1 GAATTCATCACTCGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATCTGAA
* * *
762037 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCTGAT
65 G-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGAT
* * * *
762102 GGATTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAGTTC
129 GGATTAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
*
762167 ATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGA
194 ATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCCAGA
* *
762232 AGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGT
259 AGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTAT
*
762297 TTAACCTTTTGCTC
324 TCAACCTTTTGCTC
*
762311 GAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 GAATTCATCACTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
* *
762376 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCCTGAATTCATCACTTGATGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGG
* *
762441 ATTAACTTTTTCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCAT
131 ATTAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
762505 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATTACTCGATGGATCAACATTTCCAGGTA
196 AATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCCA-GAA
762570 GAGTTCATAATGAGAAGAACTCATCTGAAG-ATGAAGAAGAAGTTCATAATGAGAAGAACTTATT
260 GAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTATT
* *
762634 CAATCTTTTGCTT
325 CAACCTTTTGCTC
* **
762647 GAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCAT-CT
1 GAATTCATCACTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATC-TGAA
* * *
762711 GACGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTG-ACTCTATCACAGAAG
65 GAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC-ATCAC-----
* * * *
762775 AAGATAGATCAGCATCAACATTTCCAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGA
124 ----TTGAT--GGATTAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
762838 AGAAGAAATTCATAATGAGAAGAATTTATTCAACCTT
183 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
762875 GCCTTAATTC
Statistics
Matches: 500, Mismatches: 47, Indels: 25
0.87 0.08 0.04
Matches are distributed among these distances:
335 3 0.01
336 220 0.44
337 159 0.32
338 33 0.07
339 1 0.00
345 7 0.01
346 63 0.13
347 14 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (337 bp):
GAATTCATCACTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGG
ATTAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCCAGAAG
AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
AACCTTTTGCTC
Found at i:762746 original size:20 final size:20
Alignment explanation
Indices: 762684--762747 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
762674 TCCAGAGAAA
762684 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
762704 -ATCAT-CTGACGAAGAAGAA
1 GTTCATAATGA-GAAGAACTT
762723 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
762743 GTTCA
1 GTTCA
762748 ACCTTTTGCC
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:762819 original size:122 final size:120
Alignment explanation
Indices: 762665--763052 Score: 340
Period size: 122 Copynumber: 3.1 Consensus size: 120
762655 CACTCGATGG
* * *
762665 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCATCTGACGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAAC-TATCATCTGAAGAAGAAGAAGTTCATA
*
762730 ATGAGAAGAACTTGTTCAACCTTTTGCCTGACTCTATCACAGAAGAAGATAGATCAGC
64 ATGAGAAGAACTTATTCAACCTTTTGCCTGACT-TATCACAGAAGAAGATAGATCAGC
*
762788 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAAC--TCATCTGAAGAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTATCATCTG-A-A-GAAGAAGAAGTTCAT
* * * ** *
762851 AATGAGAAGAATTTATTCAACC--TTGCCTTAATTCATCACATATGAAGTTGAATCAACACCTCT
63 AATGAGAAGAACTTATTCAACCTTTTGCCTGACTT-ATCAC--A-GAAGAAG-AT--AGA--TC-
*
762914 TTTGAGG
118 ----AGC
*
762921 ATCAACATTTCCAGAAGAAGTTCATAAATGAGAAGAAC--CCATCTGAAGAAGAAAAAGAAGTTC
1 ATCAACATTTCCAGAAG-AGTTCAT-AATGAGAAGAACTATCATCTGAAGAAG---AAGAAGTTC
* ** *
762984 ATAATGTGAAGAACTTATTCAACCTTTTGTTTGACTTATCACAGAGAGAA-ATAGATCAAC
61 ATAATGAGAAGAACTTATTCAACCTTTTGCCTGACTTATCACAGA-AGAAGATAGATCAGC
763044 ATCAACATT
1 ATCAACATT
763053 GTTCAACTTT
Statistics
Matches: 215, Mismatches: 25, Indels: 50
0.74 0.09 0.17
Matches are distributed among these distances:
119 8 0.04
120 14 0.07
122 55 0.26
123 29 0.13
124 2 0.01
126 2 0.01
128 4 0.02
130 2 0.01
132 6 0.03
133 22 0.10
134 11 0.05
135 48 0.22
136 5 0.02
137 7 0.03
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (120 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTATCATCTGAAGAAGAAGAAGTTCATAAT
GAGAAGAACTTATTCAACCTTTTGCCTGACTTATCACAGAAGAAGATAGATCAGC
Found at i:763363 original size:44 final size:40
Alignment explanation
Indices: 763265--763365 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 40
763255 CAACCAACGA
* * * *
763265 CAGCAGCCCCTCCACGTGCATTTTCAGCAGCTTCCAATGC
1 CAGCAGCCCCTCCACGTGAAATTCCAACAGCTTCCAATGC
*
763305 CAGCATCCCCTCCACGTGAAAATTCCAACAGCTTCCAGCACTGC
1 CAGCAGCCCCTCCACGTG-AAATTCCAACAGCTTCCA--A-TGC
*
763349 CAGCAGCCCTTCCACGT
1 CAGCAGCCCCTCCACGT
763366 CCTCATTCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 17 0.34
41 14 0.28
43 1 0.02
44 18 0.36
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.20
Consensus pattern (40 bp):
CAGCAGCCCCTCCACGTGAAATTCCAACAGCTTCCAATGC
Found at i:768235 original size:20 final size:20
Alignment explanation
Indices: 768210--768248 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
768200 CTTTAAATAC
768210 CTTCTCAAAGGTATATTCAG
1 CTTCTCAAAGGTATATTCAG
768230 CTTCTCAAAGGTATATTCA
1 CTTCTCAAAGGTATATTCA
768249 TATTTCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
CTTCTCAAAGGTATATTCAG
Found at i:768735 original size:43 final size:43
Alignment explanation
Indices: 768688--768921 Score: 233
Period size: 43 Copynumber: 5.4 Consensus size: 43
768678 TTTCAAGAAA
768688 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACAGAC
* * *
768731 AAACGCCACAATAGATGTTGATATTTAGCGGCGTTTGGA-AGCC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GACAGAC
* * *
768774 AAACGCCGTAATAGATGTTGATATTTAGCGGCATTTGGA-AGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GACAGAC
* * * ** ** *
768817 AAACGCCGCAATAGGTGTCGCTTTTTAGCGGCGTTTTTCCCAG
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACAGAC
* * * *
768860 AAACGCCGCAGTAGGTGTTGATGTTTAGTGGCGTTTTTATC--AC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTGA-CAGAC
*
768903 AAACGCCGCAATAAGTGTT
1 AAACGCCGCAATAGGTGTT
768922 AAGGTTTCGC
Statistics
Matches: 160, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
43 153 0.96
44 6 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACAGAC
Found at i:768934 original size:129 final size:129
Alignment explanation
Indices: 768688--768934 Score: 273
Period size: 129 Copynumber: 1.9 Consensus size: 129
768678 TTTCAAGAAA
* *
768688 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACAGACAAACGCCACAATAGATGTTGAT
1 AAACGCCGCAATAGGTGTCGATATTTAGCGGCGTTTGACACACAAACGCCACAATAGATGTTGAT
* * *
768753 ATTTAGCGGCGTTTGGAAGCCAAACGCCGTAATAGATGTTGATATTTAGCGGCATTTGGAAGAC
66 ATTTAGCGGCGTTTGGAAGCCAAACGCCGCAATAGATGTTAAGATTTAGCGGCATTTGGAAGAC
* * ** * * * * *
768817 AAACGCCGCAATAGGTGTCGCTTTTTAGCGGCGTTTTTCCCAGAAACGCCGCAGTAGGTGTTGAT
1 AAACGCCGCAATAGGTGTCGATATTTAGCGGCGTTTGACACACAAACGCCACAATAGATGTTGAT
* * ** * * *
768882 GTTTAGTGGCGTTT-TTATCACAAACGCCGCAATA-AGTGTTAAGGTTTCGCGGC
66 ATTTAGCGGCGTTTGGAAGC-CAAACGCCGCAATAGA-TGTTAAGATTTAGCGGC
768935 GTCTTTAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
128 3 0.03
129 92 0.97
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (129 bp):
AAACGCCGCAATAGGTGTCGATATTTAGCGGCGTTTGACACACAAACGCCACAATAGATGTTGAT
ATTTAGCGGCGTTTGGAAGCCAAACGCCGCAATAGATGTTAAGATTTAGCGGCATTTGGAAGAC
Found at i:768936 original size:43 final size:42
Alignment explanation
Indices: 768840--768996 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 42
768830 GGTGTCGCTT
** * * * *
768840 TTTAGCGGCGTTTTTCCCAGAAACGCCGCAGTAGGTGTTGATG
1 TTTAGCGGCGTTTTTATCACAAACGCCGCAATAAGTGTT-AGG
*
768883 TTTAGTGGCGTTTTTATCACAAACGCCGCAATAAGTGTTAAGG
1 TTTAGCGGCGTTTTTATCACAAACGCCGCAATAAGTGTT-AGG
* * * ** * * *
768926 TTTCGCGGCGTCTTTAGCTTAAACGCCGCAATATGTGTTTGA
1 TTTAGCGGCGTTTTTATCACAAACGCCGCAATAAGTGTTAGG
* *
768968 TTTGGCGGCGTCTTTAAT-ACAAACGCCGC
1 TTTAGCGGCGT-TTTTATCACAAACGCCGC
768997 TAAAGATTTG
Statistics
Matches: 90, Mismatches: 23, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
42 20 0.22
43 70 0.78
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTATCACAAACGCCGCAATAAGTGTTAGG
Found at i:768992 original size:42 final size:44
Alignment explanation
Indices: 768901--768996 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 44
768891 CGTTTTTATC
* *
768901 ACAAACGCCGCAATAAGTGTTAAGGTTTCGCGGCGTCTTTAGCT
1 ACAAACGCCGCAATAAGTGTTAAGATTTCGCGGCGTCTTTAGAT
* * * *
768945 -TAAACGCCGCAATATGTGTT-TGATTTGGCGGCGTCTTTA-AT
1 ACAAACGCCGCAATAAGTGTTAAGATTTCGCGGCGTCTTTAGAT
768986 ACAAACGCCGC
1 ACAAACGCCGC
768997 TAAAGATTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 25 0.57
43 18 0.41
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (44 bp):
ACAAACGCCGCAATAAGTGTTAAGATTTCGCGGCGTCTTTAGAT
Found at i:769385 original size:21 final size:21
Alignment explanation
Indices: 769360--769399 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
769350 GCTGATATGT
769360 TGCCTCTCTTTGTGCTGCCGC
1 TGCCTCTCTTTGTGCTGCCGC
769381 TGCCTCTCTTTGTGCTGCC
1 TGCCTCTCTTTGTGCTGCC
769400 ACTGTTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.23, T:0.40
Consensus pattern (21 bp):
TGCCTCTCTTTGTGCTGCCGC
Found at i:769468 original size:21 final size:21
Alignment explanation
Indices: 769407--769462 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
769397 GCCACTGTTT
769407 CTCTCTCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
**
769428 CTCTGGCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
769449 CTCTCTCTGCTTCC
1 CTCTCTCTGCTTCC
769463 CTTGCTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.00, C:0.43, G:0.20, T:0.38
Consensus pattern (21 bp):
CTCTCTCTGCTTCCGCTGCTG
Found at i:771727 original size:46 final size:46
Alignment explanation
Indices: 771660--771750 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
771650 TAACGATTCT
*
771660 GAAATAACTACATGGTCAAACAAGACAGAGGAACGAAGGCAAGTAC
1 GAAATAACTACATGGTCAAACAAGAAAGAGGAACGAAGGCAAGTAC
771706 GAAATAACTACATGGTCAAACAAGAAAGAGGAACGAAGGCAAGTA
1 GAAATAACTACATGGTCAAACAAGAAAGAGGAACGAAGGCAAGTA
771751 AGTACCTTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.49, C:0.15, G:0.24, T:0.11
Consensus pattern (46 bp):
GAAATAACTACATGGTCAAACAAGAAAGAGGAACGAAGGCAAGTAC
Found at i:772625 original size:42 final size:41
Alignment explanation
Indices: 772579--772809 Score: 125
Period size: 41 Copynumber: 5.6 Consensus size: 41
772569 AAAATTTACA
*
772579 GCGTTTTTTGTCAAAACGCCACTAAAGTACGCAT-CATTTGCG
1 GCGTTTTTTG-CAAAACGCCACTAAAGTACGAATAC-TTTGCG
* ** * *
772621 GCGTTTGTTAGCAAAACGCTGCTAAATTACTAATACTTTGCG
1 GCGTTT-TTTGCAAAACGCCACTAAAGTACGAATACTTTGCG
* * * * *
772663 GCG-TTTCTACGAAAACGCCACTAAAGTACGAGT-CTATAGTG
1 GCGTTTTTTGC-AAAACGCCACTAAAGTACGAATACT-TTGCG
* * * *
772704 GCGTTTTCATAC-GAACGCCACTAAAGTA-GAAGT-CTATAGCG
1 GCGTTTT-TTGCAAAACGCCACTAAAGTACGAA-TACT-TTGCG
* * * * *
772745 GCGTTTTCATAC-AAACGCCACTAAAATACAAATATTTTGCG
1 GCGTTTT-TTGCAAAACGCCACTAAAGTACGAATACTTTGCG
**
772786 GCGTTTTTTATAAAAACGCCACTA
1 GCGTTTTTT-GCAAAACGCCACTA
772810 TATAATACAC
Statistics
Matches: 150, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
40 7 0.05
41 86 0.57
42 50 0.33
43 7 0.05
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
GCGTTTTTTGCAAAACGCCACTAAAGTACGAATACTTTGCG
Found at i:772707 original size:41 final size:42
Alignment explanation
Indices: 772660--772769 Score: 158
Period size: 41 Copynumber: 2.7 Consensus size: 42
772650 CTAATACTTT
772660 GCGGCG-TTTC-TACGAAAACGCCACTAAAGTACG-AGTCTATA
1 GCGGCGTTTTCATACG-AAACGCCACTAAAGTA-GAAGTCTATA
*
772701 GTGGCGTTTTCATACG-AACGCCACTAAAGTAGAAGTCTATA
1 GCGGCGTTTTCATACGAAACGCCACTAAAGTAGAAGTCTATA
772742 GCGGCGTTTTCATAC-AAACGCCACTAAA
1 GCGGCGTTTTCATACGAAACGCCACTAAA
772770 ATACAAATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
40 1 0.02
41 54 0.86
42 4 0.06
43 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (42 bp):
GCGGCGTTTTCATACGAAACGCCACTAAAGTAGAAGTCTATA
Found at i:772787 original size:41 final size:41
Alignment explanation
Indices: 772675--772818 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 41
772665 GTTTCTACGA
* * * * *
772675 AAACGCCACTAAAGTACGAGTCTATAGTGGCGTTTTCATAC
1 AAACGCCACTAAAATACAAATATATAGCGGCGTTTTCATAC
* * * * *
772716 GAACGCCACTAAAGTAGAAGTCTATAGCGGCGTTTTCATAC
1 AAACGCCACTAAAATACAAATATATAGCGGCGTTTTCATAC
* * * *
772757 AAACGCCACTAAAATACAAATATTTTGCGGCGTTTTTTATAA
1 AAACGCCACTAAAATACAAATATATAGCGGCG-TTTTCATAC
772799 AAACGCCACTATATAATACA
1 AAACGCCACTA-A-AATACA
772819 CCTATTGCGG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 62 0.71
42 18 0.21
43 1 0.01
44 6 0.07
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAATACAAATATATAGCGGCGTTTTCATAC
Found at i:773364 original size:57 final size:57
Alignment explanation
Indices: 773031--773332 Score: 568
Period size: 57 Copynumber: 5.3 Consensus size: 57
773021 ATTAAAACAG
773031 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
773088 AAGTACTTATGCATAAAACTACTTAACGACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
773145 AAGTACTTATGCATAAAACTACTTAAAAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
773202 AAGTACTTATGCATAAAACTACTTAACGACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
773259 AAGTACTTATGCATAAAACTACTTAAAAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
773316 AAGTACTTATGCATAAA
1 AAGTACTTATGCATAAA
773333 CAGTCTTCAC
Statistics
Matches: 238, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 238 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (57 bp):
AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
Found at i:776666 original size:49 final size:49
Alignment explanation
Indices: 776605--776708 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
776595 TTTGGTTGGT
*
776605 TTAGCAAGAATGTAAGATTACCGTGTTTGGTTAAAGGAATAAAATATTA
1 TTAGAAAGAATGTAAGATTACCGTGTTTGGTTAAAGGAATAAAATATTA
776654 TTAGAAAGAATGTAAGATTACCGTGTTTGGTTAAAGGAATAAAATATTA
1 TTAGAAAGAATGTAAGATTACCGTGTTTGGTTAAAGGAATAAAATATTA
776703 TTAGAA
1 TTAGAA
776709 TGTATATTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (49 bp):
TTAGAAAGAATGTAAGATTACCGTGTTTGGTTAAAGGAATAAAATATTA
Found at i:776839 original size:37 final size:37
Alignment explanation
Indices: 776766--776840 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
776756 GTTAGAAAAT
* *
776766 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
776803 ATTTATATAATTTAT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTT-TCTTTAAAAAATTGAAAATCATAAA
776840 A
1 A
776841 ATATTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 18 0.55
39 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:777547 original size:76 final size:77
Alignment explanation
Indices: 777400--777626 Score: 264
Period size: 76 Copynumber: 3.0 Consensus size: 77
777390 TAAGAAATAT
** * * * * *
777400 GGTTACGCTTAAAAATGCCATGGTTCATTAAGAAATAAGTTTTGATAT-AGAATGTTAACATTTT
1 GGTTACGCCAAAAAATGTCATAGTTCACTAAGAAATAAGTTGTGATATGA-AATGTTAATATTTT
*
777464 TAATAATAAAATG
65 TATTAATAAAATG
* *
777477 TGTTACGCCAAAAAATGTCATAGTTCACTAAGAAAT-AGTTGCGATATGAAATGTTAATATTTTT
1 GGTTACGCCAAAAAATGTCATAGTTCACTAAGAAATAAGTTGTGATATGAAATGTTAATATTTTT
777541 ATTAATAAAATG
66 ATTAATAAAATG
* * * * * *
777553 GGTTGCACCAAATAATGTTATAGTTCACTAAGAAAGTAAGTTGTGATATG-AATATTAATAATTT
1 GGTTACGCCAAAAAATGTCATAGTTCACTAAGAAA-TAAGTTGTGATATGAAATGTTAATATTTT
777617 TATT-ATAAAA
65 TATTAATAAAA
777627 AATAAAAAAA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
76 70 0.54
77 48 0.37
78 11 0.09
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (77 bp):
GGTTACGCCAAAAAATGTCATAGTTCACTAAGAAATAAGTTGTGATATGAAATGTTAATATTTTT
ATTAATAAAATG
Found at i:778316 original size:2 final size:2
Alignment explanation
Indices: 778309--778348 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
778299 AGAAATTGGA
778309 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
778349 TGAAATTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:779088 original size:9 final size:9
Alignment explanation
Indices: 779062--779113 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
779052 GCCTTGTAAT
*
779062 CGGTTTGAT
1 CGGTTTGAC
779071 CGGTTTTTGAC
1 CGG--TTTGAC
779082 CGGTTTGAC
1 CGGTTTGAC
**
779091 CGGAATGAAC
1 CGGTTTG-AC
779101 CGGTTTGAC
1 CGGTTTGAC
779110 CGGT
1 CGGT
779114 CTGAATCGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 20 0.57
10 7 0.20
11 8 0.23
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.33
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:779127 original size:19 final size:19
Alignment explanation
Indices: 779080--779127 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
779070 TCGGTTTTTG
*
779080 ACCGGTTTGACCGGAATGA
1 ACCGGGTTGACCGGAATGA
* **
779099 ACCGGTTTGACCGGTCTGA
1 ACCGGGTTGACCGGAATGA
*
779118 ATCGGGTTGA
1 ACCGGGTTGA
779128 TCAGTTCGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (19 bp):
ACCGGGTTGACCGGAATGA
Found at i:779153 original size:13 final size:13
Alignment explanation
Indices: 779135--779189 Score: 94
Period size: 13 Copynumber: 4.3 Consensus size: 13
779125 TGATCAGTTC
779135 GACCCGACCCGTT
1 GACCCGACCCGTT
*
779148 GACCCGACCAGTT
1 GACCCGACCCGTT
779161 GACCCGACCCGTT
1 GACCCGACCCGTT
779174 GACCCGA-CCGTT
1 GACCCGACCCGTT
779186 GACC
1 GACC
779190 GGGTGGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 9 0.22
13 31 0.77
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:779165 original size:26 final size:26
Alignment explanation
Indices: 779129--779189 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 26
779119 TCGGGTTGAT
779129 CAGTTCGACCCGACCCGTTGACCCGAC
1 CAGTT-GACCCGACCCGTTGACCCGAC
779156 CAGTTGACCCGACCCGTTGACCCGAC
1 CAGTTGACCCGACCCGTTGACCCGAC
779182 C-GTTGACC
1 CAGTTGACC
779190 GGGTGGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 7 0.21
26 22 0.65
27 5 0.15
ACGTcount: A:0.18, C:0.43, G:0.23, T:0.16
Consensus pattern (26 bp):
CAGTTGACCCGACCCGTTGACCCGAC
Found at i:779225 original size:29 final size:29
Alignment explanation
Indices: 779191--779340 Score: 155
Period size: 29 Copynumber: 5.2 Consensus size: 29
779181 CCGTTGACCG
*
779191 GGTGGTATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
779220 GGTGGTATTCTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
779249 GGTGCTATTTTCGTAATT-TTCTT-AAAA-
1 GGTGATATTTTGGTAATTATT-TTGAAAAT
* *
779276 -ATGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * * *
779304 GGTGATATTTCGGTAAATATTTTTTAAAAG
1 GGTGATATTTTGGTAATTA-TTTTGAAAAT
779334 GGTGATA
1 GGTGATA
779341 ATTGTGTAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
26 16 0.16
27 6 0.06
28 6 0.06
29 59 0.58
30 15 0.15
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTGAAAAT
Found at i:779340 original size:30 final size:29
Alignment explanation
Indices: 779277--779340 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
779267 TTCTTAAAAA
* * *
779277 TGATATTTTAGTAATTATTTTGAAAATGG
1 TGATATTTCAGTAAATATTTTGAAAAGGG
* *
779306 TGATATTTCGGTAAATATTTTTTAAAAGGG
1 TGATATTTCAGTAAATA-TTTTGAAAAGGG
779336 TGATA
1 TGATA
779341 ATTGTGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (29 bp):
TGATATTTCAGTAAATATTTTGAAAAGGG
Found at i:781829 original size:20 final size:21
Alignment explanation
Indices: 781789--781831 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
781779 CAATATTTTC
*
781789 TTAGAAAATTATTTTTAAAAT
1 TTAGAAAATTAGTTTTAAAAT
*
781810 TTAGAAAATT-GTTTTCAAAT
1 TTAGAAAATTAGTTTTAAAAT
781830 TT
1 TT
781832 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
TTAGAAAATTAGTTTTAAAAT
Found at i:783252 original size:22 final size:22
Alignment explanation
Indices: 783206--783255 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
783196 AAATAAATCA
783206 ATAAAA-ATAATATAAAAAGTT
1 ATAAAATATAATATAAAAAGTT
783227 ATAAAATATAA-A-AAAAATGTT
1 ATAAAATATAATATAAAAA-GTT
783248 CATAAAAT
1 -ATAAAAT
783256 GTCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
ATAAAATATAATATAAAAAGTT
Found at i:784244 original size:35 final size:35
Alignment explanation
Indices: 784205--784324 Score: 159
Period size: 35 Copynumber: 3.4 Consensus size: 35
784195 AGATGAACAA
* *
784205 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCAC
* ** *
784240 TTGAATCGAAAGTTCCGATGCTTCATTTTGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTC-AC
* *
784276 TTGAATTGAAAGTGCCAATGCTTCATTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCAC
784311 TTGAATCGAAAGTG
1 TTGAATCGAAAGTG
784325 ACAATCCTTC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
35 42 0.59
36 29 0.41
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCAC
Found at i:784335 original size:71 final size:71
Alignment explanation
Indices: 784205--784348 Score: 198
Period size: 71 Copynumber: 2.0 Consensus size: 71
784195 AGATGAACAA
** * ** * * **
784205 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACTTGAATCGAAAGTTCCGATGCTTCATTTTG
1 TTGAATCGAAAGTGCCAATGCTTCATTCCGTTCACTTGAATCGAAAGTGACAATCCTTCATTTCA
784270 TTCTTC
66 TTCTTC
*
784276 TTGAATTGAAAGTGCCAATGCTTCATTCCGTTCACTTGAATCGAAAGTGACAATCCTTCATTTCA
1 TTGAATCGAAAGTGCCAATGCTTCATTCCGTTCACTTGAATCGAAAGTGACAATCCTTCATTTCA
784341 TTCTTC
66 TTCTTC
784347 TT
1 TT
784349 ATCCACCTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCAATGCTTCATTCCGTTCACTTGAATCGAAAGTGACAATCCTTCATTTCA
TTCTTC
Found at i:784357 original size:24 final size:25
Alignment explanation
Indices: 784330--784377 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
784320 AAGTGACAAT
784330 CCTTCATTTCATTCTTCTT-ATCCA
1 CCTTCATTTCATTCTTCTTCATCCA
*
784354 CCTTCATTTCTTTCTTCTTCATCC
1 CCTTCATTTCATTCTTCTTCATCC
784378 TCTTTTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.52
Consensus pattern (25 bp):
CCTTCATTTCATTCTTCTTCATCCA
Found at i:790618 original size:35 final size:35
Alignment explanation
Indices: 790572--790641 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
790562 AGGAAATGTA
790572 GAGGCTTTGTCTATGAGTTTATACCGTATTAGTGT
1 GAGGCTTTGTCTATGAGTTTATACCGTATTAGTGT
**
790607 GAGGCTTTGTCTATGAGTTTATAGTGTATTAGTGT
1 GAGGCTTTGTCTATGAGTTTATACCGTATTAGTGT
790642 AGCAAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.44
Consensus pattern (35 bp):
GAGGCTTTGTCTATGAGTTTATACCGTATTAGTGT
Found at i:803254 original size:21 final size:21
Alignment explanation
Indices: 803230--803288 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
803220 ATAATGAATT
803230 GTCAATTTGAAAAATTAAAAG
1 GTCAATTTGAAAAATTAAAAG
*
803251 GTCAATTT-AAAATATTAAATG
1 GTCAATTTGAAAA-ATTAAAAG
* *
803272 ATCAATTTGAAATATTA
1 GTCAATTTGAAAAATTA
803289 GTGAGCATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 26 0.79
22 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (21 bp):
GTCAATTTGAAAAATTAAAAG
Found at i:805658 original size:23 final size:23
Alignment explanation
Indices: 805628--805684 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
805618 CGAAGCTGTC
805628 GTATCGGTACACTCAATATGAAT
1 GTATCGGTACACTCAATATGAAT
* *
805651 GTATCGGTACGCTCAATATGACT
1 GTATCGGTACACTCAATATGAAT
805674 GTATCGGTACA
1 GTATCGGTACA
805685 TAACACATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
GTATCGGTACACTCAATATGAAT
Found at i:807550 original size:21 final size:22
Alignment explanation
Indices: 807520--807567 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
807510 GGAGTTACTA
* *
807520 TAGCAGGGTATCGGTA-CACTG
1 TAGCAAGGTATCGATACCACTG
*
807541 TAGCAAGGTATCGATACCCCTG
1 TAGCAAGGTATCGATACCACTG
807563 TAGCA
1 TAGCA
807568 TTCTGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (22 bp):
TAGCAAGGTATCGATACCACTG
Found at i:808584 original size:23 final size:23
Alignment explanation
Indices: 808551--808594 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
808541 GAGTCGAGGG
808551 TCTACGCGGTCCTTCAGGACAAT
1 TCTACGCGGTCCTTCAGGACAAT
* *
808574 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCAGGACA
808595 TATATGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCAGGACAAT
Found at i:825539 original size:36 final size:36
Alignment explanation
Indices: 825490--825561 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
825480 GACTTTGAAG
* * *
825490 TAGAAGTTTAGCACGTTCTTGTTCTCTTATTGTACA
1 TAGAAGTTCAGCACATTCTTGTTCTATTATTGTACA
*
825526 TAGAAGTTCAGCACATTCTTGTTCTATTATTTTACA
1 TAGAAGTTCAGCACATTCTTGTTCTATTATTGTACA
825562 GTTTAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (36 bp):
TAGAAGTTCAGCACATTCTTGTTCTATTATTGTACA
Found at i:830464 original size:18 final size:20
Alignment explanation
Indices: 830427--830464 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
830417 TCACAAATGT
830427 AAGATTATCATGGAGAATAA
1 AAGATTATCATGGAGAATAA
830447 AAGATTATCA-GG-GAATAA
1 AAGATTATCATGGAGAATAA
830465 GATTACTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (20 bp):
AAGATTATCATGGAGAATAA
Found at i:833494 original size:3 final size:3
Alignment explanation
Indices: 833476--833525 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
833466 GCTTAAAAAA
* * *
833476 TAT TA- TAT TGT TAT TAT TAT TAT TAT AAT AAT TACT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
833521 TAT TA
1 TAT TA
833526 ATTTATATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:834548 original size:45 final size:45
Alignment explanation
Indices: 834487--834576 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
834477 TAAATGATGA
834487 AATGGTTTAAGAATGCTTGTGTGGTTCAAATGTGGGACATGCATG
1 AATGGTTTAAGAATGCTTGTGTGGTTCAAATGTGGGACATGCATG
834532 AATGGTTTAAGAATGCTTGTGTGGTTCAAATGTGGGACATGCATG
1 AATGGTTTAAGAATGCTTGTGTGGTTCAAATGTGGGACATGCATG
834577 GTTTTCATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.09, G:0.31, T:0.33
Consensus pattern (45 bp):
AATGGTTTAAGAATGCTTGTGTGGTTCAAATGTGGGACATGCATG
Found at i:837603 original size:2 final size:2
Alignment explanation
Indices: 837582--837620 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
837572 TTGTTTCATT
* * *
837582 TA TA CA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
837621 CTCCCTTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:837840 original size:15 final size:14
Alignment explanation
Indices: 837819--837876 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
837809 AATCAAGAAC
837819 AAAAAGAGAAAAAA
1 AAAAAGAGAAAAAA
837833 AGAAAAGAGAAAAATA
1 A-AAAAGAGAAAAA-A
*
837849 AAAAATAGAAACAAA
1 AAAAAGAGAAA-AAA
837864 AACAAAG-GAAAAA
1 AA-AAAGAGAAAAA
837877 TAAAGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 28 0.74
16 7 0.18
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.03
Consensus pattern (14 bp):
AAAAAGAGAAAAAA
Found at i:837853 original size:30 final size:30
Alignment explanation
Indices: 837819--837880 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
837809 AATCAAGAAC
837819 AAAAAGAGAAA-AAAAGA-AAAGAGAAAAATA
1 AAAAAGAGAAACAAAA-ACAAAG-GAAAAATA
*
837849 AAAAATAGAAACAAAAACAAAGGAAAAATA
1 AAAAAGAGAAACAAAAACAAAGGAAAAATA
837879 AA
1 AA
837881 GAAAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (30 bp):
AAAAAGAGAAACAAAAACAAAGGAAAAATA
Found at i:838988 original size:32 final size:32
Alignment explanation
Indices: 838938--839020 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
838928 ACAATAAGGC
* *
838938 CATCTTTGAAGATTCAACATCAAATGTTGGGG
1 CATCTTTGGAGATTCAACATCAAATATTGGGG
* *
838970 TAT-TTGTGGAGATTCAACATCGAATATTGGGG
1 CATCTT-TGGAGATTCAACATCAAATATTGGGG
*
839002 CATCTTTGGGGATTCAACA
1 CATCTTTGGAGATTCAACA
839021 CCCTGATGCG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.05
32 39 0.91
33 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (32 bp):
CATCTTTGGAGATTCAACATCAAATATTGGGG
Found at i:839810 original size:125 final size:125
Alignment explanation
Indices: 839663--839941 Score: 461
Period size: 125 Copynumber: 2.2 Consensus size: 125
839653 TTGAACTCGA
*
839663 AACAATACAACTCTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTTAACTT
1 AACAATACAACTCTAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTTAACTT
* *
839728 CACAACGAATGAGCTATCCACGATTTCAACTTCACGAAGAAGGATATCGTGCCCACAAGC
66 CACAACGAAAGAGCCATCCACGATTTCAACTTCACGAAGAAGGATATCGTGCCCACAAGC
* *
839788 AACAATATAACTCTAGATTGGATTTCAACTTCACAACGAATGATATCCAATTCAAAGCTTAACTT
1 AACAATACAACTCTAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTTAACTT
*
839853 CACAACGAAAGAGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGC
66 CACAACGAAAGAGCCATCCACGATTTCAACTTCACGAAGAAGGATATCGTGCCCACAAGC
* * * *
839913 AGC-ATCCATCTCTAGATTAGATTTCAACT
1 AACAATACAACTCTAGATTGGATTTCAACT
839942 CAAAGCCAAT
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 22 0.15
125 121 0.85
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (125 bp):
AACAATACAACTCTAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTTAACTT
CACAACGAAAGAGCCATCCACGATTTCAACTTCACGAAGAAGGATATCGTGCCCACAAGC
Found at i:840976 original size:3 final size:3
Alignment explanation
Indices: 840958--841013 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
840948 GGCTTAAAAA
* *
840958 TAT TA- TAT TGT TAT TAT TAT TAT TAT TACT TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
841003 TGT TAT TAT TA
1 TAT TAT TAT TA
841014 ATTTATATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:840996 original size:25 final size:25
Alignment explanation
Indices: 840963--841010 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
840953 AAAAATATTA
* *
840963 TATTGTTATTATTATTATTATTACT
1 TATTATTATTAGTATTATTATTACT
*
840988 TATTATTATTAGTATTGTTATTA
1 TATTATTATTAGTATTATTATTA
841011 TTAATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTATTATTAGTATTATTATTACT
Found at i:844395 original size:18 final size:17
Alignment explanation
Indices: 844341--844389 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
844331 TTGGACCCTT
* *
844341 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
844359 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
844377 AGTGCATTCGATG
1 AGTGCA-TCGATG
844390 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:844494 original size:65 final size:65
Alignment explanation
Indices: 844361--844520 Score: 227
Period size: 65 Copynumber: 2.5 Consensus size: 65
844351 TGCACTAAGA
* *
844361 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * *
844425 GTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
844488 AT
65 -G
844490 GTGCATCGATGCATCAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
844521 CAATTTCATT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 28 0.33
65 55 0.64
66 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:853132 original size:66 final size:65
Alignment explanation
Indices: 853007--853158 Score: 211
Period size: 66 Copynumber: 2.3 Consensus size: 65
852997 GGACCCTTAG
* *
853007 TGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTGCATCGA
1 TGCATCAAATGCATTCGATGTTTTCAAAATAGCCAAAGTGCATCGATGCATGGCTGGTGCATCGA
* *
853071 TGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTAAAGTGCATCGATGCATGG-TATGTGCAT
1 TGCATCAAATGCATTCGATGTTTTCA-AAATAGCC-AAAGTGCATCGATGCATGGCT-GGTGCAT
853134 CGA
63 CGA
*
853137 TGCATGAAATGCATTCGATGTT
1 TGCATCAAATGCATTCGATGTT
853159 CAATTTAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
64 19 0.24
65 9 0.11
66 51 0.65
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (65 bp):
TGCATCAAATGCATTCGATGTTTTCAAAATAGCCAAAGTGCATCGATGCATGGCTGGTGCATCGA
Found at i:857472 original size:12 final size:13
Alignment explanation
Indices: 857450--857478 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
857440 ATAAATTAAA
857450 TTAAAAATTAT-T
1 TTAAAAATTATCT
857462 TTAAAAATTATCT
1 TTAAAAATTATCT
857475 TTAA
1 TTAA
857479 TCGAAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAAATTATCT
Found at i:861094 original size:13 final size:13
Alignment explanation
Indices: 861076--861102 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
861066 TTCTTTGAGT
861076 CATATTGTAACCC
1 CATATTGTAACCC
861089 CATATTGTAACCC
1 CATATTGTAACCC
861102 C
1 C
861103 CTCAGACCGA
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:0.33, G:0.07, T:0.30
Consensus pattern (13 bp):
CATATTGTAACCC
Found at i:865023 original size:34 final size:34
Alignment explanation
Indices: 864984--865049 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
864974 CACACTTTTC
*
864984 TTATTTCCCTTCTTCTTCCACGCCTAATTCCTTT
1 TTATTTCCCTTCTTCTTCCACGCATAATTCCTTT
865018 TTATTTCCCTTCTTCTTCCACGCATAATTCCT
1 TTATTTCCCTTCTTCTTCCACGCATAATTCCT
865050 GTTAATAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.14, C:0.35, G:0.03, T:0.48
Consensus pattern (34 bp):
TTATTTCCCTTCTTCTTCCACGCATAATTCCTTT
Found at i:875501 original size:17 final size:17
Alignment explanation
Indices: 875488--875520 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
875478 CGAATGCATT
875488 CCATGCATCGATGCACA
1 CCATGCATCGATGCACA
*
875505 CCATGCACCGATGCAC
1 CCATGCATCGATGCAC
875521 TGAGGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.15
Consensus pattern (17 bp):
CCATGCATCGATGCACA
Found at i:880388 original size:64 final size:62
Alignment explanation
Indices: 880242--880391 Score: 162
Period size: 63 Copynumber: 2.4 Consensus size: 62
880232 GAATTAAATT
* * *
880242 GAACATCGAATGCATTCCATGAATCGATGCACACCATGCACCGATGCACTGAGGATTTTATAA
1 GAACATCGAATGCATT-GATGCATCGATGCACAACATGCACCGATGCACTGAGGATTTTATAA
* *
880305 GAACATCGAATGCATTTGATGCATCGATGCACCAGACATGCATCGATGCACTCG-GGCTATTT-T
1 GAACATCGAATGCA-TTGATGCATCGATGCA-CA-ACATGCACCGATGCACT-GAGGAT-TTTAT
*
880368 GA
61 AA
880370 -AACATCGAATGCACTTGATGCA
1 GAACATCGAATGCA-TTGATGCA
880392 CTCTTAGTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
63 26 0.35
64 25 0.33
65 20 0.27
66 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (62 bp):
GAACATCGAATGCATTGATGCATCGATGCACAACATGCACCGATGCACTGAGGATTTTATAA
Found at i:886411 original size:94 final size:94
Alignment explanation
Indices: 886250--886438 Score: 351
Period size: 94 Copynumber: 2.0 Consensus size: 94
886240 TAAGCAAAGC
* * *
886250 CCCCCAACATGCGCACTACCACTGCAGCAGTTGGGGAATGCGTGCCGCTCTTCTACTGGTCACTA
1 CCCCCAACATGCGCACTACCACTGCAGCAGTTGGGGAAGGCGTGCCACTCTTCTACTGGCCACTA
886315 CTACACCTCGGCGCCCCTATTGGCTAATT
66 CTACACCTCGGCGCCCCTATTGGCTAATT
886344 CCCCCAACATGCGCACTACCACTGCAGCAGTTGGGGAAGGCGTGCCACTCTTCTACTGGCCACTA
1 CCCCCAACATGCGCACTACCACTGCAGCAGTTGGGGAAGGCGTGCCACTCTTCTACTGGCCACTA
886409 CTACACCTCGGCGCCCCTATTGGCTAATT
66 CTACACCTCGGCGCCCCTATTGGCTAATT
886438 C
1 C
886439 GGCTCCTTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.20, C:0.37, G:0.21, T:0.22
Consensus pattern (94 bp):
CCCCCAACATGCGCACTACCACTGCAGCAGTTGGGGAAGGCGTGCCACTCTTCTACTGGCCACTA
CTACACCTCGGCGCCCCTATTGGCTAATT
Found at i:892299 original size:24 final size:24
Alignment explanation
Indices: 892251--892297 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
892241 ATATGGCATG
*
892251 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
892275 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
892298 ATAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:892554 original size:31 final size:31
Alignment explanation
Indices: 892513--892668 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
892503 AGGGTCGAGG
892513 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
892544 GTTTAGCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
892575 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
892606 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
892637 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
892668 G
1 G
892669 GTCCTTCGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:893713 original size:2 final size:2
Alignment explanation
Indices: 893706--893742 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
893696 TTTATTTTAT
893706 TA 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 TA
893743 GTTTGCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:893769 original size:36 final size:35
Alignment explanation
Indices: 893727--893850 Score: 121
Period size: 36 Copynumber: 3.5 Consensus size: 35
893717 ATATATATAT
893727 ATATATATATATTATAG-TTTGCAAATG-ATTTTTGAA
1 ATATATATATATTATAGTTTTG-AAA-GCA-TTTTGAA
893763 ATATATATATA-TATAGTTTTGAAAGCATTTTGAA
1 ATATATATATATTATAGTTTTGAAAGCATTTTGAA
* * *
893797 A-ACATATATATTATATAGTTTTTAAAACATTTTGGAA
1 ATATATATATA-T-TATAGTTTTGAAAGCATTTT-GAA
*
893834 ACATATATATATATATA
1 ATATATATATAT-TATA
893851 TATATATATA
Statistics
Matches: 77, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
33 8 0.10
34 9 0.12
35 9 0.12
36 33 0.43
37 10 0.13
38 8 0.10
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (35 bp):
ATATATATATATTATAGTTTTGAAAGCATTTTGAA
Found at i:893843 original size:2 final size:2
Alignment explanation
Indices: 893836--893997 Score: 226
Period size: 2 Copynumber: 82.5 Consensus size: 2
893826 TTTTGGAAAC
893836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
893878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
893919 AT AT AT AT AT AGT TT CT A- AA AC AT -T TT GA- AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
893960 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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 A
893998 GTTTTAAAAA
Statistics
Matches: 147, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
1 5 0.03
2 141 0.96
3 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:894176 original size:41 final size:38
Alignment explanation
Indices: 893984--894204 Score: 213
Period size: 41 Copynumber: 5.8 Consensus size: 38
893974 ATATATATAT
* * *
893984 ATATATATAATATAGTTTTAAAAACATTTTGAAAA-AA
1 ATATATATTATATAGTTTTTAAAACATTTTGAAAACAC
* *
894021 ATATATATAATATATAGTTTTTAAAAAAATTTG-AAA-AC
1 ATATATAT--TATATAGTTTTTAAAACATTTTGAAAACAC
* * * * *
894059 TTATATAATATATAGTTCTTAAAACATTTTAAAAACAT
1 ATATATATTATATAGTTTTTAAAACATTTTGAAAACAC
*
894097 ATATATATTATATAGTTTTTTTAAAAACATTTTAAAAACAC
1 ATATATATTATATAG--TTTTT-AAAACATTTTGAAAACAC
894138 ATATATATTATATAGTTTTTAAAATCAGTTTTTGAAAAC-C
1 ATATATATTATATAGTTTTTAAAA-CA--TTTTGAAAACAC
*
894178 -TATA-A-TATATAGTTTTTAAAATATTTT
1 ATATATATTATATAGTTTTTAAAACATTTT
894205 ATTTTTGGAA
Statistics
Matches: 156, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
34 4 0.03
36 20 0.13
37 27 0.17
38 29 0.19
39 30 0.19
40 5 0.03
41 41 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (38 bp):
ATATATATTATATAGTTTTTAAAACATTTTGAAAACAC
Found at i:894195 original size:76 final size:71
Alignment explanation
Indices: 893982--894198 Score: 186
Period size: 79 Copynumber: 2.8 Consensus size: 71
893972 ATATATATAT
*
893982 ATATATATATAATATAGTT-TTAAAAACATTTTGAAAAAAATATATATAATATATAGTTTTTAAA
1 ATATATA-AT-ATATAGTTCTT-AAAACATTTT---AAAAACA-ATATAATATATAGTTTTTAAA
*
894046 AAAATTTGAAAAC
59 AAAATTTAAAAAC
*
894059 TTATATAATATATAGTTCTTAAAACATTTTAAAAACATATATATATTATATAGTTTTTTTAAAAA
1 ATATATAATATATAGTTCTTAAAACATTTTAAAAACA-ATATA-A-TATATAG--TTTTTAAAAA
*
894124 CATTTTAAAAACAC
61 -AATTT-AAAA-AC
* * * *
894138 ATATATATTATATAGTTTTTAAAATCAGTTTTTGAAAAC-CTATAATATATAGTTTTTAAAA
1 ATATATAATATATAGTTCTTAAAA-CA--TTTTAAAAACAATATAATATATAGTTTTTAAAA
894199 TATTTTATTT
Statistics
Matches: 120, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
72 12 0.10
73 1 0.01
74 7 0.06
75 18 0.15
76 23 0.19
77 10 0.08
78 10 0.08
79 24 0.20
80 6 0.05
82 9 0.08
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (71 bp):
ATATATAATATATAGTTCTTAAAACATTTTAAAAACAATATAATATATAGTTTTTAAAAAAATTT
AAAAAC
Found at i:894267 original size:28 final size:29
Alignment explanation
Indices: 894221--894276 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
894211 GGAAATATAG
*
894221 TATTATATATATATATTATTATTATTTTTA
1 TATTATATATATATATTATT-TAATTTTTA
*
894251 TATTATATCT-TAT-TTATTTAATTTTT
1 TATTATATATATATATTATTTAATTTTT
894277 TCTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 5 0.21
29 3 0.12
30 9 0.38
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTATATATATATATTATTTAATTTTTA
Found at i:895501 original size:24 final size:24
Alignment explanation
Indices: 895451--895501 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
895441 TTTGTTAATA
* **
895451 TTTATTTTTTCAACATTTTTCCAT
1 TTTATTTTTTCAAAATTTAACCAT
*
895475 TTTATTTTTTCAAAATTTAACCCT
1 TTTATTTTTTCAAAATTTAACCAT
895499 TTT
1 TTT
895502 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTATTTTTTCAAAATTTAACCAT
Found at i:895575 original size:26 final size:26
Alignment explanation
Indices: 895511--895576 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
895501 TTTGTTATTA
*
895511 TTATTTTATTATTTTTCCTTTTTACT
1 TTATTTTATTATTTATCCTTTTTACT
** *
895537 AAATTTTATTTATTTATCTTTATTTA-T
1 TTATTTTA-TTATTTATCCTT-TTTACT
895564 TTATTTTATTATT
1 TTATTTTATTATT
895577 ATTATATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 11 0.34
27 17 0.53
28 4 0.12
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (26 bp):
TTATTTTATTATTTATCCTTTTTACT
Found at i:895610 original size:45 final size:46
Alignment explanation
Indices: 895561--895650 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
895551 TATCTTTATT
* **
895561 TATTTA-TTTTATTATTATTATATT-A-ATATTTTTTTCTTTTTTTCC
1 TATTTATTTTTATT-TTATCAT-TTAACATATTTTTGACTTTTTTTCC
895606 TATTTATTTTTATTTTATCATTTAACATATTTTTGACTTTTTTTC
1 TATTTATTTTTATTTTATCATTTAACATATTTTTGACTTTTTTTC
895651 AGTAGTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
44 2 0.05
45 13 0.33
46 24 0.62
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.69
Consensus pattern (46 bp):
TATTTATTTTTATTTTATCATTTAACATATTTTTGACTTTTTTTCC
Found at i:895718 original size:13 final size:13
Alignment explanation
Indices: 895700--895724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
895690 CAGATTTTTT
895700 AAATTTTAATTTA
1 AAATTTTAATTTA
895713 AAATTTTAATTT
1 AAATTTTAATTT
895725 TCACGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTTAATTTA
Found at i:896868 original size:23 final size:23
Alignment explanation
Indices: 896819--896869 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
896809 GTGTTATATT
**
896819 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
896842 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
896865 ATATT
1 ATATT
896870 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:896925 original size:19 final size:19
Alignment explanation
Indices: 896857--896937 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
896847 TTAAATATCT
896857 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
896876 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
896895 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
896915 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
896933 -TATTA
1 TTATTA
896938 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:897064 original size:17 final size:17
Alignment explanation
Indices: 897042--897080 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
897032 TTGATTATTT
897042 TATTATAATATTAAAAA
1 TATTATAATATTAAAAA
* *
897059 TATTATATTATTAGAAA
1 TATTATAATATTAAAAA
897076 TATTA
1 TATTA
897081 ATAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTATAATATTAAAAA
Found at i:897272 original size:67 final size:67
Alignment explanation
Indices: 897162--897360 Score: 281
Period size: 67 Copynumber: 3.0 Consensus size: 67
897152 AAATTCATAA
* * * *
897162 AATAACAAAGGTTAACTTCTCTTCACGAGGAAGTCAAGAATTGACTCTTCTTCACGAGGGAGTCA
1 AATAACAAAGGTTGATTTCTCTTCACGAGGAAGTCAAGAATTGACTCATCTTCACAAGGGAGTCA
897227 GG
66 GG
* * * *
897229 AATAACAAAGGTTGATTTCTCTTCACGTGGAAGTCAAGGATTGACTCATCTTCGCAAGGGATTCA
1 AATAACAAAGGTTGATTTCTCTTCACGAGGAAGTCAAGAATTGACTCATCTTCACAAGGGAGTCA
897294 GG
66 GG
* * * **
897296 AATAACAAAGGTTGATTTCTCTTCACAAGGAAGTCAAGTATTGACTCCTCTTCGTAAGGGAGTCA
1 AATAACAAAGGTTGATTTCTCTTCACGAGGAAGTCAAGAATTGACTCATCTTCACAAGGGAGTCA
897361 AGTTGAAGCT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 118 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (67 bp):
AATAACAAAGGTTGATTTCTCTTCACGAGGAAGTCAAGAATTGACTCATCTTCACAAGGGAGTCA
GG
Found at i:905183 original size:17 final size:19
Alignment explanation
Indices: 905163--905204 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
905153 AAATTTTAGA
905163 TATTT-ATAAAAAA-AAAT
1 TATTTAATAAAAAATAAAT
*
905180 TATTTGAATAAAAAATATAT
1 TATTT-AATAAAAAATAAAT
905200 TATTT
1 TATTT
905205 TATTCAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TATTTAATAAAAAATAAAT
Found at i:908421 original size:55 final size:56
Alignment explanation
Indices: 908334--908445 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 56
908324 GTAACAATTA
* * *
908334 ATACATATTTACACCGATATAAATATGTACA-TCTCAATATCTTAACAATTAACAC
1 ATACATACTTACACAGATATAAATATGCACACTCTCAATATCTTAACAATTAACAC
* * * *
908389 ATACATACTTACACAGGTGTAAGTATGCACATCTCTCAATATCTTAGCAATTAACAC
1 ATACATACTTACACAGATATAAATATGCACA-CTCTCAATATCTTAACAATTAACAC
908446 GTATTTACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 25 0.52
57 23 0.48
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (56 bp):
ATACATACTTACACAGATATAAATATGCACACTCTCAATATCTTAACAATTAACAC
Found at i:908442 original size:57 final size:53
Alignment explanation
Indices: 908328--908488 Score: 164
Period size: 53 Copynumber: 3.0 Consensus size: 53
908318 GAAATTGTAA
* * * * * *
908328 CAATTAATACATATTTACACCGATATAAATATGTAC--ATCTCAATATCTTAA
1 CAATTAACACATATTTACACAGGTGTAAATATGCACATATCTCAATATCTTAG
* *
908379 CAATTAACACATACATACTTACACAGGTGTAAGTATGCACATCTCTCAATATCTTAG
1 CAATTAACACAT--AT--TTACACAGGTGTAAATATGCACATATCTCAATATCTTAG
* * * *
908436 CAATTAACACGTATTTACACTGGTGTAAATATGTATATATCTCAATATCTTAG
1 CAATTAACACATATTTACACAGGTGTAAATATGCACATATCTCAATATCTTAG
908489 TACTTAAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
51 11 0.12
53 36 0.40
55 19 0.21
57 24 0.27
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (53 bp):
CAATTAACACATATTTACACAGGTGTAAATATGCACATATCTCAATATCTTAG
Found at i:908881 original size:2 final size:2
Alignment explanation
Indices: 908874--908900 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
908864 TGGTTGATGA
908874 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
908901 AACGTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:909273 original size:32 final size:34
Alignment explanation
Indices: 909210--909284 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 34
909200 TCGAGCCGGG
909210 TATATATA-TTTAAATTAAATATATAAATATT-A
1 TATATATATTTTAAATTAAATATATAAATATTAA
* *
909242 TATATATATTTTAATTTAAAT-TA-AATTTATTAA
1 TATATATATTTTAAATTAAATATATAA-ATATTAA
909275 TATTATATAT
1 TA-TATATAT
909285 ATATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 2 0.05
32 14 0.38
33 14 0.38
34 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
TATATATATTTTAAATTAAATATATAAATATTAA
Found at i:912646 original size:20 final size:20
Alignment explanation
Indices: 912620--912668 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
912610 AGAAGTTAAA
*
912620 AGAGTATATATTAAATTGAT
1 AGAGTATAAATTAAATTGAT
*
912640 TGAGTATAAATTAAATTGAT
1 AGAGTATAAATTAAATTGAT
912660 AGAGTATAA
1 AGAGTATAA
912669 TGCCAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (20 bp):
AGAGTATAAATTAAATTGAT
Found at i:916012 original size:31 final size:31
Alignment explanation
Indices: 915974--916127 Score: 265
Period size: 31 Copynumber: 5.0 Consensus size: 31
915964 CCCGAAGGAC
* *
915974 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
916005 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
916036 CAGTCCATATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
916067 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
916098 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
916128 CCCTCGACCC
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:916831 original size:20 final size:21
Alignment explanation
Indices: 916802--916845 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
916792 ATTCTGTTGT
*
916802 TTGAAGGGGTA-CGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
916822 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
916843 TTG
1 TTG
916846 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:920669 original size:31 final size:31
Alignment explanation
Indices: 920631--920784 Score: 265
Period size: 31 Copynumber: 5.0 Consensus size: 31
920621 CCCGAATGAC
* *
920631 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
920662 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
920693 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
920724 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
920755 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
920785 CCCTCGACCC
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:921489 original size:21 final size:21
Alignment explanation
Indices: 921459--921503 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
921449 ATTCTGTCGT
* *
921459 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
921480 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
921501 TTG
1 TTG
921504 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:928561 original size:63 final size:64
Alignment explanation
Indices: 928479--928729 Score: 391
Period size: 63 Copynumber: 3.9 Consensus size: 64
928469 TTTCCAAATT
* * *
928479 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTCTTCCAAATT-CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCCGTTGCGATAGTCCAAGTTCG
* *
928542 TGTTGCGATAGTCAAAGTTCACGTTGCGATTTATTCCAAATT-CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCCGTTGCGATAGTCCAAGTTCG
*
928605 CGTTGCGATAGTCGAAGTTCGA-GTTGCGATTTATTCCAAGTTCGCGTTGCGATAGTCCAAGTTC
1 CGTTGCGATAGTCGAAGTTC-ACGTTGCGATTTATTCCAAATTC-CGTTGCGATAGTCCAAGTTC
928669 G
64 G
*
928670 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAGTTCGCGTTGCGATAGTCCAA
1 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTC-CGTTGCGATAGTCCAA
928730 AATCGCAACG
Statistics
Matches: 177, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
63 96 0.54
64 2 0.01
65 79 0.45
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (64 bp):
CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCCGTTGCGATAGTCCAAGTTCG
Found at i:928735 original size:21 final size:21
Alignment explanation
Indices: 928479--928729 Score: 276
Period size: 21 Copynumber: 11.8 Consensus size: 21
928469 TTTCCAAATT
928479 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
** *
928500 CGTTGCGATTTCTTCCAAATT--
1 CGTTGCGA--TAGTCCAAGTTCG
928521 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* * *
928542 TGTTGCGATAGTCAAAGTTCA
1 CGTTGCGATAGTCCAAGTTCG
* *
928563 CGTTGCGATTTATTCCAAATT--
1 CGTTGCGA--TAGTCCAAGTTCG
928584 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
928605 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
928626 AGTTGCGATTTATTCCAAGTTCG
1 CGTTGCGA--TAGTCCAAGTTCG
928649 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
928670 CGTTGCGATAGTCGAAGTTCA
1 CGTTGCGATAGTCCAAGTTCG
*
928691 CGTTGCGATTTATTCCAAGTTCG
1 CGTTGCGA--TAGTCCAAGTTCG
928714 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
928730 AATCGCAACG
Statistics
Matches: 191, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
19 17 0.09
21 122 0.64
23 52 0.27
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:928827 original size:6 final size:6
Alignment explanation
Indices: 928816--928850 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
928806 GAAGACACGT
928816 ACGACC ACGACC ACGACC ACGACC ACGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
928851 CGAGACGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.31, C:0.51, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:928859 original size:5 final size:5
Alignment explanation
Indices: 928851--928886 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
928841 CGACCCGACC
928851 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA C-AGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
928887 GCGGCGACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.39, C:0.22, G:0.39, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:929650 original size:21 final size:21
Alignment explanation
Indices: 929626--929737 Score: 92
Period size: 21 Copynumber: 5.4 Consensus size: 21
929616 ATTTTGGACT
*
929626 ATCGCAACGAATTTGTAATAA
1 ATCGCAACGAATTTGGAATAA
* *
929647 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
929668 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
929689 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
929710 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
929729 ATCGCAACG
1 ATCGCAACG
929738 CGAACTTCGA
Statistics
Matches: 72, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
19 26 0.36
21 28 0.39
23 18 0.25
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:929753 original size:21 final size:21
Alignment explanation
Indices: 929647--929773 Score: 136
Period size: 21 Copynumber: 6.1 Consensus size: 21
929637 TTTGTAATAA
929647 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* * *
929668 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
929687 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* **
929710 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
929729 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
929750 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
929771 ATC
1 ATC
929774 ATAATGCAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
19 25 0.29
21 51 0.60
23 9 0.11
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:929768 original size:42 final size:41
Alignment explanation
Indices: 929619--929758 Score: 228
Period size: 42 Copynumber: 3.4 Consensus size: 41
929609 CGTTGCGATT
*
929619 TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTG-GATAAATCGCAACGCGAAC
*
929661 TTGGACTATCGCAACAAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGG-ATAAATCGCAACGCGAAC
929703 TTGGACTATCGCAACGAATTTGGA-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGATAAATCGCAACGCGAAC
*
929743 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
929759 TGAACTTGGA
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 31 0.33
41 1 0.01
42 61 0.66
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
TTGGACTATCGCAACGAATTTGGATAAATCGCAACGCGAAC
Found at i:935628 original size:21 final size:21
Alignment explanation
Indices: 935604--935648 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
935594 GGACTGACTT
935604 GACATGAAGGAATTGGGCTTG
1 GACATGAAGGAATTGGGCTTG
935625 GACATGAAGGAATTGGGCTTG
1 GACATGAAGGAATTGGGCTTG
935646 GAC
1 GAC
935649 TCATTGGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.11, G:0.38, T:0.22
Consensus pattern (21 bp):
GACATGAAGGAATTGGGCTTG
Found at i:936140 original size:128 final size:128
Alignment explanation
Indices: 935901--936140 Score: 324
Period size: 128 Copynumber: 1.9 Consensus size: 128
935891 TTTTTCAATG
* * * *
935901 TTCATCAATGTTTCATTTCAGCTATTTAATGAAGCTTCAGTTCTAACACAGATCAATGAATGATT
1 TTCATCAATATTTCATTTCAGCTATTCAATAAAGCTTCAGTTCCAACACAGATCAATGAATGATT
* * * * * **
935966 GTCTATGTCACAACTGGTAGTTTGAAGAATAACCACTTCCATTTTTTATCCAATATTTAACGT
66 CTCTATGTAACAACTGCTAGTTTCAAGAACAAAAACTTCCATTTTTTATCCAATATTTAACGT
936029 TTCATCAATATTTCATTTCAGCTATTCAATAAAG-TTCCAGTTCCAACACAGATCAATGAATGAT
1 TTCATCAATATTTCATTTCAGCTATTCAATAAAGCTT-CAGTTCCAACACAGATCAATGAATGAT
936093 TCTCCCTAAT-TAACAACTGCTAG-TTCAAGAACAAAAACTTCCATTTTT
65 TCT--CT-ATGTAACAACTGCTAGTTTCAAGAACAAAAACTTCCATTTTT
936141 CACCCAAGTA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
127 2 0.02
128 59 0.61
129 21 0.22
130 13 0.13
131 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (128 bp):
TTCATCAATATTTCATTTCAGCTATTCAATAAAGCTTCAGTTCCAACACAGATCAATGAATGATT
CTCTATGTAACAACTGCTAGTTTCAAGAACAAAAACTTCCATTTTTTATCCAATATTTAACGT
Found at i:936853 original size:15 final size:15
Alignment explanation
Indices: 936828--936875 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
936818 ATTTTAAAAT
936828 AATATATATTTATTAA
1 AATA-ATATTTATTAA
*
936844 AATAATATTT-TTTA
1 AATAATATTTATTAA
936858 AAT--TATTTATTAA
1 AATAATATTTATTAA
936871 AATAA
1 AATAA
936876 CATCAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 5 0.19
13 6 0.22
14 6 0.22
15 6 0.22
16 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATATTTATTAA
Found at i:937868 original size:19 final size:20
Alignment explanation
Indices: 937844--937897 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
937834 GTATCAATTT
937844 AAAATATAATAAAAAC-ATA
1 AAAATATAATAAAAACAATA
*
937863 AAAATACAA-ATAAAACAATA
1 AAAATATAATA-AAAACAATA
* *
937883 TAATTATAATAAAAA
1 AAAATATAATAAAAA
937898 ATATTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 13 0.46
21 1 0.04
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATAATAAAAACAATA
Found at i:937908 original size:25 final size:24
Alignment explanation
Indices: 937879--937933 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
937869 CAAATAAAAC
937879 AATATAATTATAATAAAAAATATTTT
1 AATATAATT-TAAT-AAAAATATTTT
* *
937905 -ATATAATTTACTATAAATATTTT
1 AATATAATTTAATAAAAATATTTT
937928 AATATA
1 AATATA
937934 TAAATCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 10 0.38
24 8 0.31
25 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AATATAATTTAATAAAAATATTTT
Found at i:939534 original size:2 final size:2
Alignment explanation
Indices: 939521--939599 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
939511 CTTTTAAAAC
*
939521 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
939563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
939600 AACACTACCC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:939813 original size:24 final size:24
Alignment explanation
Indices: 939786--939868 Score: 139
Period size: 24 Copynumber: 3.5 Consensus size: 24
939776 AATAATTCAG
*
939786 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
*
939810 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
939834 GTCAAGTATCAAATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
939858 GTCAAGTATCA
1 GTCAAGTATCA
939869 TAACAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:941712 original size:24 final size:24
Alignment explanation
Indices: 941678--941749 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
941668 CTTTATCACT
* *
941678 GATCAGAATCCATGTCAAGTATTA
1 GATCAGAATCCAAGTCAAGTATCA
*
941702 GATCAGGATCCAAGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
* *
941726 AATCAGAATCCAGGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
941750 TAACAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (24 bp):
GATCAGAATCCAAGTCAAGTATCA
Found at i:943592 original size:24 final size:24
Alignment explanation
Indices: 943558--943629 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
943548 CTTTATCACT
* *
943558 GATCAGAATCCATGTCAAGTATTA
1 GATCAGAATCCAAGTCAAGTATCA
* *
943582 GATCAGGATCCAAGTCACGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
* *
943606 AATCAGAATCCAGGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
943630 TAACAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
GATCAGAATCCAAGTCAAGTATCA
Found at i:945464 original size:24 final size:24
Alignment explanation
Indices: 945437--945508 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
945427 CTTTATCACT
* * * *
945437 GATCATAATCCATGTTAAGTATTA
1 GATCAGAATCCAAGTCAAGTATCA
*
945461 GATCAGGATCCAAGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
* *
945485 AATCAGAATCCAGGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
945509 TAACAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (24 bp):
GATCAGAATCCAAGTCAAGTATCA
Done.