Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 39
Found at i:852840 original size:21 final size:21
Alignment explanation
Indices: 852814--852855 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
852804 ATGACAAAGA
852814 CTCTGATGAGATTCAGAATTG
1 CTCTGATGAGATTCAGAATTG
*
852835 CTCTGATGAGGTTCAGAATTG
1 CTCTGATGAGATTCAGAATTG
852856 GGTTTCGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (21 bp):
CTCTGATGAGATTCAGAATTG
Found at i:853430 original size:33 final size:34
Alignment explanation
Indices: 853363--853449 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 34
853353 AATGGTAATA
* *
853363 AACAAAATTATCAAAATATATTAACAAAAAATCC
1 AACAAAATTAACAAAATAAATTAACAAAAAATCC
* *
853397 AACAAAATAAACAAAATAAATT-ATAAAAAATCC
1 AACAAAATTAACAAAATAAATTAACAAAAAATCC
*
853430 AACCAAATTAACAAAATAAA
1 AACAAAATTAACAAAATAAA
853450 GTAAATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 28 0.60
34 19 0.40
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.20
Consensus pattern (34 bp):
AACAAAATTAACAAAATAAATTAACAAAAAATCC
Found at i:853533 original size:17 final size:18
Alignment explanation
Indices: 853515--853547 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
853505 TAATTAAATA
853515 AAATA-TTAAA-AAATTT
1 AAATACTTAAATAAATTT
853531 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
853548 ACAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATACTTAAATAAATTT
Found at i:858049 original size:23 final size:23
Alignment explanation
Indices: 858031--858114 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
858021 CTCGTATAAA
*
858031 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCAAAGTGCCACGTAGAAT
*
858054 TGCACCAAAGTGCCGCGTAGAAT
1 TGCACCAAAGTGCCACGTAGAAT
*
858077 TGCACCAAAGTGCCGCGTAGAAT
1 TGCACCAAAGTGCCACGTAGAAT
* **
858100 TACACCGTAGTGCCA
1 TGCACCAAAGTGCCA
858115 TATAAAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCAAAGTGCCACGTAGAAT
Found at i:860631 original size:18 final size:18
Alignment explanation
Indices: 860575--860625 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
860565 AACCTTTACT
860575 ATGACAATAGAAATGGAA
1 ATGACAATAGAAATGGAA
860593 ATGACAATAGAAATGGAA
1 ATGACAATAGAAATGGAA
*
860611 ATGACAATAGCAATG
1 ATGACAATAGAAATG
860626 ATAATGTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.53, C:0.08, G:0.22, T:0.18
Consensus pattern (18 bp):
ATGACAATAGAAATGGAA
Found at i:862233 original size:19 final size:19
Alignment explanation
Indices: 862209--862248 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
862199 TTCACGAAGT
862209 TATATTTAATATAAAAATA
1 TATATTTAATATAAAAATA
* *
862228 TATATTTAATGTGAAAATA
1 TATATTTAATATAAAAATA
862247 TA
1 TA
862249 GAAGAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATATTTAATATAAAAATA
Found at i:864024 original size:25 final size:26
Alignment explanation
Indices: 863991--864047 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
863981 ATTTTGTTAA
*
863991 TTTGATTGGATTTTTT-TATAATTTAT
1 TTTGATTGGATTTTTTGT-TAATATAT
864017 TTTG-TTGGATTTTTTGTTAATATAT
1 TTTGATTGGATTTTTTGTTAATATAT
864042 TTTGAT
1 TTTGAT
864048 AATTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (26 bp):
TTTGATTGGATTTTTTGTTAATATAT
Found at i:870152 original size:24 final size:23
Alignment explanation
Indices: 870125--870171 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
870115 CTTTTGGGAT
870125 GAAATGAAATAACTATTTTTCATG
1 GAAA-GAAATAACTATTTTTCATG
** *
870149 GAAAGACTTAATTATTTTTCATG
1 GAAAGAAATAACTATTTTTCATG
870172 AATAGAGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
GAAAGAAATAACTATTTTTCATG
Found at i:871919 original size:3 final size:3
Alignment explanation
Indices: 871904--871985 Score: 76
Period size: 3 Copynumber: 27.0 Consensus size: 3
871894 TATATCATTT
* * * * *
871904 TTA TTA GTA TTA TTA TTT TTA TTA TTA TTA ATA TTA TTA TTA ATA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
871952 ATA ATA TTA TTA TGCTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA
871986 AATAATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.03
3 64 0.94
5 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:873320 original size:15 final size:14
Alignment explanation
Indices: 873282--873332 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
873272 CACTGTTTAA
873282 TTAT-TATTTAATT
1 TTATATATTTAATT
* *
873295 TTATATGTTTATTT
1 TTATATATTTAATT
873309 TTAATATATTTAATT
1 TT-ATATATTTAATT
873324 ATTAT-TATT
1 -TTATATATT
873333 ATTTAGTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 13 0.42
15 12 0.39
16 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:873410 original size:29 final size:29
Alignment explanation
Indices: 873344--873410 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
873334 TTTAGTCATA
** *
873344 TATATAAATAATATTTATTTATTTATTTT
1 TATATAAATAATATTTATAAATTTAATTT
* * **
873373 TAAAAAAATCCTATTTATAAATTTAATTT
1 TATATAAATAATATTTATAAATTTAATTT
873402 TATATAAAT
1 TATATAAAT
873411 TACTTTTAGG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TATATAAATAATATTTATAAATTTAATTT
Found at i:875793 original size:35 final size:34
Alignment explanation
Indices: 875750--875836 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
875740 GTTACATTCA
* * *
875750 CATATTTACATTTGTATTTGCATTTTTCATTTTTG
1 CATATTTACATTTGTATTTACA-TTTGCATCTTTG
* *
875785 CATTTTTACGTTTGTATTTACATTTGCATCTTTG
1 CATATTTACATTTGTATTTACATTTGCATCTTTG
*
875819 CATAATTACATTT-TATTT
1 CATATTTACATTTGTATTT
875837 CAAACTATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 5 0.11
34 20 0.45
35 19 0.43
ACGTcount: A:0.22, C:0.13, G:0.08, T:0.57
Consensus pattern (34 bp):
CATATTTACATTTGTATTTACATTTGCATCTTTG
Found at i:876081 original size:42 final size:42
Alignment explanation
Indices: 876034--876117 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
876024 ATATATGATT
* * ** *
876034 GATCAAATAAAAAAGTTCCAAGGTGATTCAAATGAACAAATG
1 GATCAAACAAAAAAATTCCAACATGATTCAAAAGAACAAATG
* *
876076 GATCAAGCAAAAAAATTCCAACATGATTCAAAAGAGCAAATG
1 GATCAAACAAAAAAATTCCAACATGATTCAAAAGAACAAATG
876118 ACAAAACTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.19
Consensus pattern (42 bp):
GATCAAACAAAAAAATTCCAACATGATTCAAAAGAACAAATG
Found at i:878655 original size:11 final size:10
Alignment explanation
Indices: 878631--878706 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 10
878621 CTTTCATCAG
878631 AAAAA-AGAA
1 AAAAAGAGAA
878640 AAAAAGAGATA
1 AAAAAGAGA-A
878651 AAAAAGA-AA
1 AAAAAGAGAA
*
878660 AAAAAAAG-A
1 AAAAAGAGAA
*
878669 AAAAAGAAAA
1 AAAAAGAGAA
*
878679 AAGAAAAAGAA
1 AA-AAAGAGAA
*
878690 AAAGAAAAGAA
1 AAA-AAGAGAA
878701 GAAAAA
1 -AAAAA
878707 ATTTTAAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
9 19 0.35
10 8 0.15
11 25 0.45
12 3 0.05
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:878655 original size:19 final size:19
Alignment explanation
Indices: 878631--878707 Score: 95
Period size: 19 Copynumber: 4.1 Consensus size: 19
878621 CTTTCATCAG
* *
878631 AAAAAAGAAAAAAAGAGAT
1 AAAAAAGAAAAAAAGAAAA
*
878650 AAAAAAGAAAAAAA-AAAG
1 AAAAAAGAAAAAAAGAAAA
878668 AAAAAAG-AAAAAAGAAAA
1 AAAAAAGAAAAAAAGAAAA
*
878686 AGAAAAAGAAAAGAAGAAAA
1 A-AAAAAGAAAAAAAGAAAA
878706 AA
1 AA
878708 TTTTAAATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
17 6 0.12
18 13 0.25
19 21 0.41
20 11 0.22
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (19 bp):
AAAAAAGAAAAAAAGAAAA
Found at i:878660 original size:6 final size:6
Alignment explanation
Indices: 878651--878697 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
878641 AAAAGAGATA
878651 AAAAAG AAAAA- AAAAAG AAAAAAG AAAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG -AAAAAG AAAAAG AAAAAG AAAA
878698 GAAGAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.13
6 21 0.54
7 13 0.33
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:881276 original size:54 final size:54
Alignment explanation
Indices: 881211--881314 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
881201 CTGACCAGAA
*
881211 ATCTGTGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATATTTTACAAAC
1 ATCTGAGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATATTTTACAAAC
* * *
881265 ATCTGAGCAGAAGTCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 ATCTGAGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATATTTTAC
881315 GAACCATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (54 bp):
ATCTGAGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATATTTTACAAAC
Found at i:881768 original size:22 final size:22
Alignment explanation
Indices: 881677--881759 Score: 123
Period size: 22 Copynumber: 3.8 Consensus size: 22
881667 GCATATTATC
*
881677 GATTCTCTCTTCAAAGATGATA
1 GATTCTCTCTTCAAAGATAATA
881699 GATTCTCTCTTCAAAGATAATA
1 GATTCTCTCTTCAAAGATAATA
* *
881721 GATTCTTTTTTCAAAGATAATA
1 GATTCTCTCTTCAAAGATAATA
881743 GATTCTC-CTTTCAAAGA
1 GATTCTCTC-TTCAAAGA
881760 AGAAAGATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.39
Consensus pattern (22 bp):
GATTCTCTCTTCAAAGATAATA
Found at i:882377 original size:20 final size:20
Alignment explanation
Indices: 882315--882378 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
882305 TCCAGAGAAA
882315 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
882335 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
882354 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
882374 GTTCA
1 GTTCA
882379 ACCTTTTGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:882451 original size:123 final size:123
Alignment explanation
Indices: 882299--882628 Score: 493
Period size: 123 Copynumber: 2.7 Consensus size: 123
882289 TCGATGGATA
882299 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATG
1 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATG
*
882364 AGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGAAGATAGATCAACATC
66 AGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGAAGATAAATCAACATC
** * *
882422 AACTTTTTTAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAAAGGAAGAAGAAGTTCATAATG
1 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATG
* **
882487 AGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAAATCAGTATC
66 AGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGAAGATAAATCAACATC
* ** * * * *
882545 AACATTTCCAGA-AGTGTTCATAATAAGAAAAACTCATTTGAAGAAGG-AGAAGAAGTTCATAAT
1 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAAT
*
882608 GAGAAGAATTTGTTCAACCTT
65 GAGAAGAACTTGTTCAACCTT
882629 GCCTTAATTC
Statistics
Matches: 186, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
122 59 0.32
123 127 0.68
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (123 bp):
AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGAAGATAAATCAACATC
Found at i:882466 original size:236 final size:235
Alignment explanation
Indices: 882047--882509 Score: 694
Period size: 236 Copynumber: 2.0 Consensus size: 235
882037 GATTCAAATC
* * *
882047 CATCATTCGATGGATAAACTTTTCTAGAGAAAGTTCATAATGAGAAGAACTTATGTGAAGAGGAA
1 CATCACTCGATGGATAAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAA
* * * *
882112 GAAGAAGTTCATAATGGGAAGAACTTGTTCAGCCTTTTGCATAACGCTATCGCAAAAGGAGATAG
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACGCTATCACAAAAGAAGATAG
* * * * *
882177 ATCAGCATTAACATTTCCAGAAGGAGTTCATAATGATAAGAACTCATCTGAAAAATGAAGAAGAA
131 ATCAACATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTG-AAAAGGAAGAAGAA
*
882242 GTTCATAATGAGAAAAACTTGTTTAACCTTTTGCTCGAATT
195 GTTCATAATGAGAAAAACTTGTTCAACCTTTTGCTCGAATT
882283 CATCACTCGATGGATAAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAA
1 CATCACTCGATGGATAAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAA
* * * *
882348 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGAAGATAG
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACGCTATCACAAAAGAAGATAG
* ** * *
882413 ATCAACATCAACTTTTTTAG-AGAAAGTTCATAATGAGAAGAATTTATCTGAAAAGGAAGAAGAA
131 ATCAACATCAACATTTCCAGAAG-AAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAA
*
882477 GTTCATAATGAGAAGAACTTGTTCAACCTTTTG
195 GTTCATAATGAGAAAAACTTGTTCAACCTTTTG
882510 TATGACTCTA
Statistics
Matches: 203, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
235 46 0.23
236 157 0.77
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (235 bp):
CATCACTCGATGGATAAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACGCTATCACAAAAGAAGATAG
ATCAACATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAG
TTCATAATGAGAAAAACTTGTTCAACCTTTTGCTCGAATT
Found at i:883003 original size:3 final size:3
Alignment explanation
Indices: 882988--883069 Score: 87
Period size: 3 Copynumber: 28.0 Consensus size: 3
882978 TATATCATTT
* * * * *
882988 TTA TTA GTA TTA TTA TTT TTA TTA TTA TTA ATA TTA TTA TTA ATA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
883036 TAA TTA TTA TTA -TG TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
883070 AATAATAAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 3 0.05
3 62 0.95
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:884800 original size:146 final size:146
Alignment explanation
Indices: 884530--884807 Score: 379
Period size: 146 Copynumber: 1.9 Consensus size: 146
884520 TAATCATATT
884530 TTAATATTTATTTACTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
1 TTAATATTTATTTACTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
* ** **
884595 TGATATTCTTAAATATATAAATATTCTATTTATATAAATTATATATTAATTTATTTTAAT-TATT
66 TGATATTCTTAAATAAATAAATATTCTATTTATATAAAAAATATATTAA-TTAAATTAATATATT
884659 TTTAGAAAAATATTTTA
130 TTTAGAAAAATATTTTA
* *
884676 TTAATATTTATTTA-TTTTTAAATATTAAGAAATGGGTTGTCTTAAAGCACCTATAAGTCATTTT
1 TTAATATTTATTTACTTTTT-AATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTT
*
884740 CTGATATT-TCTAAGTAAATAAATA-TCTTATTTAAATATAAAAAATATA-TACA-TAAATTAAT
65 CTGATATTCT-TAAATAAATAAATATTC-TATTT--ATATAAAAAATATATTA-ATTAAATTAAT
884801 ATATTTT
125 ATATTTT
884808 AAAATAATTG
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
145 8 0.07
146 88 0.75
147 8 0.07
148 13 0.11
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (146 bp):
TTAATATTTATTTACTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
TGATATTCTTAAATAAATAAATATTCTATTTATATAAAAAATATATTAATTAAATTAATATATTT
TTAGAAAAATATTTTA
Found at i:884838 original size:146 final size:144
Alignment explanation
Indices: 884530--884840 Score: 323
Period size: 146 Copynumber: 2.1 Consensus size: 144
884520 TAATCATATT
* *
884530 TTAATATTTATTTACTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
1 TTAATATTAATATA-TTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
* ** **
884595 TGATATTCTTAAATATATAAATATTCTATTTATATAAATTATATATTAATTTATTTTAATTATTT
65 TGATATTCTTAAATAAATAAATATTCTATTTATATAAAAAATATATTAA-TTAAATTAATTATTT
**
884660 TTAGAAAAATATTTTA
129 TTAGAAAAATATTGGA
* * * *
884676 TTAATATTTATTTATTTTTAAATATTAAGAAATGGGTTGTCTTAAAGCACCTATAAGTCATTTTC
1 TTAATATTAATATATTTTT-AATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
*
884741 TGATATT-TCTAAGTAAATAAATA-TCTTATTTAAATATAAAAAATATA-TACA-TAAATTAA-T
65 TGATATTCT-TAAATAAATAAATATTC-TATTT--ATATAAAAAATATATTA-ATTAAATTAATT
*
884801 ATATTTTA-AAATA-ATTGGA
125 AT-TTTTAGAAAAATATTGGA
884820 TTACGA-ATTAAATATATTTTT
1 TTA--ATATT-AATATATTTTT
884841 TAATTCTTAA
Statistics
Matches: 142, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
144 7 0.05
145 18 0.13
146 102 0.72
147 2 0.01
148 13 0.09
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (144 bp):
TTAATATTAATATATTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCT
GATATTCTTAAATAAATAAATATTCTATTTATATAAAAAATATATTAATTAAATTAATTATTTTT
AGAAAAATATTGGA
Found at i:889008 original size:81 final size:79
Alignment explanation
Indices: 888827--889074 Score: 236
Period size: 81 Copynumber: 3.1 Consensus size: 79
888817 CAAGTTTATA
* * * * * *
888827 GCGGCATTTATATAAA-AAC-CTCACTAAAATAAGAGTCTATAGCGGCATTTGTATAAAACCCAC
1 GCGGCGTTTATA-AAACAACGC-CACTAAAGTAATAGTCTATAGCGGCGTTTGTA-AAAAGCCGC
* * *
888890 TAAAGTAAGAGTCTATA
63 TAAAGTAATACTCTATT
* * *
888907 GCAGCGTTTATAAAACAACGCCACTATAGATGA-AGTCTATAGCGGCGTTTGTAAAAAATGCCGC
1 GCGGCGTTTATAAAACAACGCCACTAAAG-TAATAGTCTATAGCGGCGTTTGT-AAAAA-GCCGC
*
888971 TAAAGTATTACTCTATT
63 TAAAGTAATACTCTATT
* * * *
888988 GCGGCGTTTGTATAAA-AACGCCACTAAAGTAATAGTCTATAGCGGTGTTTG-CAAACGCCGCTA
1 GCGGCGTTTATA-AAACAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTGTAAAAAGCCGCTA
*
889051 AAGTACTACTCTATT
65 AAGTAATACTCTATT
889066 GCGGCGTTT
1 GCGGCGTTT
889075 TTATTCTTAT
Statistics
Matches: 141, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
78 30 0.21
79 6 0.04
80 43 0.30
81 59 0.42
82 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (79 bp):
GCGGCGTTTATAAAACAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTGTAAAAAGCCGCTAA
AGTAATACTCTATT
Found at i:889017 original size:41 final size:41
Alignment explanation
Indices: 888758--889038 Score: 243
Period size: 41 Copynumber: 6.9 Consensus size: 41
888748 GTTTATAAAC
** * * * * *
888758 AAAAACGCCACTAAAGTACGAATTTTTAACGGCGTTTTTAT
1 AAAAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTGTAT
* * * * *
888799 AAAAACGTCACTAAAATACA-AGTTTATAGCGGCATTTATAT
1 AAAAACGCCACTAAAGTA-ATAGTCTATAGCGGCGTTTGTAT
* * *
888840 AAAAAC-CTCACTAAAATAAGAGTCTATAGCGGCATTTGTAT
1 AAAAACGC-CACTAAAGTAATAGTCTATAGCGGCGTTTGTAT
* * *
888881 -AAAAC-CCACTAAAGTAAGAGTCTATAGCAGCGTTTATA-
1 AAAAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTGTAT
* *
888919 AAACAACGCCACTATAGATGA-AGTCTATAGCGGCGTTTGTA-
1 AAA-AACGCCACTAAAG-TAATAGTCTATAGCGGCGTTTGTAT
* * * * *
888960 AAAAATGCCGCTAAAGTATTACTCTATTGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTGTAT
*
889001 AAAAACGCCACTAAAGTAATAGTCTATAGCGGTGTTTG
1 AAAAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTG
889039 CAAACGCCGC
Statistics
Matches: 199, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
39 31 0.16
40 38 0.19
41 128 0.64
42 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTAATAGTCTATAGCGGCGTTTGTAT
Found at i:889053 original size:37 final size:37
Alignment explanation
Indices: 888942--889074 Score: 104
Period size: 41 Copynumber: 3.4 Consensus size: 37
888932 ATAGATGAAG
* * * *
888942 TCTATAGCGGCGTTTGTAAAAAATGCCGCTAAAGTATTAC
1 TCTATAGCGGCGTTTG---CAAACGCCACTAAAGTAATAC
* * *
888982 TCTATTGCGGCGTTTGTATAAAAACGCCACTAAAGTAATAG
1 TCTATAGCGGCGTTTG----CAAACGCCACTAAAGTAATAC
* * *
889023 TCTATAGCGGTGTTTGCAAACGCCGCTAAAGTACTAC
1 TCTATAGCGGCGTTTGCAAACGCCACTAAAGTAATAC
*
889060 TCTATTGCGGCGTTT
1 TCTATAGCGGCGTTT
889075 TTATTCTTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
37 30 0.39
40 15 0.19
41 32 0.42
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (37 bp):
TCTATAGCGGCGTTTGCAAACGCCACTAAAGTAATAC
Found at i:889125 original size:30 final size:30
Alignment explanation
Indices: 889089--889425 Score: 236
Period size: 30 Copynumber: 11.3 Consensus size: 30
889079 TCTTATAATA
889089 TTTTAAAATTAAGATAAAAATAAAATATAT
1 TTTTAAAATTAAGATAAAAATAAAATATAT
* *
889119 TTTT-AAATTAAAATAAGAATAAAATATAT
1 TTTTAAAATTAAGATAAAAATAAAATATAT
* * *
889148 ATTTT-AAGTTAAAATAACAATAAACA-ATA-
1 -TTTTAAAATTAAGATAAAAATAAA-ATATAT
* * * *
889177 -CTTAATAATTTAAGGTAAGAATAGAATATA-
1 TTTTAA-AA-TTAAGATAAAAATAAAATATAT
* *
889207 -TTTAATAATTTAA-ATTAATAATATAATATA-
1 TTTTAA-AA-TTAAGA-TAAAAATAAAATATAT
*
889237 -TGTAATAAGTTAAGATAAAAATAAAATATAT
1 TTTTAA-AA-TTAAGATAAAAATAAAATATAT
889268 TTTTAAAAGTTAAGATAAAAATAAAATATAT
1 TTTTAAAA-TTAAGATAAAAATAAAATATAT
* * * *
889299 ATTTTTAAGTTAAGATAAGATTAAAATATAT
1 -TTTTAAAATTAAGATAAAAATAAAATATAT
* * *
889330 TTTT--AGTTAAGATAAAAATAAAACACAT
1 TTTTAAAATTAAGATAAAAATAAAATATAT
** * *
889358 TTTTTTAGTTAAGATAAGAATAAAATATA-
1 TTTTAAAATTAAGATAAAAATAAAATATAT
*
889387 -TTTAATAAGTTAATATAAAAATAAAATATA-
1 TTTTAA-AA-TTAAGATAAAAATAAAATATAT
889417 TTTTAAAAT
1 TTTTAAAAT
889426 AATTTAAAAA
Statistics
Matches: 256, Mismatches: 35, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.01
28 28 0.11
29 27 0.11
30 137 0.54
31 52 0.20
32 10 0.04
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (30 bp):
TTTTAAAATTAAGATAAAAATAAAATATAT
Found at i:889199 original size:60 final size:58
Alignment explanation
Indices: 889086--889418 Score: 265
Period size: 60 Copynumber: 5.6 Consensus size: 58
889076 TATTCTTATA
* * * * ** * *
889086 ATATTTTAAAATTAAGATAAAAATAAAATATATTTTTAAATTAAAATAAGAATAAAAT
1 ATATTTTTAAGTTAAAATAAAAATAAAACATATTAATAAGTTAAGATAAGAATAAAAT
* * * *
889144 ATATATTTTAAGTTAAAATAACAAT-AAACAATACTTAATAATTTAAGGTAAGAATAGAAT
1 ATAT-TTTTAAGTTAAAATAAAAATAAAAC-ATA-TTAATAAGTTAAGATAAGAATAAAAT
* * * * * * *
889204 ATATTTAATAATTTAAATTAATAATATAATATATGTAATAAGTTAAGATAAAAATAAAAT
1 ATATTT-TTAAGTTAAAATAAAAATAAAACATAT-TAATAAGTTAAGATAAGAATAAAAT
* * ** *
889264 ATATTTTTAAAAGTTAAGATAAAAATAAAATATATATTTTTAAGTTAAGATAAGATTAAAAT
1 ATATTTTT--AAGTTAAAATAAAAAT-AAA-ACATATTAATAAGTTAAGATAAGAATAAAAT
* * ** *
889326 ATATTTTT-AGTTAAGATAAAAATAAAACACATTTTTTTAGTTAAGATAAGAATAAAAT
1 ATATTTTTAAGTTAAAATAAAAATAAAACATA-TTAATAAGTTAAGATAAGAATAAAAT
* * *
889384 ATATTTAATAAGTTAATATAAAAATAAAATATATT
1 ATATTT-TTAAGTTAAAATAAAAATAAAACATATT
889419 TTAAAATAAT
Statistics
Matches: 223, Mismatches: 39, Indels: 25
0.78 0.14 0.09
Matches are distributed among these distances:
57 3 0.01
58 40 0.18
59 41 0.18
60 88 0.39
61 14 0.06
62 31 0.14
63 6 0.03
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (58 bp):
ATATTTTTAAGTTAAAATAAAAATAAAACATATTAATAAGTTAAGATAAGAATAAAAT
Found at i:889417 original size:180 final size:178
Alignment explanation
Indices: 889089--889417 Score: 441
Period size: 180 Copynumber: 1.8 Consensus size: 178
889079 TCTTATAATA
889089 TTTTAAAATTAAGATAAAAATAAAATATATTTTTAAATTAAAATAAGAATAAAATATATATTTTA
1 TTTTAAAATTAAGATAAAAATAAAATATATTTTTAAATTAAAATAAGAATAAAATATATATTTTA
* * * * *
889154 AGTTAAAATAACAATAAACAATACTTAATAATTTAAGGTAAGAATAGAATATATTTAATAATTTA
66 AGTTAAAATAAAAATAAACAATA-TTAATAAGTTAAGATAAGAATAAAATATATTTAATAAGTTA
* *
889219 AATTAATAATATAATATATGTAATAAGTTAAGATAAAAATAAAATATAT
130 AATTAAAAATAAAATATATGTAATAAGTTAAGATAAAAATAAAATATAT
* * *
889268 TTTTAAAAGTTAAGATAAAAATAAAATATATATTTTTAAGTTAAGATAAGATTAAAATATAT-TT
1 TTTTAAAA-TTAAGATAAAAAT-AAA-ATATATTTTTAAATTAAAATAAGAATAAAATATATATT
* ** *
889332 TT-AGTTAAGATAAAAATAAAACACAT-TTTTTTAGTTAAGATAAGAATAAAATATATTTAATAA
63 TTAAGTTAAAATAAAAAT-AAACA-ATATTAATAAGTTAAGATAAGAATAAAATATATTTAATAA
889395 GTT-AATATAAAAATAAAATATAT
126 GTTAAAT-TAAAAATAAAATATAT
889418 TTTAAAATAA
Statistics
Matches: 130, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
179 11 0.08
180 73 0.56
181 12 0.09
182 34 0.26
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (178 bp):
TTTTAAAATTAAGATAAAAATAAAATATATTTTTAAATTAAAATAAGAATAAAATATATATTTTA
AGTTAAAATAAAAATAAACAATATTAATAAGTTAAGATAAGAATAAAATATATTTAATAAGTTAA
ATTAAAAATAAAATATATGTAATAAGTTAAGATAAAAATAAAATATAT
Found at i:889849 original size:21 final size:21
Alignment explanation
Indices: 889823--889862 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
889813 CGGTGGAGCC
889823 TTTTTTTTGAAATTATTATGG
1 TTTTTTTTGAAATTATTATGG
* *
889844 TTTTTTTTTACATTATTAT
1 TTTTTTTTGAAATTATTAT
889863 TTTTTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTTTTTGAAATTATTATGG
Found at i:898164 original size:19 final size:19
Alignment explanation
Indices: 898124--898170 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
898114 AATTGTGATA
*
898124 TTTCATTTTTATCCAGATCG
1 TTTCA-TTTTATCCAGACCG
898144 TTTCATTTTATCCA-ACCCG
1 TTTCATTTTATCCAGA-CCG
*
898163 TTTAATTT
1 TTTCATTT
898171 ATCGACCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.51
Consensus pattern (19 bp):
TTTCATTTTATCCAGACCG
Found at i:902571 original size:11 final size:11
Alignment explanation
Indices: 902551--902581 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
902541 ATTAAGAATA
902551 ATAATAATAAT
1 ATAATAATAAT
*
902562 ATAATTATAAT
1 ATAATAATAAT
902573 ATAATAATA
1 ATAATAATA
902582 TTTATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:902573 original size:17 final size:18
Alignment explanation
Indices: 902551--902593 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
902541 ATTAAGAATA
902551 ATAATAATAAT-ATAATT
1 ATAATAATAATAATAATT
*
902568 ATAAT-ATAATAATATTT
1 ATAATAATAATAATAATT
*
902585 ATTATAATA
1 ATAATAATA
902594 TTTATAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 14 0.64
18 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAATAATAATAATT
Found at i:902573 original size:20 final size:21
Alignment explanation
Indices: 902548--902593 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
902538 ACTATTAAGA
902548 ATAATAATAATAATA-TAATT
1 ATAATAATAATAATATTAATT
*
902568 ATAAT-ATAATAATATTTATT
1 ATAATAATAATAATATTAATT
902588 ATAATA
1 ATAATA
902594 TTTATAACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATAATAATAATATTAATT
Found at i:902835 original size:37 final size:37
Alignment explanation
Indices: 902785--902899 Score: 191
Period size: 37 Copynumber: 3.2 Consensus size: 37
902775 TGATCTAATC
*
902785 TTGCTTCACTACTCTTTTTGTAAAGGTTGAATTTGCA
1 TTGCTTCACTACTCTTTTTGTGAAGGTTGAATTTGCA
902822 TTGCTTCACTACTCTTTTTGTGAAGGTTGAATTTGCA
1 TTGCTTCACTACTCTTTTTGTGAAGGTTGAATTTGCA
902859 TTGCTTCACTACTC-TTTTGTGAAGGCTTG-A-TTGCA
1 TTGCTTCACTACTCTTTTTGTGAAGG-TTGAATTTGCA
902894 TTGCTT
1 TTGCTT
902900 GTTTCCACCA
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
35 11 0.14
36 12 0.16
37 53 0.70
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.46
Consensus pattern (37 bp):
TTGCTTCACTACTCTTTTTGTGAAGGTTGAATTTGCA
Found at i:914152 original size:21 final size:22
Alignment explanation
Indices: 914100--914159 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 22
914090 TTTAATATAA
914100 ATATTATTAATCTTAGTATAAGATT
1 ATATTA-TAA-CTTA-TATAAGATT
914125 ATATTATAACTTATATAA-ATT
1 ATATTATAACTTATATAAGATT
*
914146 A-ACTTATAAATTAT
1 ATA-TTATAACTTAT
914160 GCATGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.42
22 5 0.15
23 4 0.12
24 3 0.09
25 6 0.18
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (22 bp):
ATATTATAACTTATATAAGATT
Found at i:914212 original size:18 final size:19
Alignment explanation
Indices: 914179--914222 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
914169 TAATCCTAAG
*
914179 TATAAATATCAATTAATCA
1 TATAAAAATCAATTAATCA
*
914198 TATAAAAAT-AATTAATGA
1 TATAAAAATCAATTAATCA
914216 T-TAAAAA
1 TATAAAAA
914223 ATAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
TATAAAAATCAATTAATCA
Found at i:915558 original size:11 final size:11
Alignment explanation
Indices: 915538--915568 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
915528 ATTAAGAATA
915538 ATAATAATAAT
1 ATAATAATAAT
*
915549 ATAATTATAAT
1 ATAATAATAAT
915560 ATAATAATA
1 ATAATAATA
915569 TTTATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:915560 original size:17 final size:18
Alignment explanation
Indices: 915538--915580 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
915528 ATTAAGAATA
915538 ATAATAATAAT-ATAATT
1 ATAATAATAATAATAATT
*
915555 ATAAT-ATAATAATATTT
1 ATAATAATAATAATAATT
*
915572 ATTATAATA
1 ATAATAATA
915581 TTTATAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 14 0.64
18 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAATAATAATAATT
Found at i:915560 original size:20 final size:21
Alignment explanation
Indices: 915535--915580 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
915525 ACTATTAAGA
915535 ATAATAATAATAATA-TAATT
1 ATAATAATAATAATATTAATT
*
915555 ATAAT-ATAATAATATTTATT
1 ATAATAATAATAATATTAATT
915575 ATAATA
1 ATAATA
915581 TTTATAACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATAATAATAATATTAATT
Found at i:916975 original size:17 final size:18
Alignment explanation
Indices: 916941--916976 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
916931 ACATAGTATT
916941 AAATAAAAAATAATAGAA
1 AAATAAAAAATAATAGAA
*
916959 AAATAAGAAAT-ATAGAA
1 AAATAAAAAATAATAGAA
916976 A
1 A
916977 CATATAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (18 bp):
AAATAAAAAATAATAGAA
Found at i:918700 original size:106 final size:107
Alignment explanation
Indices: 918516--918746 Score: 322
Period size: 106 Copynumber: 2.2 Consensus size: 107
918506 ATCTTCTGTC
* * * * **
918516 GTGAAGTTGAAGTTGGTTCTGGAACTGGGAAATTGTTTTGTTGACAGTCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
* *
918581 TGAATTTGAACTTGTGCTGTCTCGAGTCCAATGCCCTTCAAT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
*
918623 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTG-TTTGTTGACAACCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
* * * **
918687 TGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
918729 GTGAAGTTGAAA-TGGCTC
1 GTGAAGTTGAAATTGGCTC
918747 TAGCTAAAAC
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 6 0.05
106 74 0.67
107 30 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (107 bp):
GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
Found at i:919179 original size:31 final size:31
Alignment explanation
Indices: 919144--919271 Score: 82
Period size: 31 Copynumber: 3.9 Consensus size: 31
919134 GGGAAATAAA
919144 CTCAAA-GATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAACGATTTTGTGTTTCAAGAGAAACT-T
** * *
919175 CTCAAGGGAGACGAAATT-TGTTTCAAGGGAAACAAT
1 CTC-A---A-ACGATTTTGTGTTTCAAGAGAAAC-TT
*
919211 CTCAAA-GGTTTTGTGTTTCAAGAGAAACATT
1 CTCAAACGATTTTGTGTTTCAAGAGAAAC-TT
* * *
919242 TTCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAACG-ATTTTGTGTTTCAAGAGAAAC
919272 AATTTCAAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
30 3 0.04
31 25 0.33
32 3 0.04
33 20 0.26
35 2 0.03
36 19 0.25
37 4 0.05
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (31 bp):
CTCAAACGATTTTGTGTTTCAAGAGAAACTT
Found at i:919228 original size:67 final size:67
Alignment explanation
Indices: 919046--919238 Score: 235
Period size: 67 Copynumber: 2.8 Consensus size: 67
919036 GTCTTAAAAA
* * * * * *
919046 AGACAGAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGACCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGACCTCA
919111 AGGG
64 AGGG
* * * *
919115 AGACAAAATTTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTG-TCTCA
1 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC-GACCTCA
919179 AGGG
64 AGGG
* *
919183 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
919239 ATTTTCAAAG
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
67 44 0.41
68 29 0.27
69 11 0.10
70 23 0.21
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGACCTCAAG
GG
Found at i:919298 original size:36 final size:33
Alignment explanation
Indices: 919193--919307 Score: 162
Period size: 33 Copynumber: 3.5 Consensus size: 33
919183 AGACGAAATT
* *
919193 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
919224 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
919257 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
919293 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
919308 TGTATCAAGG
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 23 0.31
33 30 0.40
35 1 0.01
36 21 0.28
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:919405 original size:38 final size:36
Alignment explanation
Indices: 919348--919870 Score: 206
Period size: 37 Copynumber: 15.4 Consensus size: 36
919338 CAAGGATTGA
*
919348 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
919385 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
919422 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
919458 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
919487 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
919516 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
919553 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
919589 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
919617 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
919655 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
919689 TATTTCAAGGGAAA-TGCTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
919717 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
919755 TGTTCCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
919783 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
919821 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
919857 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
919871 TGTTTTCAAT
Statistics
Matches: 369, Mismatches: 63, Indels: 109
0.68 0.12 0.20
Matches are distributed among these distances:
28 7 0.02
29 64 0.17
30 34 0.09
31 1 0.00
32 6 0.02
33 5 0.01
34 21 0.06
35 7 0.02
36 94 0.25
37 107 0.29
38 23 0.06
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:919512 original size:30 final size:30
Alignment explanation
Indices: 919476--919534 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
919466 GTAAAACATA
*
919476 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
919506 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
919535 CTCAAAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:919725 original size:100 final size:99
Alignment explanation
Indices: 919422--919768 Score: 474
Period size: 100 Copynumber: 3.5 Consensus size: 99
919412 AGACAAAATT
* * **
919422 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTT-AATGTAAAACATAT-TC-A-A-A
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-GGGAAAC-TATCTCAAGAGA
* * *
919482 G--ATTTTGTTTCAAGGGAAACTGTTTTCAAAGTTTA
64 GACAATTTATTTCAAGGGAAA-TGTTTTCAATGTTTA
* *
919517 TGTTTCAATAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
919582 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 C--AATTTATTTCAAGGGAAATGTTTTCAATGTTTA
919618 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
919683 ACAATTTATTTCAAGGGAAATGCTTTCAATGTTTA
65 ACAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
919718 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAA
919769 TGTTTTCAAT
Statistics
Matches: 227, Mismatches: 15, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
94 3 0.01
95 44 0.19
96 3 0.01
97 1 0.00
98 2 0.01
100 81 0.36
101 46 0.20
102 47 0.21
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (99 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:919786 original size:166 final size:166
Alignment explanation
Indices: 919553--919938 Score: 623
Period size: 166 Copynumber: 2.3 Consensus size: 166
919543 AGACAAAATT
* * *
919553 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
919617 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
919682 GAC-AATTTATTTCAAGGGAAATGCTTTCAATGTTTA
130 GACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
*
919718 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT-CAAGGGAAATGTTTTCAATGTTT
919783 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
919848 GACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
130 GAC-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* * *
919886 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTGTTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT-TG-TTCAAGGGAAA
919939 CTATCTCAAG
Statistics
Matches: 205, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
164 1 0.00
165 35 0.17
166 91 0.44
168 63 0.31
169 3 0.01
170 10 0.05
171 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (166 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:919789 original size:66 final size:65
Alignment explanation
Indices: 919655--919834 Score: 276
Period size: 66 Copynumber: 2.8 Consensus size: 65
919645 GACAAAATTT
* * *
919655 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTAT-TTCAAGGGAAATGCTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAATGCTTTCAATGTTT
919717 A
65 A
*
919718 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-CAAGGGAAATGCTTTCAATGTTT
919783 A
65 A
919784 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAA
919835 CTATCTCAAG
Statistics
Matches: 108, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
63 27 0.25
64 1 0.01
65 7 0.06
66 71 0.66
67 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:919896 original size:102 final size:105
Alignment explanation
Indices: 919718--919953 Score: 363
Period size: 102 Copynumber: 2.3 Consensus size: 105
919708 TCAATGTTTA
* * * *
919718 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
*
919783 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT-
66 ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
919821 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TT-CAAGGGAAATGTTTTCAATGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-ATGTTCCAAGGGAAATGTTTTCAATGTT
*
919884 TATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTC
65 TATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
* *
919925 TGTTTCGAGGGAAACTATCTCAAGCGAGA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGA
919954 TAAATCTTGT
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
102 56 0.46
103 38 0.31
104 28 0.23
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (105 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
Found at i:919993 original size:36 final size:36
Alignment explanation
Indices: 919953--920052 Score: 85
Period size: 36 Copynumber: 2.8 Consensus size: 36
919943 CTCAAGCGAG
*
919953 ATAAATCTTGTTTTAAGAAAAACAATCTTGAGGGAA
1 ATAAATCTTGTTTTAAGAAAAACAATCTTAAGGGAA
* * ** * * * *
919989 ATAAATATTCTTTCGAGTAAAACAGTCTTAAGTGAG
1 ATAAATCTTGTTTTAAGAAAAACAATCTTAAGGGAA
* *
920025 ACAAAGTC-TGTTCTAAGAAAAACAATCT
1 ATAAA-TCTTGTTTTAAGAAAAACAATCT
920053 CAAGTGAGAT
Statistics
Matches: 46, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
36 45 0.98
37 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (36 bp):
ATAAATCTTGTTTTAAGAAAAACAATCTTAAGGGAA
Found at i:921390 original size:180 final size:177
Alignment explanation
Indices: 921164--921496 Score: 551
Period size: 180 Copynumber: 1.9 Consensus size: 177
921154 AGGGTTCATC
921164 TCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATTGCCAAGTGTCCGAGC
1 TCATCACAAAGTCTTTGGCCTGAC-AAAACAGTGGAGCAAACACCGAATTGCCAAGTGTCCGAGC
* **
921229 AATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTAGAGTTTCCTCTATAACCAAT
65 AATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTAGAGTTT--TC-ATAACCAAT
921294 TGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTGAAGGGTTCG
127 TGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTGAAGGGTTCG
* *
921345 TCATCACACAAGTCTTTGGCCTGAC-AAGCAGTGGAGCAAACACCGAATTGCCAAGTGTCCGATC
1 TCATCACA-AAGTCTTTGGCCTGACAAAACAGTGGAGCAAACACCGAATTGCCAAGTGTCCGAGC
* *
921409 AGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTTCATAACCAATTGC
65 AATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTAGAGTTTTCATAACCAATTGC
921474 CTTAGTGGAATAGCTCAGCTTTA
130 CTTAGTGGAATAGCTCAGCTTTA
921497 CGGATTAATT
Statistics
Matches: 144, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
177 35 0.24
178 2 0.01
180 83 0.58
181 8 0.06
182 16 0.11
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (177 bp):
TCATCACAAAGTCTTTGGCCTGACAAAACAGTGGAGCAAACACCGAATTGCCAAGTGTCCGAGCA
ATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTAGAGTTTTCATAACCAATTGCC
TTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTGAAGGGTTCG
Found at i:926240 original size:22 final size:22
Alignment explanation
Indices: 926212--926260 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
926202 AATAAGATAA
926212 ATTACAAATTTCATCATTGAAC
1 ATTACAAATTTCATCATTGAAC
926234 ATTACAAATTTCATCATTGAAC
1 ATTACAAATTTCATCATTGAAC
*
926256 TTTAC
1 ATTAC
926261 TCTCTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTACAAATTTCATCATTGAAC
Found at i:931134 original size:185 final size:185
Alignment explanation
Indices: 930822--931177 Score: 626
Period size: 185 Copynumber: 1.9 Consensus size: 185
930812 TTTTCTAATT
*
930822 TATATAAAAATTAAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATAA
1 TATATAAAAATTAAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
930887 TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
*
930952 T-GAATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
131 TAG-ATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
* * * *
931007 TATATAATATATTTAATATTTTTTAATTC-AAAAAATAGTTTACAATTAATTTAAATAATATATA
1 TATATAA-AAATTAAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
931071 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
65 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
931136 TTAGATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCT
130 TTAGATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCT
931178 ATGTTATATA
Statistics
Matches: 163, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
185 144 0.88
186 19 0.12
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (185 bp):
TATATAAAAATTAAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
TAGATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:931229 original size:9 final size:9
Alignment explanation
Indices: 931215--931243 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
931205 AAAATTTTAT
931215 TTCGGTTAA
1 TTCGGTTAA
931224 TTCGGTTAA
1 TTCGGTTAA
931233 TTCGGTTAA
1 TTCGGTTAA
931242 TT
1 TT
931244 AACCGATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:931935 original size:42 final size:42
Alignment explanation
Indices: 931876--932096 Score: 376
Period size: 42 Copynumber: 5.3 Consensus size: 42
931866 CGTTGCGATT
931876 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
931918 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
931960 TTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
932002 TTGGACTATCGTAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * *
932044 TTCGACTATCGCAACGAA-TTCGACT--ATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
932083 TTGGACTATCGCAA
1 TTGGACTATCGCAA
932097 TGCGAATATG
Statistics
Matches: 171, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 27 0.16
41 5 0.03
42 139 0.81
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:932054 original size:21 final size:21
Alignment explanation
Indices: 931876--932102 Score: 188
Period size: 21 Copynumber: 11.0 Consensus size: 21
931866 CGTTGCGATT
*
931876 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
931895 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
931918 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
931937 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
931960 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
931979 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
932002 TTGGACTATCGTAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
932021 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
932044 TTCGACTATCGCAA--CGAA-
1 TTGGACTATCGCAACGCGAAC
*
932062 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
932083 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
932103 TATGTAAATC
Statistics
Matches: 167, Mismatches: 22, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
18 14 0.08
19 39 0.23
20 4 0.02
21 72 0.43
23 38 0.23
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:932140 original size:21 final size:21
Alignment explanation
Indices: 932111--932163 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
932101 AATATGTAAA
*
932111 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
* *
932132 TCGCGTTGCAATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
932153 TCGCGTTGCGA
1 TCGCGTTGCGA
932164 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:939036 original size:14 final size:13
Alignment explanation
Indices: 939010--939034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
939000 ATAATGGGCA
939010 AATTTTGAAAAAT
1 AATTTTGAAAAAT
939023 AATTTTGAAAAA
1 AATTTTGAAAAA
939035 ATTATAATAT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AATTTTGAAAAAT
Found at i:939073 original size:2 final size:2
Alignment explanation
Indices: 939066--939099 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
939056 ATGGAAAACA
939066 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
939100 CAAAATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:939657 original size:42 final size:42
Alignment explanation
Indices: 939610--939703 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
939600 GGATGAACAA
* *
939610 TATCGATACTCTA-TAAGAATAGTATCGATACTAGGCT-AGTAG
1 TATCGATAC-CTAGCAAGAATAGTAACGATACTA-GCTGAGTAG
* **
939652 TATCGATACCTAGCAAGAGTAGTAACGATACTATTTGAGTAG
1 TATCGATACCTAGCAAGAATAGTAACGATACTAGCTGAGTAG
939694 TATCGATACC
1 TATCGATACC
939704 AAGTGCACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 4 0.09
42 41 0.91
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (42 bp):
TATCGATACCTAGCAAGAATAGTAACGATACTAGCTGAGTAG
Found at i:939675 original size:22 final size:21
Alignment explanation
Indices: 939610--939703 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 21
939600 GGATGAACAA
* *
939610 TATCGATACTCTATAAGAATAG
1 TATCGATAC-CTACAAGAGTAG
****
939632 TATCGATA-CTAGGCTAGTAG
1 TATCGATACCTACAAGAGTAG
939652 TATCGATACCTAGCAAGAGTAG
1 TATCGATACCTA-CAAGAGTAG
* ***
939674 TAACGATA-CTATTTGAGTAG
1 TATCGATACCTACAAGAGTAG
939694 TATCGATACC
1 TATCGATACC
939704 AAGTGCACAA
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
20 28 0.51
21 7 0.13
22 20 0.36
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (21 bp):
TATCGATACCTACAAGAGTAG
Found at i:948242 original size:15 final size:16
Alignment explanation
Indices: 948222--948259 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
948212 ATATTTAGCT
* *
948222 GGGCGGGCGGATG-TG
1 GGGCGGGCGAATGCGG
948237 GGGCGGGCGAATGCGG
1 GGGCGGGCGAATGCGG
948253 GGGCGGG
1 GGGCGGG
948260 TAATGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (16 bp):
GGGCGGGCGAATGCGG
Found at i:949463 original size:25 final size:25
Alignment explanation
Indices: 949410--949467 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
949400 CCGTCACCGT
*
949410 TTAAAAAACTCGTATCCGTCCTCGT
1 TTAAAAAACTCGTATCCGTCCTCGC
949435 TTAAAAAACTCGTA-CTCGTTCC-CGC
1 TTAAAAAACTCGTATC-CG-TCCTCGC
949460 TTAAAAAA
1 TTAAAAAA
949468 TTGTGAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 26 0.87
26 3 0.10
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (25 bp):
TTAAAAAACTCGTATCCGTCCTCGC
Found at i:949580 original size:2 final size:2
Alignment explanation
Indices: 949573--949683 Score: 76
Period size: 2 Copynumber: 59.5 Consensus size: 2
949563 ATCGGGCCGG
* * *
949573 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AA AT -T AA 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
* * * * * * *
949614 AA AT AT -T AT AT AT AT -T TT TT A- AT TT AA AT -T AA AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
949652 -T A- AT AT -T 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 A
949684 AAATAATTAT
Statistics
Matches: 84, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
1 8 0.10
2 76 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:949653 original size:32 final size:34
Alignment explanation
Indices: 949573--949670 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 34
949563 ATCGGGCCGG
*
949573 ATATATATATATATATATATATATATTTAAATTAA
1 ATATATAAATAT-TATATATATATATTTAAATTAA
*
949608 ATATATAAATATTATATATATTTTTTAATTTAAATTAA
1 ATATATAAATATTATATATA---TAT-ATTTAAATTAA
* *
949646 ATTTATTAATATTATATATATATAT
1 ATATATAAATATTATATATATATAT
949671 ATATATATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
34 10 0.19
35 13 0.24
37 2 0.04
38 29 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
ATATATAAATATTATATATATATATTTAAATTAA
Found at i:949792 original size:30 final size:30
Alignment explanation
Indices: 949751--949824 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
949741 ATTACCAAAT
* * *
949751 CCGTCCCCGTTTAGCTTAAACGATTTTTTC
1 CCGTCCTCGTTTAACATAAACGATTTTTTC
*
949781 CCGTCCTCGTTTAACATAAACGATTTTTTT
1 CCGTCCTCGTTTAACATAAACGATTTTTTC
949811 CCGTCCTCGTTTAA
1 CCGTCCTCGTTTAA
949825 TTCGATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (30 bp):
CCGTCCTCGTTTAACATAAACGATTTTTTC
Found at i:950474 original size:66 final size:66
Alignment explanation
Indices: 950361--950539 Score: 274
Period size: 66 Copynumber: 2.7 Consensus size: 66
950351 TTAAGAAGTG
* *
950361 ACCA-GTTGATTTCCAGAGTGTCAAGATCAAACTACGCCCGTGACCAGAATTTAAGAAGAGATCA
1 ACCAGGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGTG-CCAGAATTTAAGAAGAGATCA
950425 TA
65 TA
*
950427 ACC-GGTTGATTTCCGGTGTGTCAAGATCAAACTACGCCGGTCGCCAGAATTTAAGAAGAGATCA
1 ACCAGGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGT-GCCAGAATTTAAGAAGAGATCA
950491 TA
65 TA
*
950493 ACCAGG-TGATTTCCAGTGTGTCAAGATCAAACCACGCCGGTGGCCAG
1 ACCAGGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGT-GCCAG
950540 TTTTTGCTGA
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
66 101 0.97
67 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (66 bp):
ACCAGGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGTGCCAGAATTTAAGAAGAGATCAT
A
Found at i:953636 original size:60 final size:62
Alignment explanation
Indices: 953570--953907 Score: 292
Period size: 60 Copynumber: 5.6 Consensus size: 62
953560 TATTCTTATA
* *
953570 ATATTTTAA-AA-TTAAGATAAAAATGAAATATATCTTTTTTAA-TTAAGATAAAAATAAAAT
1 ATATTTTAATAAGTTAAGATAAAAATAAAATATAT-TTTTTTAAGTTAAGATAAGAATAAAAT
* * * ** * *
953630 ATATTTT--TAAATTAAAATAAGAATAAAATATA-CGTTTTAAGTTAAAATAATAAT-AAAT
1 ATATTTTAATAAGTTAAGATAAAAATAAAATATATTTTTTTAAGTTAAGATAAGAATAAAAT
* * * * * ** * * *
953688 A-ATACTTAATAATTTAAGGTAAGAATAGAATATA-TTTAATAATTTAA-ATTAATAATATAAT
1 ATAT-TTTAATAAGTTAAGATAAAAATAAAATATATTTTTTTAAGTTAAGA-TAAGAATAAAAT
* * * *
953749 ATA-TGTAATAAGTTAAGATAAAAATAAAATATATATTTTTAAGTTAATATAAGATTAAAAT
1 ATATTTTAATAAGTTAAGATAAAAATAAAATATATTTTTTTAAGTTAAGATAAGAATAAAAT
* * *
953810 ATATTTT--TTAGTTAAGATAAAAATAAAACATATTTTTTT-AGTTAAGATAAGAATAATAT
1 ATATTTTAATAAGTTAAGATAAAAATAAAATATATTTTTTTAAGTTAAGATAAGAATAAAAT
*
953869 ATA-TTTAATAAGTTAAAATAAAAAATAAAATATATTTTT
1 ATATTTTAATAAGTTAAGAT-AAAAATAAAATATATTTTT
953908 AAAAAATAAA
Statistics
Matches: 222, Mismatches: 41, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
57 2 0.01
58 16 0.07
59 34 0.15
60 123 0.55
61 43 0.19
62 4 0.02
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.39
Consensus pattern (62 bp):
ATATTTTAATAAGTTAAGATAAAAATAAAATATATTTTTTTAAGTTAAGATAAGAATAAAAT
Found at i:953675 original size:30 final size:29
Alignment explanation
Indices: 953570--953909 Score: 254
Period size: 30 Copynumber: 11.3 Consensus size: 29
953560 TATTCTTATA
* *
953570 ATATTTTAAAATTAAGATAAAAATGAAATAT
1 ATATTTTTAAGTTAAGATAAAAAT-AAA-AT
*
953601 ATCTTTTTTAA-TTAAGATAAAAATAAAAT
1 AT-ATTTTTAAGTTAAGATAAAAATAAAAT
* * *
953630 ATATTTTTAAATTAAAATAAGAATAAAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* * *
953659 ATACGTTTTAAGTTAAAATAATAAT-AAAT
1 ATA-TTTTTAAGTTAAGATAAAAATAAAAT
** * * * *
953688 AATACTTAATAATTTAAGGTAAGAATAGAAT
1 -ATA-TTTTTAAGTTAAGATAAAAATAAAAT
* * * *
953719 ATATTTAATAATTTAA-ATTAATAATATAAT
1 ATATTT-TTAAGTTAAGA-TAAAAATAAAAT
**
953749 ATATGTAATAAGTTAAGATAAAAATAAAATAT
1 ATAT-TTTTAAGTTAAGATAAAAAT-AAA-AT
* * *
953781 ATATTTTTAAGTTAATATAAGATTAAAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* *
953810 ATATTTTTTAGTTAAGATAAAAATAAAAC
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* * *
953839 ATATTTTTTTAGTTAAGATAAGAATAATAT
1 ATA-TTTTTAAGTTAAGATAAAAATAAAAT
* *
953869 ATATTTAATAAGTTAAAATAAAAAATAAAAT
1 ATATTT-TTAAGTTAAGAT-AAAAATAAAAT
953900 ATATTTTTAA
1 ATATTTTTAA
953910 AAAATAAAAA
Statistics
Matches: 252, Mismatches: 43, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
28 7 0.03
29 61 0.24
30 120 0.48
31 52 0.21
32 12 0.05
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
ATATTTTTAAGTTAAGATAAAAATAAAAT
Found at i:953983 original size:14 final size:14
Alignment explanation
Indices: 953964--954006 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
953954 TAGTCAATGG
953964 TATAGTTTACCCTA
1 TATAGTTTACCCTA
953978 TATAGTTTACCCTA
1 TATAGTTTACCCTA
*
953992 TATAGTTTACACTA
1 TATAGTTTACCCTA
954006 T
1 T
954007 TTAAATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (14 bp):
TATAGTTTACCCTA
Found at i:959161 original size:24 final size:24
Alignment explanation
Indices: 959109--959163 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
959099 CAACTACAAT
*
959109 CGCGACGCTAAAGACACCCGCAAG
1 CGCGTCGCTAAAGACACCCGCAAG
959133 CGCGTCGCTAAAGACACCCGCAAG
1 CGCGTCGCTAAAGACACCCGCAAG
959157 CGCGTCG
1 CGCGTCG
959164 TCGGAGTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.38, G:0.27, T:0.07
Consensus pattern (24 bp):
CGCGTCGCTAAAGACACCCGCAAG
Found at i:962792 original size:42 final size:42
Alignment explanation
Indices: 962667--962891 Score: 249
Period size: 42 Copynumber: 5.3 Consensus size: 42
962657 AAGGTAAATA
*
962667 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATTTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
** *
962710 GCGGCGTTTGTTCC-AAAACG-CATTATAGATCTTGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
* **
962751 GCGTCGTTTGTTCCAAAAACGTTGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
962793 GTGGGGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTCT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
962835 ACAGCGTTTGGTT-CAAAAACGCCGCTATAGATGTCAACCTTTT
1 GCGGCGTTT-GTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
*
962878 ACGGCGTTTGTTCC
1 GCGGCGTTTGTTCC
962892 CAAGTTTAGC
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
40 8 0.05
41 27 0.18
42 79 0.52
43 37 0.25
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:969877 original size:157 final size:155
Alignment explanation
Indices: 969682--969999 Score: 401
Period size: 157 Copynumber: 2.0 Consensus size: 155
969672 TAAATATGAC
* * *
969682 ATTTATTTATTTAAAAATATCAGAAAATGACATATAGTTGCT-TTAAGATTGT-ATTTTCTTTAA
1 ATTTATTTATTTAAAAATACCAGAAAATGACATATAGTT-ATATTAAGACTGTCATTTTCTTTAA
* *
969745 TATTAATAAATAAATAAATATTAATAAGAATATAATAATTTTCCTAAAAAATGATAAAAACT-AA
65 TATTAA-AAATAAATAAATATTAAGAAGAATATAATAATTTTCCTAAAAAATAATAAAAA-TAAA
*
969809 GTAAATATATATACATTTATA-AGCAGTAT
128 GTAAATATATATACATATATATA-CA-TAT
* * * * *
969838 ATTTATTTATTTTTAAAATACCAGAATATGACATCTAGTTATATTAAGACTGTCTTTTTCTTTGA
1 ATTTATTTA-TTTAAAAATACCAGAAAATGACATATAGTTATATTAAGACTGTCATTTTCTTTAA
* * * *
969903 TATTAAAAATAAATAAATATTAAGAAGAATATAATGATTTTTCTTAAAAATAATAAAAATAAATT
65 TATTAAAAATAAATAAATATTAAGAAGAATATAATAATTTTCCTAAAAAATAATAAAAATAAAGT
* *
969968 ATATATATATATATATATATACATAT
130 AAATATATATACATATATATACATAT
969994 ATTTAT
1 ATTTAT
970000 AAATAAGATA
Statistics
Matches: 140, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
156 20 0.14
157 104 0.74
158 16 0.11
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (155 bp):
ATTTATTTATTTAAAAATACCAGAAAATGACATATAGTTATATTAAGACTGTCATTTTCTTTAAT
ATTAAAAATAAATAAATATTAAGAAGAATATAATAATTTTCCTAAAAAATAATAAAAATAAAGTA
AATATATATACATATATATACATAT
Found at i:969974 original size:2 final size:2
Alignment explanation
Indices: 969967--970000 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
969957 AAAAATAAAT
* *
969967 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
970001 AATAAGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:971474 original size:3 final size:3
Alignment explanation
Indices: 971466--971558 Score: 107
Period size: 3 Copynumber: 31.0 Consensus size: 3
971456 TATATTTATT
*
971466 TAA TAA TAA TAA TAAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
971512 TAC TAA TAA TAG TAG TAA -AA TAT TAA TAA TAT TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
971559 AAACGAGACA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.03
3 71 0.93
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:974700 original size:43 final size:43
Alignment explanation
Indices: 974597--974807 Score: 262
Period size: 43 Copynumber: 4.9 Consensus size: 43
974587 ACAAAAAAAA
* * *
974597 GCCGCAATAGGTCAAGATCTATAGCAGC-GTTTTGGAACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAAC
* * * * *
974639 GCCGCAAAAGTTCAAGATCTATAGCGGCATTTTTGGAATAAAT
1 GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAAC
* *
974682 GCCACAATTGGTCGAGATCTATAGCGGCATTTTTTGGAACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCA-TTTTTGGAACAAAC
* **
974726 GCCGCAAAAGGTCGAGATCTATAGCGGTGTTTTTGGAACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAAC
* * *
974769 GCCGCAATAGATCGAGATCTATAGCGGCGTTTTTTGAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAAC
974808 TTGAGAACTT
Statistics
Matches: 145, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 25 0.17
43 84 0.58
44 36 0.25
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAAC
Found at i:974728 original size:87 final size:86
Alignment explanation
Indices: 974601--974804 Score: 275
Period size: 87 Copynumber: 2.4 Consensus size: 86
974591 AAAAAAGCCG
* * * *
974601 CAATAGGTCAAGATCTATAGCAGC-GTTTTGGAACAAACGCCGCAAAAGTTCAAGATCTATAGCG
1 CAATAGGTCGAGATCTATAGCGGCTTTTTTGGAACAAACGCCGCAAAAGGTCAAGATCTATAGCG
* *
974665 GCATTTTTGGAATAAATGCCA
66 GCATTTTTGGAACAAACGCCA
* *
974686 CAATTGGTCGAGATCTATAGCGGCATTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGC
1 CAATAGGTCGAGATCTATAGCGGC-TTTTTTGGAACAAACGCCGCAAAAGGTCAAGATCTATAGC
** *
974751 GGTGTTTTTGGAACAAACGCCG
65 GGCATTTTTGGAACAAACGCCA
*
974773 CAATAGATCGAGATCTATAGCGGCGTTTTTTG
1 CAATAGGTCGAGATCTATAGCGGC-TTTTTTG
974805 AACTTGAGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
85 21 0.20
87 82 0.80
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (86 bp):
CAATAGGTCGAGATCTATAGCGGCTTTTTTGGAACAAACGCCGCAAAAGGTCAAGATCTATAGCG
GCATTTTTGGAACAAACGCCA
Found at i:977211 original size:22 final size:22
Alignment explanation
Indices: 977186--977306 Score: 215
Period size: 22 Copynumber: 5.5 Consensus size: 22
977176 ATCTACATTC
977186 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
977208 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
977230 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
977252 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
*
977274 TTCAAAGATGATAGATTATCTT
1 TTCAAAGATGATAGATTCTCTT
*
977296 TTCAAATATGA
1 TTCAAAGATGA
977307 AAGCTTTATT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 95 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:977936 original size:24 final size:24
Alignment explanation
Indices: 977904--977956 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
977894 AATCTTTTCT
977904 GAAAATGAAATTGTTGAATAGTAA
1 GAAAATGAAATTGTTGAATAGTAA
977928 GAAAATGAAATTGTTGAATAGTAA
1 GAAAATGAAATTGTTGAATAGTAA
977952 GAAAA
1 GAAAA
977957 CGATTTCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (24 bp):
GAAAATGAAATTGTTGAATAGTAA
Found at i:978049 original size:44 final size:45
Alignment explanation
Indices: 977999--978119 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 45
977989 TTCCCACATT
977999 TGTAAGACCTACAGTGCATGATGTTTTCAAAA-CTTCAGGTCATC
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCATC
*
978043 TGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCATC
** *
978088 CATAAGACCTACAGTGCAGGATGTTTTCAAAA
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAA
978120 AAAGCCTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 32 0.44
45 40 0.56
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (45 bp):
TGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCATC
Found at i:978210 original size:45 final size:45
Alignment explanation
Indices: 978144--978342 Score: 290
Period size: 45 Copynumber: 4.4 Consensus size: 45
978134 CTTTTCGATA
* *
978144 TTTTCAAAGCCTTCAGATCATCTGTAAGACCTACAGTGCATGATG
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
* * * *
978189 TTTTCAAAGCCTTCGGGTCATCTATAAGCCCTTCAATGCATGATG
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
978234 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
* * * *
978279 TTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATG
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
978324 TTTTCAAAAAGCCTTCGGG
1 TTTTC--AAAGCCTTCGGG
978343 ATCTTTTTGA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 126 0.93
47 10 0.07
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
Found at i:978298 original size:90 final size:90
Alignment explanation
Indices: 978144--978342 Score: 326
Period size: 90 Copynumber: 2.2 Consensus size: 90
978134 CTTTTCGATA
* * * *
978144 TTTTCAAAGCCTTCAGATCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAGCCTTCGGGTCA
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCA
978209 TCTATAAGCCCTTCAATGCATGATG
66 TCTATAAGCCCTTCAATGCATGATG
978234 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCA
1 TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCA
* *
978299 TCTGTAAGCCCTTCAGTGCATGATG
66 TCTATAAGCCCTTCAATGCATGATG
978324 TTTTCAAAAAGCCTTCGGG
1 TTTTC--AAAGCCTTCGGG
978343 ATCTTTTTGA
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
90 89 0.88
92 12 0.12
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (90 bp):
TTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCAGGTCA
TCTATAAGCCCTTCAATGCATGATG
Found at i:978404 original size:76 final size:76
Alignment explanation
Indices: 978274--978465 Score: 228
Period size: 76 Copynumber: 2.6 Consensus size: 76
978264 CTACAGTGCA
** * *
978274 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTT
*
978339 CGGGATCTTTT
66 CGGGAGCTTTT
* * *
978350 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTAT-AGTTCAGGATTTTTTCAAAAAGCCT
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCT-TCAGTGCAGGATGTTTTCAAAAAGCCT
978414 TCGGGAGCTTTT
65 TCGGGAGCTTTT
* * * ** *
978426 TGAT-ATTT-AAAGCCTCCAGGTCATCTGTAAGACCTACAGT
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTTCAGT
978466 ACAAAATGAT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
74 25 0.25
75 3 0.03
76 70 0.71
77 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (76 bp):
TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:978413 original size:213 final size:211
Alignment explanation
Indices: 978013--978418 Score: 589
Period size: 213 Copynumber: 1.9 Consensus size: 211
978003 AGACCTACAG
978013 TGCATGATGTTTTCAAAACTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCT
1 TGCATGATGTTTTCAAAACTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCT
*
978078 TCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAAGCCTTCGGGAGCTTTTCGAT
66 TCAGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAAAGCCTTCGGGAGCTTTTCGAT
* ** *
978143 ATTTTCAAAGCCTTCAGATCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAGCCTTCGGGTC
130 ATTTTCAAAACCTTCAGATCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAGCCTTCGGGTC
978208 ATCTATAAGCCCTTCAA
195 ATCTATAAGCCCTTCAA
* *
978225 TGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACC
1 TGCATGATGTTTTCAAA-ACTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACC
** * * * * *
978290 TTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAAAGCCTTCGGGATCTTTTTGAT
65 TTCAGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTCGAT
* * * * * *
978354 GTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTTCAGGATTTTTTCAAAAAGCCTTCGGG
130 ATTTTCAAAACCTTCAGATCATCCATAAGACCTACAGTGCAGGATGTTTTC--AAAGCCTTCGGG
978419 AGCTTTTTGA
Statistics
Matches: 171, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
211 64 0.37
212 17 0.10
213 90 0.53
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (211 bp):
TGCATGATGTTTTCAAAACTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCT
TCAGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTCGATA
TTTTCAAAACCTTCAGATCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAGCCTTCGGGTCA
TCTATAAGCCCTTCAA
Found at i:978573 original size:116 final size:116
Alignment explanation
Indices: 978369--978639 Score: 409
Period size: 116 Copynumber: 2.3 Consensus size: 116
978359 CAAAACCTTC
* * *
978369 GGGTCATCCATAAGACCTATAGT-TCAGGATTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATT
1 GGGTCATCCATAAGACCTACAGTGT-AGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATT
*
978433 TAAAGCCTCCAGGTCATCTGTAAGACCTACAGTACAAAATGATAAGACCTCA
65 TAAAGCCTCCAGGTCATCTGTAAGACCAACAGTACAAAATGATAAGACCTCA
* *
978485 GGGTCATTCATAAGACCTACAGTGTATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
1 GGGTCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
* * * *
978550 AAAGCCTCCGGGTCATTTGTAAGACCAACAGTGCAAGATGATAAGACCTCA
66 AAAGCCTCCAGGTCATCTGTAAGACCAACAGTACAAAATGATAAGACCTCA
* * *
978601 GGGCCATCCATAAGACCTACAGTGCAGGATGTTTGCAAA
1 GGGTCATCCATAAGACCTACAGTGTAGGATGTTTTCAAA
978640 TTAGATTTTA
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
116 138 0.99
117 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (116 bp):
GGGTCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
AAAGCCTCCAGGTCATCTGTAAGACCAACAGTACAAAATGATAAGACCTCA
Found at i:978920 original size:3 final size:3
Alignment explanation
Indices: 978898--978997 Score: 105
Period size: 3 Copynumber: 33.3 Consensus size: 3
978888 TATCTTGTTT
* * * * *
978898 TTA TTA TTT TTA TTA ATA TTA TTA ATA TT- TTA TTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
978945 TTA TTA TTAA TT- CTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TTTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
978991 TTA TTA T
1 TTA TTA T
978998 ACTAAATAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.04
3 70 0.89
4 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:980057 original size:16 final size:15
Alignment explanation
Indices: 980032--980063 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
980022 AATTTAGTCC
980032 ATGCTATATATATAT
1 ATGCTATATATATAT
980047 ATGCT-TATATATAT
1 ATGCTATATATATAT
980061 ATG
1 ATG
980064 GTAAATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (15 bp):
ATGCTATATATATAT
Found at i:980216 original size:21 final size:21
Alignment explanation
Indices: 980179--980218 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
980169 GAATTAGAAT
*
980179 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
980200 TTTTAATCCTATA-ATTTTA
1 TTTTAAT-CTATATATTTTA
980219 GTTTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:980681 original size:157 final size:158
Alignment explanation
Indices: 980366--980773 Score: 443
Period size: 157 Copynumber: 2.5 Consensus size: 158
980356 AATTAAATAA
* * * * *
980366 TAATGTTTATTTATTTTTAAATATTAAA-AAAGGGCGGTCTTAAAATAACTAGACGTCTTATTCT
1 TAATATTTATTTATTTTT-AATA-TAAAGAAAAGGCAGTCTT-AAATAACTAGATGTCATATTCT
* * *
980430 GGTATTTTAATAAATAAATAAATATCTTATTTATAAATATATATATATATATACATTTACTTTAT
63 AGTATTTTAA-AAATAAATAAATATCCTACTTATAAATATATATATATATATACA-TTA---TAT
*
980495 TTTTATTATTTTTAAGAAAAATCAATATATTCTTCT
123 TTTTATTATTTTTAAGAAAAATCAATATATTCTTAT
*
980531 TAATATTTATTTATTTTTAATATCAAAGAAAATGGCAGTCTTAATATAACTAGATGTCCTATTCT
1 TAATATTTATTTATTTTTAATAT-AAAGAAAA-GGCAGTCTTAA-ATAACTAGATGTCATATTCT
* * *
980596 AGTATTTTAAAAATAAATAAATATCCTGCTTATAAATGTATATATAT-T-TAC-TTA-GTTTTTA
63 AGTATTTTAAAAATAAATAAATATCCTACTTATAAATATATATATATATATACATTATATTTTTA
* * * *
980657 TTATTTTTTAGGAAAATTATTATATTCTTAT
128 TTATTTTTAAGAAAAATCAATATATTCTTAT
* *
980688 TAATATTTATTTATTTATTAATATTAAAGAAAAGAG-AGTCTTAAAGCAACTAGATGTCATTTTC
1 TAATATTTATTTATTT-TTAATA-TAAAGAAAAG-GCAGTCTTAAA-TAACTAGATGTCATATTC
* *
980752 TAATATTTT-TAAATAAATAAAT
62 TAGTATTTTAAAAATAAATAAAT
980774 GTAATATTTA
Statistics
Matches: 214, Mismatches: 21, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
156 13 0.06
157 80 0.37
158 15 0.07
159 1 0.00
161 3 0.01
163 4 0.02
164 8 0.04
165 55 0.26
166 35 0.16
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (158 bp):
TAATATTTATTTATTTTTAATATAAAGAAAAGGCAGTCTTAAATAACTAGATGTCATATTCTAGT
ATTTTAAAAATAAATAAATATCCTACTTATAAATATATATATATATATACATTATATTTTTATTA
TTTTTAAGAAAAATCAATATATTCTTAT
Found at i:980802 original size:2 final size:2
Alignment explanation
Indices: 980795--980846 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
980785 AAAACCCTAA
*
980795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG 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
980837 AT AT AT AT AT
1 AT AT AT AT AT
980847 TTAATATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:984533 original size:51 final size:54
Alignment explanation
Indices: 984435--984539 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 54
984425 GAAATTAAAG
*
984435 GATTAAAACATAATAAAATATCAAAACAGTGAATCAAATCATAAATAAAATAAT
1 GATTAAAACATAATAAAATATCAAAACAGTCAATCAAATCATAAATAAAATAAT
*
984489 GATTAAAACATAA-AAAATA-C-AAATA-TCACATCAAAATCAT-AATAAAATAAT
1 GATTAAAACATAATAAAATATCAAAACAGTCA-ATC-AAATCATAAATAAAATAAT
984540 AACATAACAC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
50 2 0.04
51 18 0.38
52 8 0.17
53 6 0.13
54 13 0.28
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.24
Consensus pattern (54 bp):
GATTAAAACATAATAAAATATCAAAACAGTCAATCAAATCATAAATAAAATAAT
Found at i:984541 original size:54 final size:54
Alignment explanation
Indices: 984435--984541 Score: 123
Period size: 54 Copynumber: 2.0 Consensus size: 54
984425 GAAATTAAAG
* *
984435 GATTAAAACATAATAAAATATCAAAACAGTGAATCAAATCATAAATAAAATAAT
1 GATTAAAACATAATAAAATATCAAAACAGTCAATCAAATCATAAAAAAAATAAT
*
984489 GATTAAAACATAA-AAAATA-C-AAATA-TCACATCAAAATCATAATAAAATAATAA
1 GATTAAAACATAATAAAATATCAAAACAGTCA-ATC-AAATCATAA-AAAA-AATAA
984542 CATAACACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
50 2 0.04
51 7 0.15
52 10 0.22
53 9 0.20
54 18 0.39
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (54 bp):
GATTAAAACATAATAAAATATCAAAACAGTCAATCAAATCATAAAAAAAATAAT
Found at i:987791 original size:85 final size:84
Alignment explanation
Indices: 987687--988006 Score: 401
Period size: 85 Copynumber: 3.8 Consensus size: 84
987677 CGAAGAGTCG
* * *
987687 TGAATCAAGCAAAGGAAATGTTGAAAACATTCTACCCGAAGGTCTTATGGATGGCCCGAATGACT
1 TGAATCGAGCAAAGGAAATGTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACT
*
987752 TAAGCTGATTCAAAATGTA
66 TAAGCTGATTCAAAGTGTA
* *
987771 TGAATCGAGCAATAGGAAATGTTGAAAACATCCTACCCGAAGGTCTTATGGGTGGCTCGAAGGAC
1 TGAATCGAGCAA-AGGAAATGTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGAC
* *
987836 TTAAGTTGATTCAAAGTGTG
65 TTAAGCTGATTCAAAGTGTA
* * ** * * * *
987856 TGAATCGAGTAAA-AAAATACTAAAAACATCCTGCTCGAA-GTCTTATGGATTGCCCGAAGGACT
1 TGAATCGAGCAAAGGAAATGTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACT
*
987919 TAAGCTGATTCGAAGTGTTA
66 TAAGCTGATTCAAAGTG-TA
** * * *
987939 TGAATCGAGCAATAGGAAATGTTGAAAACATCCTGTCCGAATGTCTTGTGGATGGACCGAAGGAC
1 TGAATCGAGCAA-AGGAAATGTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGAC
988004 TTA
65 TTA
988007 CTCATTAAGA
Statistics
Matches: 200, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
82 36 0.18
83 32 0.16
84 13 0.06
85 96 0.48
86 23 0.12
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (84 bp):
TGAATCGAGCAAAGGAAATGTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACT
TAAGCTGATTCAAAGTGTA
Found at i:988138 original size:53 final size:53
Alignment explanation
Indices: 988050--988675 Score: 493
Period size: 53 Copynumber: 11.7 Consensus size: 53
988040 TTCTTAATTG
* * * * *
988050 TCAAGGAACCCCTAAAAATTAGGCTAAGCTCCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * * *
988103 TCGAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTAGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * *
988156 TCAA-AAATCCCTAAAAATTAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * * * * *
988208 TCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAATTTCTTTTAAAAATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAA-TTCATTTGAAAA-CA
*** * * ** * *
988263 TCAAGAAACTTATGAAATTCATACTTAGTTTCTTTAAAACTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * *
988316 TCAAGAAACCCCTAAAAAAT-AGGCTCAGCTTCTTTCAAATTCATTTAAAAACA
1 TCAAGAAACCCCT-AAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* ** * * * *
988369 TCAAAAAAATCCTAAAAATTAGACTTAATTTCTTTCAAATTTATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * * * * *
988422 TCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAA-TTCATTTGAAAA-CA
* * * * * *
988477 TCAAGAAACTTCC-GAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAATCG
1 TCAAGAAAC-CCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAA-CA
** * * * * * * *
988531 TCAAGAAACTTCTGAAAATCAGACTTAGTTTTTTTAAAAATTAATTTTAAAATCG
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT-CAAATTCATTTGAAAA-CA
** * * * * * *
988586 TCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAA-TTCATTTGAAAA-CA
* ** * *
988641 TCAATAAACTTCTAAAAATCAGACTTAGTCTCTTT
1 TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT
988676 GAAAGCTCGT
Statistics
Matches: 475, Mismatches: 87, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
52 52 0.11
53 191 0.40
54 75 0.16
55 155 0.33
56 2 0.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
Found at i:988295 original size:55 final size:55
Alignment explanation
Indices: 988254--988780 Score: 433
Period size: 55 Copynumber: 9.7 Consensus size: 55
988244 AAATTTCTTT
* *
988254 TAAAAATCATCAAGAAACTTATGAAATTCATACTTAGTTTCTTT-AAAACTCATT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * * * * * * *
988308 TGAAAA-CATCAAGAAACCCCTA-AAAAAT-AGGCTCAGCTTCTTT-CAAATTCATT
1 TAAAAATCATCAAGAAA--CTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * ** * * * * * *
988361 TAAAAA-CATCAAAAAAATCCTAAAAATTAGACTTAATTTCTTT-CAAATTTATT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* *** * * * * ** *
988414 TGAAAA-CATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* **
988468 TAAAAATAATCAAGAAACTTCCGAAAATCAGACTTAGTTTCTTT-AAAACTCATT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * * * * * *
988522 TGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTTTTTTAAAAATTAATT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * * * *
988577 TTAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * * * * *
988632 TAAAAATCATCAATAAACTTCTAAAAATCAGACTTAGTCTCTTTGAAAGCTCGTT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * * * *
988687 TAAAAATAATCAAGAAACTTTTGAAAATCATACTTAGTTTATTTAAAAACTCATT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
* * *
988742 TGAAAATCGTCAAGAAACTTATGAAAATCAGACGTAGTT
1 TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTT
988781 CCTAAAAAAC
Statistics
Matches: 389, Mismatches: 77, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
52 6 0.02
53 101 0.26
54 66 0.17
55 216 0.56
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (55 bp):
TAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAACTCATT
Found at i:988360 original size:161 final size:158
Alignment explanation
Indices: 988081--988430 Score: 441
Period size: 161 Copynumber: 2.2 Consensus size: 158
988071 GGCTAAGCTC
* * * *** * ** * *
988081 CTTTCAAATTCATTTGAAAACATCGAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCA
1 CTTTCAAATTTATTTAAAAACATCAAGAAACTTATGAAATTCATACTTAGCTTCTTTAAAACTCA
* * * * *
988146 TTAGAAAACATCAAAAATCCCTAAAAATTAGGCTTAATTTCTTTCAAATTCATTTGAAAACATCA
66 TTAGAAAACATCAAAAACCCCTAAAAAATAGGCTCAACTTCTTTCAAATTCATTTAAAAACATCA
* *
988211 AGAAACA-CCTAAAAATTAGGCTTAATTT
131 A-AAAAATCCTAAAAATTAGACTTAATTT
* * *
988239 CTTTGAAATTTCTTTTAAAAATCATCAAGAAACTTATGAAATTCATACTTAGTTTCTTTAAAACT
1 CTTTCAAATTT-ATTTAAAAA-CATCAAGAAACTTATGAAATTCATACTTAGCTTCTTTAAAACT
* *
988304 CATTTGAAAACATCAAGAAACCCCTAAAAAATAGGCTCAGCTTCTTTCAAATTCATTTAAAAACA
64 CATTAGAAAACATCAA-AAACCCCTAAAAAATAGGCTCAACTTCTTTCAAATTCATTTAAAAACA
988369 TCAAAAAAATCCTAAAAATTAGACTTAATTT
128 TCAAAAAAATCCTAAAAATTAGACTTAATTT
*
988400 CTTTCAAATTTATTTGAAAACATCAAGAAAC
1 CTTTCAAATTTATTTAAAAACATCAAGAAAC
988431 CCCTAAAAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
158 9 0.06
159 18 0.11
160 59 0.36
161 76 0.47
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (158 bp):
CTTTCAAATTTATTTAAAAACATCAAGAAACTTATGAAATTCATACTTAGCTTCTTTAAAACTCA
TTAGAAAACATCAAAAACCCCTAAAAAATAGGCTCAACTTCTTTCAAATTCATTTAAAAACATCA
AAAAAATCCTAAAAATTAGACTTAATTT
Found at i:988458 original size:214 final size:215
Alignment explanation
Indices: 988081--988759 Score: 830
Period size: 214 Copynumber: 3.1 Consensus size: 215
988071 GGCTAAGCTC
* * *
988081 CTTTCAAATTCATTTGAAAA-CATCGAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTC
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTC
*
988145 A-TTAGAAAACATC--AAAAATCCCTAAAAATTAGGCTTAATTTCTTTCAAATTCATTTGAAAAC
66 ATTTA-AAAACATCAAAAAAAT-CCTAAAAATTAGACTTAATTTCTTTCAAATTCATTTGAAAAC
* *
988207 ATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAATTTCTTTTAAAAATCATCAAGAAAC
129 ATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAATCAAGAAAC
*
988272 TTATGAAATTCATACTTAGTTT
194 TTATGAAAATCATACTTAGTTT
* *
988294 CTTTAAAACTCATTTGAAAA-CATCAAGAAACCCCTAAAAAAT-AGGCTCAGCTTCTTTCAAATT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACCCCT-GAAAATCAGGCTTAGCTTCTTTCAAATT
*
988357 CATTTAAAAACATCAAAAAAATCCTAAAAATTAGACTTAATTTCTTTCAAATTTATTTGAAAACA
65 CATTTAAAAACATCAAAAAAATCCTAAAAATTAGACTTAATTTCTTTCAAATTCATTTGAAAACA
*
988422 TCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAATCAAGAAACT
130 TCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAATCAAGAAACT
** *
988487 TCCGAAAATCAGACTTAGTTT
195 TATGAAAATCATACTTAGTTT
* ** * * * *
988508 CTTTAAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTTTTTTAAAAATT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTT-CAAATT
* * * * * * * * * * * * *
988573 AATTTTAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAA
65 CA-TTTAAAAACATCAAAAAAATCCTAAAAATTAGACTTAATTTCTTTCAAA-TTCATTTGAAAA
* ** * * * * * *
988638 TCATCAATAAACTTCTAAAAATCAGACTTAGTCTCTTTGAAAGCTCGTTTAAAAATAATCAAGAA
128 -CATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAATCAAGAA
*
988703 ACTTTTGAAAATCATACTTAGTTT
192 ACTTATGAAAATCATACTTAGTTT
* *
988727 ATTTAAAAACTCATTTGAAAATCGTCAAGAAAC
1 CTTT-AAAACTCATTTGAAAATCATCAAGAAAC
988760 TTATGAAAAT
Statistics
Matches: 405, Mismatches: 50, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
213 62 0.15
214 153 0.38
215 29 0.07
216 6 0.01
217 39 0.10
218 9 0.02
219 79 0.20
220 28 0.07
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (215 bp):
CTTTAAAACTCATTTGAAAATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTC
ATTTAAAAACATCAAAAAAATCCTAAAAATTAGACTTAATTTCTTTCAAATTCATTTGAAAACAT
CAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAATCAAGAAACTT
ATGAAAATCATACTTAGTTT
Found at i:988482 original size:161 final size:157
Alignment explanation
Indices: 988081--988485 Score: 440
Period size: 161 Copynumber: 2.5 Consensus size: 157
988071 GGCTAAGCTC
* * * * * *
988081 CTTTCAAATTCATTTGAAAACATCGAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCA
1 CTTTCAAATTTATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTT-AAATTCT
* * * * *
988146 TTAGAAAACATCAA-AAATCCCTAAAAATTAGGCTTAATTTCTTTCAAATTCATTTGAAAACATC
65 TTA-AAAACATCAAGAAACCCCTAAAAAATAGGCTCAACTTCTTTCAAATTCATTTAAAAACATC
* *
988210 AAGAAACACCTAAAAATTAGGCTTAATTT
129 AAGAAAAACCTAAAAATTAGACTTAATTT
* * * * * **
988239 CTTTGAAATTTCTTTTAAAAATCATCAAGAAA--CTTATGAAATTCATACTTAGTTTCTTTAAAA
1 CTTTCAAATTT-ATTTGAAAA-CATCAAGAAACCCCTA-AAAATT-AGGCTTAGTTTCTTT-AAA
* * *
988302 CTCATTTGAAAACATCAAGAAACCCCTAAAAAATAGGCTCAGCTTCTTTCAAATTCATTTAAAAA
61 TTC-TTTAAAAACATCAAGAAACCCCTAAAAAATAGGCTCAACTTCTTTCAAATTCATTTAAAAA
988367 CATCAA-AAAAATCCTAAAAATTAGACTTAATTT
125 CATCAAGAAAAA-CCTAAAAATTAGACTTAATTT
*
988400 CTTTCAAATTTATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTC
1 CTTTCAAATTTATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTT-AAA-TTC
*
988465 TTTTAAAAATAATCAAGAAAC
64 -TTTAAAAA-CATCAAGAAAC
988486 TTCCGAAAAT
Statistics
Matches: 199, Mismatches: 37, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
158 11 0.06
159 36 0.18
160 61 0.31
161 91 0.46
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (157 bp):
CTTTCAAATTTATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAATTCTT
TAAAAACATCAAGAAACCCCTAAAAAATAGGCTCAACTTCTTTCAAATTCATTTAAAAACATCAA
GAAAAACCTAAAAATTAGACTTAATTT
Found at i:988663 original size:110 final size:109
Alignment explanation
Indices: 988081--988780 Score: 589
Period size: 110 Copynumber: 6.5 Consensus size: 109
988071 GGCTAAGCTC
* * * ** * * * *
988081 CTTTCAAATTCATTTGAAAA-CATCGAGAAACCCCTGAAAATCAGGCTTAGCTTCTTT-CAAATT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAATT
** * * * * *
988144 CATTAGAAAA-CATCAA-AAA-TCCCTAAAAATTAGGCTTAATTT
66 CATTTTAAAATCATCAAGAAACT-TCTGAAAATCAGACTTAGTTT
* * ** * * * *
988186 CTTTCAAATTCATTTGAAAA-CATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAATTT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAATT
* * *
988250 C-TTTTAAAAATCATCAAGAAACTTATGAAATTCATACTTAGTTT
66 CATTTT-AAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
** * * * *
988294 CTTTAAAACTCATTTGAAAA-CATCAAGAAACCCCTAAAAAAT-AGGCTCAGCTTCTTT-CAAAT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACTTCT-AAAAATCAGACTTAGTTTCTTTGAAAAT
* * * * * * *
988356 TCA-TTTAAAAACATCAAAAAAATCCTAAAAATTAGACTTAATTT
65 TCATTTTAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
* * * ** * * * *
988400 CTTTCAAATTTATTTGAAAA-CATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAATT
* *
988464 C-TTTTAAAAATAATCAAGAAACTTCCGAAAATCAGACTTAGTTT
66 CATTTT-AAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
* * * *
988508 CTTTAAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTTTTTTAAAAATT
1 CTTTAAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAATT
* * *
988573 AATTTTAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCT
66 CATTTTAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
* * * * **
988617 CTTTGAAAGCTCATTTAAAAATCATCAATAAACTTCTAAAAATCAGACTTAGTCTCTTTGAAAGC
1 CTTT-AAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAAT
* * * * *
988682 TCGTTTAAAAATAATCAAGAAACTTTTGAAAATCATACTTAGTTT
65 TCATTTTAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
* * * * *
988727 ATTTAAAAACTCATTTGAAAATCGTCAAGAAACTTATGAAAATCAGACGTAGTT
1 CTTT-AAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTT
988781 CCTAAAAAAC
Statistics
Matches: 482, Mismatches: 99, Indels: 23
0.80 0.16 0.04
Matches are distributed among these distances:
105 59 0.12
106 81 0.17
107 22 0.05
108 106 0.22
109 79 0.16
110 135 0.28
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (109 bp):
CTTTAAAACTCATTTGAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAATT
CATTTTAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
Found at i:988756 original size:165 final size:164
Alignment explanation
Indices: 988256--988779 Score: 488
Period size: 165 Copynumber: 3.2 Consensus size: 164
988246 ATTTCTTTTA
* * * * * * * *
988256 AAAATCATCAAGAAACTTATGAAATTCATACTTAGTTTCTTT-AAAACTCATTTGAAAA-CATCA
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAATAATCA
* * * * * * * * *
988319 AGAAAC-CCCTAAAAAAT-AGGCTCAG-CTTCTTTCAAATTCATTTAAAAA-CATCAAAAAAATC
66 AGAAACTTCC--AAAAATCAGACTTAGTC-TCTTTAAAACTCATTTAAAAATAATCAAGAAACTT
* * * * * * *
988380 CTAAAAATTAGACTTAATTTCTTT-CAAATTTATTTG
128 CTGAAAATCAGACTTAGTTTATTTAAAAACTAATTTG
* ** * * * * * * *
988416 AAAA-CATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATAATCA
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAATAATCA
* * * **
988480 AGAAACTTCCGAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAATCGTCAAGAAACTTCTG
66 AGAAACTTCCAAAAATCAGACTTAGTCTCTTTAAAACTCATTTAAAAATAATCAAGAAACTTCTG
* * *
988545 AAAATCAGACTTAGTTTTTTTAAAAATTAATTTT
131 AAAATCAGACTTAGTTTATTTAAAAACTAATTTG
*
988579 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAATCATCA
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAATAATCA
* * * * *
988644 ATAAACTTCTAAAAATCAGACTTAGTCTCTTTGAAAGCTCGTTTAAAAATAATCAAGAAACTTTT
66 AGAAACTTCCAAAAATCAGACTTAGTCTCTTT-AAAACTCATTTAAAAATAATCAAGAAACTTCT
* *
988709 GAAAATCATACTTAGTTTATTTAAAAACTCATTTG
130 GAAAATCAGACTTAGTTTATTTAAAAACTAATTTG
* *
988744 AAAATCGTCAAGAAACTTATGAAAATCAGACGTAGT
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGT
988780 TCCTAAAAAA
Statistics
Matches: 294, Mismatches: 61, Indels: 13
0.80 0.17 0.04
Matches are distributed among these distances:
159 28 0.10
160 21 0.07
161 34 0.12
162 31 0.11
163 13 0.04
164 77 0.26
165 90 0.31
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (164 bp):
AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAATAATCA
AGAAACTTCCAAAAATCAGACTTAGTCTCTTTAAAACTCATTTAAAAATAATCAAGAAACTTCTG
AAAATCAGACTTAGTTTATTTAAAAACTAATTTG
Found at i:990768 original size:36 final size:36
Alignment explanation
Indices: 990728--990798 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
990718 CGTCTTGAAA
990728 TTTTTGATCGATTT-TCTTTATTCTTTCTTTTTTCTCT
1 TTTTTGATCGATTTATCTTT-TT-TTTCTTTTTTCTCT
* **
990765 TTTTTTATCTTTTTATCTTTTTTTTCTTTTTTCT
1 TTTTTGATCGATTTATCTTTTTTTTCTTTTTTCT
990799 TTCTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 12 0.40
37 13 0.43
38 5 0.17
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (36 bp):
TTTTTGATCGATTTATCTTTTTTTTCTTTTTTCTCT
Found at i:990778 original size:20 final size:19
Alignment explanation
Indices: 990748--990848 Score: 69
Period size: 22 Copynumber: 4.9 Consensus size: 19
990738 ATTTTCTTTA
*
990748 TTCTTTCTTTTTTCTCTTTTT
1 TTCTTT-TTTTATCT-TTTTT
* *
990769 TTATCTTTTTATCTTTTTT
1 TTCTTTTTTTATCTTTTTT
*
990788 TTCTTTTTTCTTTCTTATTTT
1 TTCTTTTTT-TATCTT-TTTT
*
990809 TTCTTTTTCTCTTTCTTTCTTT
1 TTCTTTTT-T-TATCTTT-TTT
*
990831 TTATTTTTCTT-TCTTTTT
1 TTCTTTTT-TTATCTTTTT
990849 GTGTATTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 14 0.20
20 17 0.25
21 18 0.26
22 20 0.29
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTTTTTTTATCTTTTTT
Found at i:990784 original size:38 final size:37
Alignment explanation
Indices: 990742--990832 Score: 109
Period size: 36 Copynumber: 2.5 Consensus size: 37
990732 TGATCGATTT
990742 TCTTTATTCTTTCTTTTTTCTCTT-TTTTTATCTTTTTA
1 TCTTT-TTCTTTCTTTTTTCTCTTATTTTT-TCTTTTTA
990780 TCTTTTT-TTTCTTTTTTCTTTCTTATTTTTTC-TTTT-
1 TCTTTTTCTTTCTTTTTTC--TCTTATTTTTTCTTTTTA
*
990816 TCTCTTTCTTTCTTTTT
1 TCTTTTTCTTTCTTTTT
990833 ATTTTTCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
36 17 0.35
37 15 0.31
38 11 0.23
39 5 0.10
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (37 bp):
TCTTTTTCTTTCTTTTTTCTCTTATTTTTTCTTTTTA
Found at i:990797 original size:54 final size:52
Alignment explanation
Indices: 990745--990848 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 52
990735 TCGATTTTCT
* *
990745 TTATTCTTTCTTTTTTCTCTTTTTTTATCTTTTTATCTTTTTTTTCTTTTTTCTTTC
1 TTATTCTTTC-TTTTTCTC-TTTCTT-TCTTTTTAT-TTTTCTTTCTTTTTTC-TTC
*
990802 TTATTTTTTCTTTTTCTCTTTCTTTCTTTTTATTTTTCTTTCTTTTT
1 TTATTCTTTCTTTTTCTCTTTCTTTCTTTTTATTTTTCTTTCTTTTT
990849 GTGTATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 13 0.30
54 9 0.20
55 5 0.11
56 8 0.18
57 9 0.20
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (52 bp):
TTATTCTTTCTTTTTCTCTTTCTTTCTTTTTATTTTTCTTTCTTTTTTCTTC
Found at i:990810 original size:16 final size:15
Alignment explanation
Indices: 990766--990848 Score: 71
Period size: 16 Copynumber: 5.3 Consensus size: 15
990756 TTTTTCTCTT
*
990766 TTTTTATCTTTTTATC
1 TTTTTAT-TTTTTTTC
*
990782 TTTTTTTTCTTTTTTC
1 TTTTTATT-TTTTTTC
990798 TTTCTTA--TTTTTTC
1 TTT-TTATTTTTTTTC
* *
990812 TTTTTCTCTTTCTTTC
1 TTTTTAT-TTTTTTTC
990828 TTTTTATTTTTCTTTC
1 TTTTTATTTTT-TTTC
990844 TTTTT
1 TTTTT
990849 GTGTATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
13 2 0.04
14 10 0.19
15 4 0.07
16 36 0.67
17 2 0.04
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTATTTTTTTTC
Found at i:990848 original size:38 final size:37
Alignment explanation
Indices: 990748--990848 Score: 114
Period size: 38 Copynumber: 2.6 Consensus size: 37
990738 ATTTTCTTTA
*
990748 TTCTTTCTTTTTTCTCTTTTTTTATCTTTTTATCTTTTTT
1 TTCTTT-TTTTTT-TCTTTTTTT-TCTTTTTATCTTTTCT
* *
990788 TTCTTTTTTCTTTCTTATTTTTTCTTTTTCTC-TTTCT
1 TTCTTTTTTTTTTCTT-TTTTTTCTTTTTATCTTTTCT
990825 TTCTTTTTATTTTTCTTTCTTTTT
1 TTCTTTTT-TTTTTCTTT-TTTTT
990849 GTGTATTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 13 0.24
38 25 0.46
39 10 0.19
40 6 0.11
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (37 bp):
TTCTTTTTTTTTTCTTTTTTTTCTTTTTATCTTTTCT
Found at i:990855 original size:20 final size:20
Alignment explanation
Indices: 990813--990858 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
990803 TATTTTTTCT
*
990813 TTTTCTCTTTCTTTCTTTTTA
1 TTTT-TCTTTCTTTCTTTGTA
990834 TTTTTCTTTCTTT-TTGTGTA
1 TTTTTCTTTCTTTCTT-TGTA
990854 TTTTT
1 TTTTT
990859 TCTATATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 17 0.74
21 4 0.17
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTCTTTCTTTGTA
Found at i:990859 original size:22 final size:19
Alignment explanation
Indices: 990740--990848 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 19
990730 TTTGATCGAT
990740 TTTCTTTATTCTTTCTTTTTTC
1 TTTCTTT-TT-TTT-TTTTTTC
* *
990762 --TCTTTTTTTATCTTTT-
1 TTTCTTTTTTTTTTTTTTC
*
990778 TATCTTTTTTTTCTTTTTTC
1 TTTCTTTTTTTT-TTTTTTC
990798 TTTCTTATTTTTTCTTTTTCTC
1 TTTCTT-TTTTTT-TTTTT-TC
*
990820 TTTCTTTCTTTTTATTTTTC
1 TTTCTTT-TTTTTTTTTTTC
990840 TTTCTTTTT
1 TTTCTTTTT
990849 GTGTATTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
17 5 0.07
18 11 0.15
19 9 0.12
20 19 0.26
21 17 0.23
22 13 0.18
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTTTTTTTTTTC
Found at i:993147 original size:167 final size:166
Alignment explanation
Indices: 992871--993179 Score: 555
Period size: 167 Copynumber: 1.9 Consensus size: 166
992861 AAGTAGATAA
* * * * *
992871 AAAATTATAAGGCTTTTAAAATAACAACGTCACACGAAGGGGTAGATATTTTTTGGATTCGTTTT
1 AAAATTAGAAGGCTTTTAAAACAACAACGTCACACGAAGGGGTAAATATCTTTTAGATTCGTTTT
*
992936 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTTACACACGACACTTGCA
66 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
993001 TTGCATAAACATAGTGTTAATACCCGAGTTATTTATC
131 TTGCAT-AACATAGTGTTAATACCCGAGTTATTTATC
993038 AAAATTAGAAGGCTTTTAAAACAACAACGTCACACGAAGGGGTAAATATCTTTTAGATTCGTTTT
1 AAAATTAGAAGGCTTTTAAAACAACAACGTCACACGAAGGGGTAAATATCTTTTAGATTCGTTTT
993103 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
66 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
993168 TTGCATAACATA
131 TTGCATAACATA
993180 AGCTGTATAC
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
166 6 0.04
167 130 0.96
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (166 bp):
AAAATTAGAAGGCTTTTAAAACAACAACGTCACACGAAGGGGTAAATATCTTTTAGATTCGTTTT
AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
TTGCATAACATAGTGTTAATACCCGAGTTATTTATC
Found at i:995813 original size:23 final size:25
Alignment explanation
Indices: 995786--995832 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
995776 ATTTGTATTT
*
995786 TTTATG-TTTTAATCACT-TTTTTA
1 TTTATGATTTGAATCACTGTTTTTA
*
995809 TTTATGATTTGATTCACTGTTTTT
1 TTTATGATTTGAATCACTGTTTTT
995833 TATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.64
Consensus pattern (25 bp):
TTTATGATTTGAATCACTGTTTTTA
Found at i:996037 original size:21 final size:21
Alignment explanation
Indices: 995998--996038 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
995988 TTTAATTGCC
*
995998 TTTAATTTATTTGATTTTCAT
1 TTTAATTTATTTGAATTTCAT
996019 TTTAATTTAGTTT-AATTTCA
1 TTTAATTTA-TTTGAATTTCA
996039 ATCCTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTAATTTATTTGAATTTCAT
Found at i:1000499 original size:17 final size:17
Alignment explanation
Indices: 1000477--1000515 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1000467 AATAAAGAAA
1000477 ATCATTGAAATAATTCT
1 ATCATTGAAATAATTCT
1000494 ATCATTGAAATAATTCT
1 ATCATTGAAATAATTCT
1000511 ATCAT
1 ATCAT
1000516 GCATTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (17 bp):
ATCATTGAAATAATTCT
Found at i:1000937 original size:9 final size:8
Alignment explanation
Indices: 1000924--1000998 Score: 57
Period size: 9 Copynumber: 9.2 Consensus size: 8
1000914 AAAAACACAC
1000924 AAAAAGAAA
1 AAAAAG-AA
1000933 GAAAAAGAA
1 -AAAAAGAA
1000942 AAAAAG-A
1 AAAAAGAA
*
1000949 AGAAAGAA
1 AAAAAGAA
* *
1000957 AAACA-TA
1 AAAAAGAA
1000964 AAAAAGAGA
1 AAAAAGA-A
1000973 AAAAAGAGA
1 AAAAAGA-A
1000982 AAAAAG-A
1 AAAAAGAA
*
1000989 AGAAAGAA
1 AAAAAGAA
1000997 AA
1 AA
1000999 TCGATCAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
7 17 0.32
8 12 0.23
9 18 0.34
10 6 0.11
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (8 bp):
AAAAAGAA
Found at i:1000951 original size:21 final size:21
Alignment explanation
Indices: 1000927--1000998 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
1000917 AACACACAAA
1000927 AAGAAAGAAAAAGAAAAAAAG
1 AAGAAAGAAAAAGAAAAAAAG
*
1000948 AAGAAAGAAAAACATAAAAAAG
1 AAGAAAGAAAAAGA-AAAAAAG
*
1000970 -AGAAA-AAAGAG-AAAAAAG
1 AAGAAAGAAAAAGAAAAAAAG
1000988 AAGAAAGAAAA
1 AAGAAAGAAAA
1000999 TCGATCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.16
19 5 0.11
20 7 0.16
21 18 0.41
22 7 0.16
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (21 bp):
AAGAAAGAAAAAGAAAAAAAG
Found at i:1000954 original size:7 final size:7
Alignment explanation
Indices: 1000930--1000998 Score: 50
Period size: 7 Copynumber: 9.1 Consensus size: 7
1000920 ACACAAAAAG
1000930 AAAG-AA
1 AAAGAAA
1000936 AAAGAAAA
1 AAAG-AAA
*
1000944 AAAGAAG
1 AAAGAAA
1000951 AAAGAAA
1 AAAGAAA
*
1000958 AACATAAAA
1 AA-A-GAAA
1000967 AAGAGAAAA
1 AA-AG-AAA
1000976 AAGAGAAA
1 AA-AGAAA
*
1000984 AAAGAAG
1 AAAGAAA
1000991 AAAGAAA
1 AAAGAAA
1000998 A
1 A
1000999 TCGATCAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
6 4 0.08
7 21 0.41
8 12 0.24
9 14 0.27
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (7 bp):
AAAGAAA
Found at i:1000985 original size:40 final size:41
Alignment explanation
Indices: 1000913--1000998 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 41
1000903 AAGATATATT
1000913 GAAAAACACACAAAAAGAAAGAAAAAGAAAAAAAGAAGAAA
1 GAAAAACACACAAAAAGAAAGAAAAAGAAAAAAAGAAGAAA
* *
1000954 GAAAAACATA-AAAAAGAGA-AAAAAGAGAAAAAAGAAGAAA
1 GAAAAACACACAAAAAGAAAGAAAAAGA-AAAAAAGAAGAAA
1000994 GAAAA
1 GAAAA
1000999 TCGATCAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
39 7 0.17
40 26 0.62
41 9 0.21
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.01
Consensus pattern (41 bp):
GAAAAACACACAAAAAGAAAGAAAAAGAAAAAAAGAAGAAA
Found at i:1003026 original size:55 final size:54
Alignment explanation
Indices: 1002959--1003494 Score: 490
Period size: 55 Copynumber: 9.9 Consensus size: 54
1002949 TCTAATGTAT
* * * *
1002959 TTTTTAAG-AACTACGTCTGATTTTCATAAGTTTCTTGATGATTTTCAAATGAGT
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGA-A
* * ** * * * *
1003013 TTTTCAAGAAACTAAGTCTAATTTTTGGAAGTTTCTAGATTATTTT-TAATCGAGC
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAAT-GA-A
* * * * * * * *
1003068 TTTCAAAGAGACTACGTCTAATTTTTAGAAGTTTATTGATGATTTTTAAATGAGC
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGA-A
* * * * * *
1003123 TTTCAACGAGACTAAGTCTGATTTTTCAGAAGTTTCTTGACGATTTTCAAATTAGT
1 TTTTAAAGAAACTAAGTCTGA-TTTTCAGAAGTTTCTTGATGATTTTCAAATGA-A
*
1003179 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAATGATTTTCAAATGAA
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGAA
* *
1003233 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAAAGAA
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGAA
* * * * * ** *
1003287 CTTTCAAAGAAATTAAGCCTAATTTTTAGGGGTTTCTT-ATG-TTTTCAAATAAA
1 -TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGAA
* * * *
1003340 TTTGAAAGAAATTAAGCCTGATTTTCAGGAGTTTCTTGATG-TTTTCAAATGAA
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGAA
* * * * ** *
1003393 TTTGAAAGAAGCTAAGCCTGATTTTTTAGGGGTTTCTTGAT-ATTTTCAAATGAT
1 TTTTAAAGAAACTAAGTCTGA-TTTTCAGAAGTTTCTTGATGATTTTCAAATGAA
* * * *
1003447 TTTTATAGAAAGTAAGTTTGATTTTTAGAAGTTTCTTGATGATTTTCA
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCA
1003495 GGAGTTTCTT
Statistics
Matches: 407, Mismatches: 66, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
52 33 0.08
53 59 0.14
54 114 0.28
55 152 0.37
56 49 0.12
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (54 bp):
TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGAA
Done.