Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold47
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: 2157611
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 149227 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:747157 original size:1 final size:1
Alignment explanation
Indices: 747151--747176 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
747141 CTCCCAAAGG
747151 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
747177 CAGTCATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:747375 original size:3 final size:3
Alignment explanation
Indices: 747369--747406 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
747359 ATTATTAAAG
*
747369 ATT ATT ATT -TT ATAC ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT
747407 AAAAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:747694 original size:3 final size:3
Alignment explanation
Indices: 747686--747724 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
747676 TATATTTTTA
* *
747686 AAT AAT AAT AAT AAT AAT AAT AAA AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
747725 TAACCGTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:748854 original size:36 final size:34
Alignment explanation
Indices: 748814--748889 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 34
748804 GGTCTAACCT
*
748814 AAATTAGTATTTAAATAATAAAATATATATTTTTTAA
1 AAATTAAT-TTTAAATAATAAAATAT-TA-TTTTTAA
* * *
748851 AATTTAATTTTAAATATTAATATATTATTTTTAA
1 AAATTAATTTTAAATAATAAAATATTATTTTTAA
748885 AAATT
1 AAATT
748890 TTAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 11 0.32
35 2 0.06
36 15 0.44
37 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (34 bp):
AAATTAATTTTAAATAATAAAATATTATTTTTAA
Found at i:748894 original size:36 final size:36
Alignment explanation
Indices: 748823--748890 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
748813 TAAATTAGTA
*
748823 TTTAAATAATAAAATATATATTTTTTAAAATTTAAT
1 TTTAAATAATAAAATATATATTTTTAAAAATTTAAT
* *
748859 TTTAAATATTAATATAT-TATTTTTAAAAATTT
1 TTTAAATAATAAAATATATATTTTTAAAAATTT
748891 TAATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 14 0.48
36 15 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (36 bp):
TTTAAATAATAAAATATATATTTTTAAAAATTTAAT
Found at i:749528 original size:18 final size:19
Alignment explanation
Indices: 749484--749530 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
749474 ATATATATTT
*
749484 AAATATAAATATATAATAA
1 AAATTTAAATATATAATAA
**
749503 ATTTTTTAAATATATAA-AA
1 A-AATTTAAATATATAATAA
749522 AAATTTAAA
1 AAATTTAAA
749531 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTAAATATATAATAA
Found at i:750513 original size:15 final size:15
Alignment explanation
Indices: 750485--750535 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
750475 TTAAATTACT
*
750485 AAAAATTAAAATTTTA
1 AAAAATT-AAATTTAA
*
750501 AAAAATTATATTTAA
1 AAAAATTAAATTTAA
750516 AAAAATTAAA-TTAA
1 AAAAATTAAATTTAA
750530 AAAAAT
1 AAAAAT
750536 AATATAAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 10 0.31
15 15 0.47
16 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATTAAATTTAA
Found at i:750514 original size:14 final size:14
Alignment explanation
Indices: 750497--750540 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
750487 AAATTAAAAT
750497 TTTAAAAAATTATA
1 TTTAAAAAATTATA
*
750511 TTTAAAAAAATTAAA
1 TTT-AAAAAATTATA
* *
750526 TTAAAAAAATAATA
1 TTTAAAAAATTATA
750540 T
1 T
750541 AAGTGAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTAAAAAATTATA
Found at i:754235 original size:13 final size:13
Alignment explanation
Indices: 754170--754239 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
754160 AGGTGGTTTC
*
754170 ATATTTATTATAA
1 ATATTAATTATAA
* *
754183 TTATAAATATAATAA
1 ATATTAAT-T-ATAA
754198 ATATT-ATTATAA
1 ATATTAATTATAA
* * *
754210 TTATTTATAATAA
1 ATATTAATTATAA
754223 ATATTAATTATAA
1 ATATTAATTATAA
754236 ATAT
1 ATAT
754240 ATAAAAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
12 8 0.18
13 26 0.59
14 3 0.07
15 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTAATTATAA
Found at i:754249 original size:25 final size:25
Alignment explanation
Indices: 754180--754253 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
754170 ATATTTATTA
754180 TAATTAT-AA-ATAT-AATAAATAT
1 TAATTATAAATATATAAATAAATAT
* *
754202 T-ATTATAATTATTTATAATAAATAT
1 TAATTATAAATATATA-AATAAATAT
*
754227 TAATTATAAATATATAAAAAAAT-T
1 TAATTATAAATATATAAATAAATAT
754251 TAA
1 TAA
754254 ATCATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 3 0.07
24 4 0.10
25 16 0.38
26 12 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TAATTATAAATATATAAATAAATAT
Found at i:754673 original size:3 final size:3
Alignment explanation
Indices: 754667--754692 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
754657 ATAATAAATA
754667 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
754693 ATATCTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:756344 original size:2 final size:2
Alignment explanation
Indices: 756339--756382 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
756329 ATCTAACACA
756339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
756381 AT
1 AT
756383 TGTATGTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:758621 original size:50 final size:51
Alignment explanation
Indices: 758529--758626 Score: 155
Period size: 50 Copynumber: 1.9 Consensus size: 51
758519 AGATTAAAAT
758529 TTTTATATTAATAATTATATATTTTTAGAATTAAATATAAATA-AAATAAA
1 TTTTATATTAATAATTATATATTTTTAGAATTAAATATAAATATAAATAAA
* *
758579 TTTTATATTAATATTTATATATTTTTATAATTAAAT-TAAAATATAAAT
1 TTTTATATTAATAATTATATATTTTTAGAATTAAATAT-AAATATAAAT
758627 TTAACTATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 1 0.02
50 39 0.89
51 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (51 bp):
TTTTATATTAATAATTATATATTTTTAGAATTAAATATAAATATAAATAAA
Found at i:758747 original size:29 final size:30
Alignment explanation
Indices: 758713--758769 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
758703 TAGTTTTATT
758713 AAATTTTGTATAAAAATGT-ATTAAATATA
1 AAATTTTGTATAAAAATGTAATTAAATATA
* * *
758742 AAATTTTTTCTTAAAATGTAATTAAATA
1 AAATTTTGTATAAAAATGTAATTAAATA
758770 AATCTTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (30 bp):
AAATTTTGTATAAAAATGTAATTAAATATA
Found at i:759059 original size:4 final size:4
Alignment explanation
Indices: 759050--759074 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
759040 TGAGCAAAGA
759050 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
759075 GGAAAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:759291 original size:24 final size:25
Alignment explanation
Indices: 759258--759327 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
759248 TATATTTAAA
759258 TATATCTTATTTATTATAT-TATTTT
1 TATAT-TTATTTATTATATATATTTT
* *
759283 TATATTTATTAAATATAATATATTTT
1 TATATTTATTTATTAT-ATATATTTT
*
759309 TAT-TATATTT-TTATA-ATAT
1 TATATTTATTTATTATATATAT
759328 GTAAGGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 4 0.11
23 1 0.03
24 12 0.32
25 12 0.32
26 9 0.24
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATTTATTTATTATATATATTTT
Found at i:759305 original size:29 final size:29
Alignment explanation
Indices: 759272--759327 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
759262 TCTTATTTAT
759272 TATATTATTT-TTATATTTATTA-AATATAA
1 TATATT-TTTATTATATTT-TTATAATATAA
759301 TATATTTTTATTATATTTTTATAATAT
1 TATATTTTTATTATATTTTTATAATAT
759328 GTAAGGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TATATTTTTATTATATTTTTATAATATAA
Found at i:765805 original size:14 final size:13
Alignment explanation
Indices: 765788--765827 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
765778 TTAGCTTTTT
*
765788 AATTTTATTTGTAA
1 AATTTAATTT-TAA
765802 AATTTAATTTTAA
1 AATTTAATTTTAA
765815 AATTTAATTTTAA
1 AATTTAATTTTAA
765828 TAAATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
AATTTAATTTTAA
Found at i:767206 original size:24 final size:22
Alignment explanation
Indices: 767179--767250 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 22
767169 AATAAAATGA
767179 TATAATTTAATAAAATTAAAAGTT
1 TATAATTTAATAAAATTAAAA--T
* *
767203 TATAATTAAAATAAAAATTAATAT
1 TATAATT-TAAT-AAAATTAAAAT
*
767227 TA-AATTTAAT-AATTTAAAA-
1 TATAATTTAATAAAATTAAAAT
767246 TATAA
1 TATAA
767251 ATTACTTGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
22 3 0.08
23 4 0.10
24 10 0.25
25 3 0.08
26 9 0.22
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
TATAATTTAATAAAATTAAAAT
Found at i:767512 original size:25 final size:24
Alignment explanation
Indices: 767466--767512 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
767456 AATTAATATT
* * *
767466 TTTAAATATATTTTTATTTAAAAA
1 TTTAAATATATATATATATAAAAA
767490 TTTAAATAATATATATATATAAA
1 TTTAAAT-ATATATATATATAAA
767513 TACCCTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAAATATATATATATATAAAAA
Found at i:768650 original size:20 final size:21
Alignment explanation
Indices: 768625--768663 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
768615 CCCCCCAAAA
*
768625 AGTTAGCCGAA-TAAAGCTTG
1 AGTTAGCCCAAGTAAAGCTTG
768645 AGTTAGCCCAAGTAAAGCT
1 AGTTAGCCCAAGTAAAGCT
768664 CATTTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (21 bp):
AGTTAGCCCAAGTAAAGCTTG
Found at i:768742 original size:20 final size:20
Alignment explanation
Indices: 768719--768756 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
768709 TTTTTTAATA
*
768719 TTATA-ATTATATTTAAAATG
1 TTATATATT-TATATAAAATG
768739 TTATATATTTATATAAAA
1 TTATATATTTATATAAAA
768757 ATTAATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTATATATTTATATAAAATG
Found at i:768794 original size:32 final size:32
Alignment explanation
Indices: 768742--768876 Score: 122
Period size: 32 Copynumber: 4.4 Consensus size: 32
768732 TAAAATGTTA
* *
768742 TATATTTATATAAAAATTAATATGTTAATAATT
1 TATA-TTATATAAAATTTAATATATTAATAATT
* *
768775 TATATTATATAAATTTTAATATATTTATATATT
1 TATATTATATAAAATTTAATATATTAATA-ATT
** *
768808 TATATT-T-T-TTATTT--TATATT-ATATTT
1 TATATTATATAAAATTTAATATATTAATAATT
*
768834 TAT-TTATATAAAATTTATTATATTAATAATT
1 TATATTATATAAAATTTAATATATTAATAATT
*
768865 TATATAATATAA
1 TATATTATATAA
768877 TATATTACCA
Statistics
Matches: 82, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
25 2 0.02
26 6 0.07
27 4 0.05
28 10 0.12
30 9 0.11
31 9 0.11
32 29 0.35
33 13 0.16
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TATATTATATAAAATTTAATATATTAATAATT
Found at i:768811 original size:14 final size:12
Alignment explanation
Indices: 768796--768842 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
768786 AATTTTAATA
768796 TATTTATATATTT
1 TATTT-TATATTT
*
768809 ATATTTTTTATTT
1 -TATTTTATATTT
*
768822 TATATTATATTT
1 TATTTTATATTT
768834 TA-TTTATAT
1 TATTTTATAT
768843 AAAATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 6 0.21
12 12 0.41
13 6 0.21
14 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:768822 original size:7 final size:7
Alignment explanation
Indices: 768773--768836 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
768763 ATGTTAATAA
768773 TTTATAT
1 TTTATAT
*
768780 TATATAAAT
1 T-T-TATAT
768789 TTTAATAT
1 TTT-ATAT
768797 ATTTATAT
1 -TTTATAT
768805 ATTTATAT
1 -TTTATAT
*
768813 TTTTTAT
1 TTTATAT
768820 TTTATA-
1 TTTATAT
768826 -TTATAT
1 TTTATAT
768832 TTTAT
1 TTTAT
768837 TTATATAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
7 17 0.36
8 17 0.36
9 8 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTATAT
Found at i:768841 original size:16 final size:16
Alignment explanation
Indices: 768772--768842 Score: 51
Period size: 16 Copynumber: 4.5 Consensus size: 16
768762 TATGTTAATA
**
768772 ATTTATATTATA-TAA
1 ATTTATATTATATTTT
*
768787 ATTT-TAATATATTTAT
1 ATTTATATTATATTT-T
*
768803 ATATT-TA-TATTTTTT
1 AT-TTATATTATATTTT
768818 ATTTTATATTATATTTT
1 A-TTTATATTATATTTT
768835 ATTTATAT
1 ATTTATAT
768843 AAAATTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.13
15 9 0.20
16 18 0.40
17 12 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATATTATATTTT
Found at i:768864 original size:16 final size:16
Alignment explanation
Indices: 768821--768867 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
768811 ATTTTTTATT
*
768821 TTATATT-ATATTTTA
1 TTATATTAATAATTTA
768836 TT-TATATAA-AATTTA
1 TTATAT-TAATAATTTA
768851 TTATATTAATAATTTA
1 TTATATTAATAATTTA
768867 T
1 T
768868 ATAATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 13 0.48
16 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTAATAATTTA
Found at i:769132 original size:20 final size:20
Alignment explanation
Indices: 769096--769145 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
769086 TTTTATTAAA
*
769096 TTTAAATTA-ATTTTTAACC
1 TTTAAATTATACTTTTAACC
* *
769115 TTTAATTTATACTTTTAACT
1 TTTAAATTATACTTTTAACC
769135 TTTAAATTATA
1 TTTAAATTATA
769146 TCTAAAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAATTATACTTTTAACC
Found at i:769331 original size:29 final size:29
Alignment explanation
Indices: 769299--769360 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
769289 TAAATTTAAA
*
769299 AAATTAAAATATAA-TATTTTTTTATAATT
1 AAATTAAAATAAAATTA-TTTTTTATAATT
* *
769328 AAATTTAAATAAAATTATTTTTTATTATT
1 AAATTAAAATAAAATTATTTTTTATAATT
769357 AAAT
1 AAAT
769361 AATAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATTAAAATAAAATTATTTTTTATAATT
Found at i:769585 original size:135 final size:138
Alignment explanation
Indices: 769428--769703 Score: 405
Period size: 141 Copynumber: 2.0 Consensus size: 138
769418 AGATAGGCCG
*
769428 GTTTAAACATAAATTAAACTTCATTTGAAGCAAGCGCTTATAAAA-T-AT-AAATATAAGGGTTT
1 GTTTAAACATAAATTAAACTTCATTTGAAGCAAGCGCTTATAAAAGTAATAAAATATAAGGATTT
* * *
769490 ATCTAGATAAAATAAAAGTATAGAAAGTTATCAAAATAAAGTAGTAAAATTCAAGGGCTTTTTAA
66 ATCTAGATAAAATAAAAATATAGAAAGTTATCAAAATAAAATAGTAAAATTCAAGGACTTTTTAA
769555 ATATTTTA
131 ATATTTTA
* *
769563 GTTTAAACATAAATTAACCTTCATTTGAAGCAAGGGCTTATAAAATGTAAATCAAAATATAAGGA
1 GTTTAAACATAAATTAAACTTCATTTGAAGCAAGCGCTTATAAAA-GT-AAT-AAAATATAAGGA
* * * * *
769628 TTTATTTGGATAAAATAAAAATATAGAGAGTTATCTAAATAAAATAGTAAAATTCAAGGATTTTT
63 TTTATCTAGATAAAATAAAAATATAGAAAGTTATCAAAATAAAATAGTAAAATTCAAGGACTTTT
769693 TAAATATTTTA
128 TAAATATTTTA
769704 ACTTAAAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
135 43 0.35
137 1 0.01
139 2 0.02
141 78 0.63
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (138 bp):
GTTTAAACATAAATTAAACTTCATTTGAAGCAAGCGCTTATAAAAGTAATAAAATATAAGGATTT
ATCTAGATAAAATAAAAATATAGAAAGTTATCAAAATAAAATAGTAAAATTCAAGGACTTTTTAA
ATATTTTA
Found at i:772465 original size:61 final size:61
Alignment explanation
Indices: 772339--772466 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 61
772329 TACTAGCCAT
* * * ** * *
772339 CAATTTGAATTAGAATTAGTATAGGTATATATACAAATTCATCAGTTGAATTATTAATTAA
1 CAATTTGAATTAGAATTAGTATAAGTACATATACAAATTCATCAATTGAACCATCAATCAA
*
772400 CAATTTGAATTA-ACATTAGTATAAGTACATATACAAATTCATCAATTGAACCATCAATCAC
1 CAATTTGAATTAGA-ATTAGTATAAGTACATATACAAATTCATCAATTGAACCATCAATCAA
772461 CAATTT
1 CAATTT
772467 AAAGTGAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (61 bp):
CAATTTGAATTAGAATTAGTATAAGTACATATACAAATTCATCAATTGAACCATCAATCAA
Found at i:772663 original size:61 final size:61
Alignment explanation
Indices: 772586--772712 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 61
772576 TTATTATAAC
* ** * * *
772586 TATATGTATAAATTTAACTATTGGACTACTAGTTACTAATATAAAATGGAATTAGTGTAAT
1 TATATGTATAAATTTAACAATCAGACTACTAATTACCAATATAAAATGAAATTAGTGTAAT
** * *
772647 TATATGTATAAATTTAACAATCAGACTGTTAATTACCAATTTAAACTGAAATTAGTGTAAT
1 TATATGTATAAATTTAACAATCAGACTACTAATTACCAATATAAAATGAAATTAGTGTAAT
772708 TATAT
1 TATAT
772713 AATAAAAATC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (61 bp):
TATATGTATAAATTTAACAATCAGACTACTAATTACCAATATAAAATGAAATTAGTGTAAT
Found at i:772843 original size:61 final size:61
Alignment explanation
Indices: 772695--772843 Score: 158
Period size: 61 Copynumber: 2.4 Consensus size: 61
772685 ATTTAAACTG
* * * * * * *
772695 AAATTAGTGTAATTATATAATAAAAA-TCATTAATTAGATTATTTATCATTAATTTGAATTA
1 AAATTAGTGTAATTACAT-ATAAAAATTCATCAATTAGATTACTAATCACTAATTTCAAATA
* * *
772756 AAATTAATATAATTACATATACAAATTCATCAATTA-ATTTACTAATCACTAATTTCAAATA
1 AAATTAGTGTAATTACATATAAAAATTCATCAATTAGA-TTACTAATCACTAATTTCAAATA
* *
772817 GAATTAGTGTAACTACATATAAAAATT
1 AAATTAGTGTAATTACATATAAAAATT
772844 TATCGATTGA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
60 7 0.10
61 64 0.90
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.40
Consensus pattern (61 bp):
AAATTAGTGTAATTACATATAAAAATTCATCAATTAGATTACTAATCACTAATTTCAAATA
Found at i:773621 original size:22 final size:21
Alignment explanation
Indices: 773596--773637 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
773586 TATTAAAAAA
773596 ATAT-TTTTATAA-TAATATTT
1 ATATATTTTATAATTAA-ATTT
773616 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
773637 A
1 A
773638 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:774381 original size:19 final size:19
Alignment explanation
Indices: 774320--774386 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
774310 ATTAGTAAAG
*
774320 TAAAATTATAACTATTATTA
1 TAAAA-TATAAATATTATTA
* * *
774340 TAATATATAATTA-CATTA
1 TAAAATATAAATATTATTA
*
774358 TAAAATATAAATATTATAA
1 TAAAATATAAATATTATTA
*
774377 TAAAAAATAA
1 TAAAATATAA
774387 TTCGAGCCAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
18 15 0.39
19 19 0.50
20 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATATAAATATTATTA
Found at i:776333 original size:16 final size:16
Alignment explanation
Indices: 776308--776338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
776298 TGGATGAATT
776308 GGGGGAGGGGGAGGGG
1 GGGGGAGGGGGAGGGG
*
776324 GGGGGGGGGGGAGGG
1 GGGGGAGGGGGAGGG
776339 ATTTGCAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.90, T:0.00
Consensus pattern (16 bp):
GGGGGAGGGGGAGGGG
Found at i:776747 original size:16 final size:16
Alignment explanation
Indices: 776712--776758 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
776702 ATATGCATTA
* *
776712 TTATATTATAGTTTTGT
1 TTATATTAT-TTTTTAT
776729 TTAATATT-TTTTTTAT
1 TT-ATATTATTTTTTAT
776745 TTATATTATTTTTT
1 TTATATTATTTTTT
776759 TACGTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 13 0.50
17 3 0.12
18 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (16 bp):
TTATATTATTTTTTAT
Found at i:778765 original size:73 final size:74
Alignment explanation
Indices: 778688--778827 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 74
778678 ATTTATTATC
* * * *
778688 AATTCATTTAACCAAAGTCTTAAAATAGAACT-AGAATTTTTATTTATAAATGTGATCAATTTTA
1 AATTCATTTAACCAAAGACTTAAAATAAAACTAAAAATTTTTATTTATAAATGTGATAAATTTTA
778752 TTGTTAAAA
66 TTGTTAAAA
* ** *
778761 AATTCATTTCACCAAAGACTTTCAATAAAATTAAAAATTTTTATTTATAAATGTGATAAATTTTA
1 AATTCATTTAACCAAAGACTTAAAATAAAACTAAAAATTTTTATTTATAAATGTGATAAATTTTA
778826 TT
66 TT
778828 AATAACAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 26 0.45
74 32 0.55
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (74 bp):
AATTCATTTAACCAAAGACTTAAAATAAAACTAAAAATTTTTATTTATAAATGTGATAAATTTTA
TTGTTAAAA
Found at i:779260 original size:18 final size:18
Alignment explanation
Indices: 779237--779284 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
779227 CATATAATTT
* *
779237 TTAATATATATGTATATA
1 TTAATATATAAGTACATA
779255 TTAATATATAAGTACATA
1 TTAATATATAAGTACATA
779273 TTAATATGATAA
1 TTAATAT-ATAA
779285 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (18 bp):
TTAATATATAAGTACATA
Found at i:779828 original size:2 final size:2
Alignment explanation
Indices: 779821--779867 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
779811 TTTTTGCATG
779821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
779863 AT AT A
1 AT AT A
779868 GAGAGAGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:779872 original size:2 final size:2
Alignment explanation
Indices: 779867--779905 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
779857 ATATATATAT
779867 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
779906 TACATTGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:780804 original size:17 final size:17
Alignment explanation
Indices: 780782--780818 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
780772 TATTAAAAAT
780782 TATATAATTTAATTAAA
1 TATATAATTTAATTAAA
* *
780799 TATATATTTTTATTAAA
1 TATATAATTTAATTAAA
780816 TAT
1 TAT
780819 TTATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATAATTTAATTAAA
Found at i:780807 original size:16 final size:16
Alignment explanation
Indices: 780782--780841 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
780772 TATTAAAAAT
780782 TATATAATTTAATTAAA
1 TATAT-ATTTAATTAAA
*
780799 TATATATTTTTATTAAA
1 TATATA-TTTAATTAAA
* *
780816 TATTTA-TTATATTTAA
1 TATATATTTA-ATTAAA
*
780832 TATTTATTTA
1 TATATATTTA
780842 CTACTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 2 0.06
16 12 0.33
17 22 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATATTTAATTAAA
Found at i:780823 original size:17 final size:17
Alignment explanation
Indices: 780788--780841 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 17
780778 AAATTATATA
*
780788 ATTTA-ATTAAATATAT
1 ATTTATATTAAATATTT
*
780804 ATTTTTATTAAATATTT
1 ATTTATATTAAATATTT
*
780821 A-TTATATTTAATATTT
1 ATTTATATTAAATATTT
780837 ATTTA
1 ATTTA
780842 CTACTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 18 0.56
17 14 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTATATTAAATATTT
Found at i:781227 original size:79 final size:79
Alignment explanation
Indices: 781091--781250 Score: 284
Period size: 79 Copynumber: 2.0 Consensus size: 79
781081 ACTGTATTTT
*
781091 AAATATTTTTATATCATATTTCTGTTTTTTAATCTTGTCGTATCCAAAATTTCAATATCTAATTT
1 AAATATTTTTATATCATATTTCTATTTTTTAATCTTGTCGTATCCAAAATTTCAATATCTAATTT
781156 TTATTTTCTATTAC
66 TTATTTTCTATTAC
* * *
781170 AAATATTTTTATATCATATTTTTATTTTTTAATTTTGTCGTATCCAAAATTTTAATATCTAATTT
1 AAATATTTTTATATCATATTTCTATTTTTTAATCTTGTCGTATCCAAAATTTCAATATCTAATTT
781235 TTATTTTCTATTAC
66 TTATTTTCTATTAC
781249 AA
1 AA
781251 GTAAGATAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (79 bp):
AAATATTTTTATATCATATTTCTATTTTTTAATCTTGTCGTATCCAAAATTTCAATATCTAATTT
TTATTTTCTATTAC
Found at i:781495 original size:10 final size:10
Alignment explanation
Indices: 781480--781511 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
781470 TATTAAATCG
781480 ATTTGATCAA
1 ATTTGATCAA
781490 ATTTGATCAA
1 ATTTGATCAA
781500 A-TTGATCAA
1 ATTTGATCAA
781509 ATT
1 ATT
781512 AAATAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (10 bp):
ATTTGATCAA
Found at i:781506 original size:9 final size:9
Alignment explanation
Indices: 781482--781511 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
781472 TTAAATCGAT
781482 TTGATCAAA
1 TTGATCAAA
781491 TTTGATCAAA
1 -TTGATCAAA
781501 TTGATCAAA
1 TTGATCAAA
781510 TT
1 TT
781512 AAATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (9 bp):
TTGATCAAA
Found at i:785222 original size:11 final size:11
Alignment explanation
Indices: 785208--785246 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
785198 CCATTAATCC
785208 TTTTTTAATTA
1 TTTTTTAATTA
*
785219 TTTTTTATTTA
1 TTTTTTAATTA
*
785230 TTTTAATAATTA
1 TTTT-TTAATTA
785242 TTTTT
1 TTTTT
785247 ATATAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:785658 original size:20 final size:20
Alignment explanation
Indices: 785639--785727 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 20
785629 ATATCATATA
785639 AAAATA-ATAAATATATTAT
1 AAAATATATAAATATATTAT
785658 AAAATATATAAATATA-T-T
1 AAAATATATAAATATATTAT
* *
785676 AAAATTTATATAATTTAATT-T
1 AAAATATATA-AATAT-ATTAT
*
785697 ATTAATATATAAAATATATT-T
1 A-AAATATAT-AAATATATTAT
785718 -AAATATATAA
1 AAAATATATAA
785728 TACTTCAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.21
19 18 0.31
20 10 0.17
21 7 0.12
22 10 0.17
23 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATATATAAATATATTAT
Found at i:785684 original size:27 final size:27
Alignment explanation
Indices: 785634--785725 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
785624 CAATAATATC
* *
785634 ATATAAAAATAATAAATATATTATAAAAT
1 ATATAAATATATTAAA-AT-TTATAAAAT
*
785663 ATATAAATATATTAAAATTTATATAAT
1 ATATAAATATATTAAAATTTATAAAAT
* *
785690 -T-T-AATTTATT--AATATATAAAAT
1 ATATAAATATATTAAAATTTATAAAAT
785712 ATATTTAAATATAT
1 ATA--TAAATATAT
785726 AATACTTCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
22 10 0.20
23 1 0.02
24 7 0.14
25 1 0.02
26 2 0.04
27 14 0.27
28 2 0.04
29 14 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATAAATATATTAAAATTTATAAAAT
Found at i:788500 original size:33 final size:33
Alignment explanation
Indices: 788458--788524 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
788448 CTAAGTGAGA
788458 TGCAAAATATTCCTTTCTTCAATGGATTTTGAT
1 TGCAAAATATTCCTTTCTTCAATGGATTTTGAT
788491 TGCAAAATATTCCTTTCTTCAATGGATTTTGAT
1 TGCAAAATATTCCTTTCTTCAATGGATTTTGAT
788524 T
1 T
788525 CTTACTTCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (33 bp):
TGCAAAATATTCCTTTCTTCAATGGATTTTGAT
Found at i:788914 original size:29 final size:29
Alignment explanation
Indices: 788872--788930 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
788862 TATAAAGATA
788872 TGAACCTTATGATTTCAAATACATATTTG
1 TGAACCTTATGATTTCAAATACATATTTG
788901 TGAACCTTATGATTTCAAATACATATTTG
1 TGAACCTTATGATTTCAAATACATATTTG
788930 T
1 T
788931 ATTGGACACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (29 bp):
TGAACCTTATGATTTCAAATACATATTTG
Found at i:789979 original size:16 final size:17
Alignment explanation
Indices: 789951--789982 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
789941 ATAAGGATTA
789951 TTAGATAAAAAATAAAT
1 TTAGATAAAAAATAAAT
789968 TTAGAT-AAAAATAAA
1 TTAGATAAAAAATAAA
789983 GTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
TTAGATAAAAAATAAAT
Found at i:791131 original size:3 final size:3
Alignment explanation
Indices: 791125--791158 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
791115 ACTTAAACTC
791125 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
791159 TGAATTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:933037 original size:3 final size:3
Alignment explanation
Indices: 933029--933062 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
933019 TCCCCCAACC
933029 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
933063 ATCTTTGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:933777 original size:12 final size:14
Alignment explanation
Indices: 933767--933945 Score: 59
Period size: 14 Copynumber: 12.6 Consensus size: 14
933757 TTGATAATTT
933767 TAAATATAATTATA
1 TAAATATAATTATA
*
933781 TAAATATAA-TAAA
1 TAAATATAATTATA
* * *
933794 TATATAAAATAATA
1 TAAATATAATTATA
* *
933808 AAAATAAAATATGATA
1 TAAATATAAT-T-ATA
*
933824 TAGATATATATT-TA
1 TAAATATA-ATTATA
* * * *
933838 AAAATTTTATAATA
1 TAAATATAATTATA
933852 TAAATTATAATTATA
1 TAAA-TATAATTATA
*
933867 TTAAA-AT--TCATA
1 -TAAATATAATTATA
* *
933879 TAAATATAAAATATT
1 TAAATAT-AATTATA
*
933894 TCAAATATGATTATA
1 T-AAATATAATTATA
* *
933909 -ATATTATAAAATATA
1 TA-AATAT-AATTATA
933924 TAAATATAA-TATA
1 TAAATATAATTATA
933937 -AATATATAA
1 TAA-ATATAA
933946 ATTACGAAAT
Statistics
Matches: 118, Mismatches: 31, Indels: 33
0.65 0.17 0.18
Matches are distributed among these distances:
11 4 0.03
12 8 0.07
13 23 0.19
14 38 0.32
15 23 0.19
16 20 0.17
17 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:933783 original size:8 final size:8
Alignment explanation
Indices: 933770--933947 Score: 71
Period size: 8 Copynumber: 21.0 Consensus size: 8
933760 ATAATTTTAA
*
933770 ATATAATT
1 ATATAAAT
933778 ATATAAAT
1 ATATAAAT
933786 ATAATAAAT
1 AT-ATAAAT
933795 ATATAAA-
1 ATATAAAT
*
933802 ATAATAAAA
1 AT-ATAAAT
933811 ATA-AAAT
1 ATATAAAT
* *
933818 ATGATATAG
1 AT-ATAAAT
*
933827 ATATATAT
1 ATATAAAT
* *
933835 TTAAAAAT
1 ATATAAAT
* *
933843 -TTTATA-
1 ATATAAAT
933849 ATATAAAT
1 ATATAAAT
*
933857 -TATAATT
1 ATATAAAT
933864 ATATTAAAATT
1 ATA-T-AAA-T
933875 CATATAAAT
1 -ATATAAAT
933884 ATA-AAAT
1 ATATAAAT
*
933891 ATTTCAAAT
1 ATAT-AAAT
933900 ATGATTATAAT
1 AT-A-TA-AAT
933911 ATTATAAAAT
1 A-TAT-AAAT
933921 ATATAAATAT
1 ATAT-AA-AT
933931 AATATAAAT
1 -ATATAAAT
933940 ATATAAAT
1 ATATAAAT
933948 TACGAAATCA
Statistics
Matches: 132, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
7 26 0.20
8 44 0.33
9 30 0.23
10 15 0.11
11 13 0.10
12 4 0.03
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:934430 original size:2 final size:2
Alignment explanation
Indices: 934417--934450 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
934407 CAGACTCTAA
*
934417 AT AT AC 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
934451 TTGAAGGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:934683 original size:16 final size:16
Alignment explanation
Indices: 934662--934750 Score: 85
Period size: 16 Copynumber: 5.7 Consensus size: 16
934652 AATTTTAATT
934662 AATTAATTTAAATTTA
1 AATTAATTTAAATTTA
*
934678 AATTAAATTAAATTT-
1 AATTAATTTAAATTTA
* *
934693 AATTTATTTTAA-TTA
1 AATTAATTTAAATTTA
* *
934708 AA-AAATTAATAATTTA
1 AATTAATTTA-AATTTA
*
934724 AAATAATTTAAATTTA
1 AATTAATTTAAATTTA
*
934740 AAATAATTTAA
1 AATTAATTTAA
934751 GTCTAAAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
14 5 0.08
15 13 0.22
16 36 0.61
17 5 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAATTTAAATTTA
Found at i:934686 original size:31 final size:30
Alignment explanation
Indices: 934650--934748 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 30
934640 AGTTTATTTG
934650 AAAATTTTAA-TTAATTAATTTAAATTTAA
1 AAAATTTTAATTTAATTAATTTAAATTTAA
* * *
934679 ATTAAA-TTAAATTTAATTTATTTTAA-TTAA
1 A--AAATTTTAATTTAATTAATTTAAATTTAA
* *
934709 AAAATTAATAATTTAAAATAATTTAAATTTAA
1 AAAATT-TTAATTT-AATTAATTTAAATTTAA
934741 AATAATTT
1 AA-AATTT
934749 AAGTCTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 14 0.26
31 24 0.45
32 6 0.11
33 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATTTTAATTTAATTAATTTAAATTTAA
Found at i:934889 original size:16 final size:17
Alignment explanation
Indices: 934852--934889 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
934842 ACCAATTAAC
934852 TCAAATTTAAAATAAAT
1 TCAAATTTAAAATAAAT
934869 T-AAATTTAAAAT-AAT
1 TCAAATTTAAAATAAAT
934884 TCAAAT
1 TCAAAT
934890 ATGATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 15 0.75
17 1 0.05
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
TCAAATTTAAAATAAAT
Found at i:934927 original size:7 final size:7
Alignment explanation
Indices: 934917--934991 Score: 82
Period size: 7 Copynumber: 10.3 Consensus size: 7
934907 TAACTTAATT
934917 AATTTAA
1 AATTTAA
934924 AA-TTAA
1 AATTTAA
*
934930 AATAATTTA
1 AAT--TTAA
934939 AATTT-A
1 AATTTAA
934945 AATTTAA
1 AATTTAA
934952 AATTTAA
1 AATTTAA
934959 AATTTAA
1 AATTTAA
934966 AATTTAAA
1 AATTT-AA
934974 TAATTTAAA
1 -AATTT-AA
934983 AATTTAA
1 AATTTAA
934990 AA
1 AA
934992 AACAAAATCA
Statistics
Matches: 61, Mismatches: 1, Indels: 12
0.82 0.01 0.16
Matches are distributed among these distances:
6 12 0.20
7 28 0.46
8 7 0.11
9 14 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AATTTAA
Found at i:936927 original size:18 final size:18
Alignment explanation
Indices: 936896--936954 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 18
936886 TTAAAGTATT
936896 ATATATTTATATAAATTTTA
1 ATATA-TTA-ATAAATTTTA
*
936916 ATATATTAATAAATTAT-
1 ATATATTAATAAATTTTA
936933 AT-TA-T-ATAAATTTTA
1 ATATATTAATAAATTTTA
*
936948 ACATATT
1 ATATATT
936955 CATATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 4 0.12
17 3 0.09
18 8 0.24
19 3 0.09
20 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATATTAATAAATTTTA
Found at i:936942 original size:32 final size:33
Alignment explanation
Indices: 936897--936963 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
936887 TAAAGTATTA
*
936897 TATATTTATATAAATTTTAATATATTAATAAAT
1 TATATTTATATAAATTTTAACATATTAATAAAT
* *
936930 TATA-TTATATAAATTTTAACATATTCATATAT
1 TATATTTATATAAATTTTAACATATTAATAAAT
936962 TA
1 TA
936964 ATATCGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 27 0.87
33 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (33 bp):
TATATTTATATAAATTTTAACATATTAATAAAT
Found at i:937023 original size:9 final size:11
Alignment explanation
Indices: 936997--937025 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
936987 TTATCATGTC
936997 ATATTTTAATT
1 ATATTTTAATT
937008 ATATTTTAATT
1 ATATTTTAATT
937019 AT-TTTTA
1 ATATTTTA
937026 TGTCATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATTTTAATT
Found at i:938961 original size:2 final size:2
Alignment explanation
Indices: 938954--939004 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
938944 CACTTATCTT
938954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
938996 TA TA TA TA T
1 TA TA TA TA T
939005 CACTTTAACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:939701 original size:15 final size:15
Alignment explanation
Indices: 939673--939711 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
939663 CCTCTATTCG
939673 TTAAGTTTAATAAGT
1 TTAAGTTTAATAAGT
939688 TTAA-TTTAATTAAG-
1 TTAAGTTTAA-TAAGT
939702 TTAAGTTTAA
1 TTAAGTTTAA
939712 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (15 bp):
TTAAGTTTAATAAGT
Found at i:942328 original size:3 final size:3
Alignment explanation
Indices: 942320--942351 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
942310 ATTGCACGAA
942320 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
942352 AGAAAGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:944182 original size:2 final size:2
Alignment explanation
Indices: 944177--944213 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
944167 TTCTTAAATC
944177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
944214 GCATTGTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:945301 original size:25 final size:22
Alignment explanation
Indices: 945251--945301 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
945241 TTCAATAAAT
945251 TTAATAAAAATAAATTTTTTAA
1 TTAATAAAAATAAATTTTTTAA
*
945273 --AATAATAATTAAATAATTTTTAA
1 TTAATAA-AAATAAAT--TTTTTAA
945296 TTAATA
1 TTAATA
945302 CTTATGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
23 7 0.30
25 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATAAAAATAAATTTTTTAA
Found at i:945336 original size:2 final size:2
Alignment explanation
Indices: 945329--945359 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
945319 ATCTTACTTT
945329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
945360 GATGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:950461 original size:33 final size:34
Alignment explanation
Indices: 950419--950488 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
950409 AGGTAAAATA
950419 ATAA-TTTTTTTTATCAATTCATAGAAGTTAATT
1 ATAATTTTTTTTTATCAATTCATAGAAGTTAATT
950452 ATAATTTTTTTTTATCAATTCATAGAAGTTAATT
1 ATAATTTTTTTTTATCAATTCATAGAAGTTAATT
950486 ATA
1 ATA
950489 TGAGACAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (34 bp):
ATAATTTTTTTTTATCAATTCATAGAAGTTAATT
Found at i:950791 original size:2 final size:2
Alignment explanation
Indices: 950784--950817 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
950774 ACTTGTGCTA
950784 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
950818 GAAATTTATA
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:951790 original size:22 final size:22
Alignment explanation
Indices: 951759--951800 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
951749 TACGGCAAAT
*
951759 ATAATAATTTAACTTTTAAATCA
1 ATAATAATTTAA-ATTTAAATCA
951782 ATAA-AATTTAAATTTAAAT
1 ATAATAATTTAAATTTAAAT
951801 TAAATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATAATTTAAATTTAAATCA
Found at i:952319 original size:8 final size:8
Alignment explanation
Indices: 952293--952412 Score: 56
Period size: 8 Copynumber: 14.9 Consensus size: 8
952283 ACATGATAAA
952293 AAATATAT
1 AAATATAT
*
952301 TAATGATAT
1 AAAT-ATAT
952310 AAATATAT
1 AAATATAT
952318 AAATATATT
1 AAATATA-T
952327 AAA-AT-T
1 AAATATAT
*
952333 TAATA-A-
1 AAATATAT
952339 AAATATCA-
1 AAATAT-AT
*
952347 AAATTTATAA
1 AAA--TATAT
*
952357 AAATAAAT
1 AAATATAT
952365 AAATAT-T
1 AAATATAT
952372 AAATATAATT
1 AAATAT-A-T
*
952382 ATAATATAA
1 A-AATATAT
952391 AAATATAT
1 AAATATAT
**
952399 TTA-ATAT
1 AAATATAT
952406 AAATATA
1 AAATATA
952413 ATATAAACAA
Statistics
Matches: 85, Mismatches: 13, Indels: 28
0.67 0.10 0.22
Matches are distributed among these distances:
6 7 0.08
7 13 0.15
8 38 0.45
9 13 0.15
10 9 0.11
11 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
AAATATAT
Found at i:952329 original size:17 final size:17
Alignment explanation
Indices: 952293--952406 Score: 70
Period size: 17 Copynumber: 6.4 Consensus size: 17
952283 ACATGATAAA
*
952293 AAATATATTAATGATA-T
1 AAATATATAAAT-ATATT
952310 AAATATATAAATATATT
1 AAATATATAAATATATT
* * *
952327 AAAATTTAATAAAAATATCA
1 -AAATAT-ATAAATATAT-T
* * *
952347 AAATTTATAAAAATAAAT
1 AAATATATAAATAT-ATT
952365 AAATAT-TAAATATAATT
1 AAATATATAAATAT-ATT
*
952382 ATAATATAAAAATATATT
1 A-AATATATAAATATATT
*
952400 TAATATA
1 AAATATA
952407 AATATAATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.04
17 28 0.35
18 26 0.33
19 22 0.28
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (17 bp):
AAATATATAAATATATT
Found at i:952344 original size:19 final size:18
Alignment explanation
Indices: 952310--952361 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
952300 TTAATGATAT
* * *
952310 AAATATATAAATATATTA
1 AAATTTATAAAAATATCA
952328 AAATTTAATAAAAATATCA
1 AAATTT-ATAAAAATATCA
952347 AAATTTATAAAAATA
1 AAATTTATAAAAATA
952362 AATAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTTATAAAAATATCA
Found at i:952390 original size:28 final size:27
Alignment explanation
Indices: 952308--952425 Score: 89
Period size: 28 Copynumber: 4.3 Consensus size: 27
952298 TATTAATGAT
* *
952308 ATAAATATATAAATATATTAAAATTTAA
1 ATAAATAT-TAAATATATTATAATATAA
* * *
952336 TAAAAATATCAAA-AT-TTATAAAAATAA
1 -ATAAATATTAAATATATTAT-AATATAA
952363 ATAAATATTAAATATAATTATAATATAA
1 ATAAATATTAAATAT-ATTATAATATAA
* *
952391 A-AATATATTTAATATAAATATAATATAA
1 ATAA-ATATTAAATAT-ATTATAATATAA
*
952419 ACAAATA
1 ATAAATA
952426 AATATTTTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
26 13 0.18
27 11 0.15
28 36 0.49
29 13 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAAATATTAAATATATTATAATATAA
Found at i:952391 original size:34 final size:33
Alignment explanation
Indices: 952352--952418 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
952342 TATCAAAATT
952352 TATAAAAATA-AATAAATATTAAATATAATTATAA
1 TATAAAAATATAATAAATA-TAAATATAA-TATAA
* *
952386 TATAAAAATATATTTAATATAAATATAATATAA
1 TATAAAAATATAATAAATATAAATATAATATAA
952419 ACAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 19 0.63
35 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (33 bp):
TATAAAAATATAATAAATATAAATATAATATAA
Found at i:952419 original size:11 final size:11
Alignment explanation
Indices: 952314--952419 Score: 58
Period size: 11 Copynumber: 9.6 Consensus size: 11
952304 TGATATAAAT
952314 ATATAAATATA
1 ATATAAATATA
* *
952325 TTA-AAATTTA
1 ATATAAATATA
*
952335 ATAAAAATATCA
1 ATATAAATAT-A
* **
952347 AAATTTATA-A
1 ATATAAATATA
*
952357 AAATAAATA-A
1 ATATAAATATA
952367 ATATTAAATATA
1 ATA-TAAATATA
952379 AT-TATAATATAA
1 ATATA-AATAT-A
* * *
952391 AAATATATTTA
1 ATATAAATATA
952402 ATATAAATATA
1 ATATAAATATA
952413 ATATAAA
1 ATATAAA
952420 CAAATAAATA
Statistics
Matches: 71, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
10 21 0.30
11 34 0.48
12 14 0.20
13 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATAAATATA
Found at i:952429 original size:34 final size:34
Alignment explanation
Indices: 952366--952445 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
952356 AAAATAAATA
*
952366 AATATTAAATATAATTATAATATAAAAATATATTT
1 AATA-TAAATATAATTATAATAAAAAAATATATTT
*
952401 AATATAAATATAA-TATAA-ACAAATAAATATTTTT
1 AATATAAATATAATTATAATA-AAA-AAATATATTT
952435 AA-ATAAA-ATAA
1 AATATAAATATAA
952446 AAAGATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 5 0.12
33 12 0.29
34 20 0.49
35 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AATATAAATATAATTATAATAAAAAAATATATTT
Found at i:952838 original size:10 final size:11
Alignment explanation
Indices: 952813--952837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
952803 TCCTTTATGG
952813 AAAAGAAAAAA
1 AAAAGAAAAAA
952824 AAAAGAAAAAA
1 AAAAGAAAAAA
952835 AAA
1 AAA
952838 GTCTCCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:953408 original size:24 final size:26
Alignment explanation
Indices: 953381--953434 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
953371 TTTGATAGGA
*
953381 TTTAGAATTC-AAAATTAT-CAAACT
1 TTTAGAATTCTAAAAATATGCAAACT
* *
953405 TTTA-ATTTCTAAAAATATGTAAACT
1 TTTAGAATTCTAAAAATATGCAAACT
953430 TTTAG
1 TTTAG
953435 TATGGGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (26 bp):
TTTAGAATTCTAAAAATATGCAAACT
Found at i:953961 original size:55 final size:55
Alignment explanation
Indices: 953895--954006 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
953885 GGGATGATGG
*
953895 ATTTAGATATCTAAATCTATTATCGATAAAAATAATATGAATTTAAATAACAGAT
1 ATTTAGATATCTAAATCTATTATCGATAAAAATAATATAAATTTAAATAACAGAT
* * *
953950 ATTTAGATATCTAAATCTATTATCTATAAAAATAATATAAATTTAAATTATAGAT
1 ATTTAGATATCTAAATCTATTATCGATAAAAATAATATAAATTTAAATAACAGAT
954005 AT
1 AT
954007 CAAAAGTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.39
Consensus pattern (55 bp):
ATTTAGATATCTAAATCTATTATCGATAAAAATAATATAAATTTAAATAACAGAT
Found at i:954697 original size:15 final size:16
Alignment explanation
Indices: 954670--954701 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
954660 AAATCTTAAA
954670 AAATAATTTAAATTTT
1 AAATAATTTAAATTTT
954686 AAATAA-TTAAATTTT
1 AAATAATTTAAATTTT
954701 A
1 A
954702 TATTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATAATTTAAATTTT
Found at i:954907 original size:23 final size:23
Alignment explanation
Indices: 954877--954935 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
954867 ATCTAATAAA
954877 TATAATTTAATAAATAAAAAAT-T
1 TATAATTTAATAAA-AAAAAATAT
**
954900 TATAATTTATATAAAAATTAATAT
1 TATAATTTA-ATAAAAAAAAATAT
954924 TA-AATTTAATAA
1 TATAATTTAATAA
954936 CTCAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 4 0.12
23 20 0.62
24 8 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATAATTTAATAAAAAAAAATAT
Found at i:954961 original size:19 final size:18
Alignment explanation
Indices: 954939--954974 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
954929 TTAATAACTC
*
954939 AAAATATAAATTATAAATG
1 AAAATAAAAATT-TAAATG
954958 AAAATAAAAATTTAAAT
1 AAAATAAAAATTTAAAT
954975 TAATATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATAAAAATTTAAATG
Found at i:955113 original size:231 final size:235
Alignment explanation
Indices: 954781--955254 Score: 703
Period size: 231 Copynumber: 2.0 Consensus size: 235
954771 TAAAAAAGTT
*
954781 ATTT-AACGTAATTTTATTAAATAATTTTAATAAAAAAAATTAATTCAATATGTATATATGATTT
1 ATTTAAACGTAATTTTATTAAATAATTTTAAT-AAAAAAATTAATTCAATA-GTATATATAATTT
954845 ATTTTTATATCATCAAAATAATATCTAATAAATATAATTTAAT-AAATAAAAAATTTATAATTTA
64 ATTTTTATATCATCAAAATAATATCTAATAAATATAATTTAATAAAATAAAAAA-TTATAATTTA
* *
954909 TATAAAAATTAATATTAAATTTAATAACTCAAAATATAAATTA-T-AAATGAAAATAAAAATTTA
128 TATAAAAATTAATATTAAATTTAATAACTCAAAATATAAATTATTCAAATAAAAATAAAAATATA
* * *
954972 AATTAATATTAATAATAAAACTAATTAAAAACGTAAACATTCA
193 AATTAATATTAATAATAAAAATAATTAAAAACCTAAACACTCA
*
955015 ATTTAAACGTAATTTTGTTAAATAATTTTAAT-AAAAAATTAATT-AA-A-TATATATAATTTAT
1 ATTTAAACGTAATTTTATTAAATAATTTTAATAAAAAAATTAATTCAATAGTATATATAATTTAT
*
955076 TTTTATATTTTATCAAAATAATATCTAATAAATATAATTTAATAAAATAAAAAATTATAATTTAT
66 TTTTATA--TCATCAAAATAATATCTAATAAATATAATTTAATAAAATAAAAAATTATAATTTAT
* ** *
955141 ATAAAAATTAATATTAAATTTAATAACTTAAAATATAAATTATTCGTTATAAAAATGAAAATATA
129 ATAAAAATTAATATTAAATTTAATAACTCAAAATATAAATTATTC-AAATAAAAATAAAAATATA
* **
955206 AATTAATATTAATTATAAAAATAATTAAAGGCCTAAACACTCA
193 AATTAATATTAATAATAAAAATAATTAAAAACCTAAACACTCA
955249 ATTTAA
1 ATTTAA
955255 TCCAAGGGCG
Statistics
Matches: 218, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
229 20 0.09
231 86 0.39
232 13 0.06
233 12 0.06
234 61 0.28
235 26 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (235 bp):
ATTTAAACGTAATTTTATTAAATAATTTTAATAAAAAAATTAATTCAATAGTATATATAATTTAT
TTTTATATCATCAAAATAATATCTAATAAATATAATTTAATAAAATAAAAAATTATAATTTATAT
AAAAATTAATATTAAATTTAATAACTCAAAATATAAATTATTCAAATAAAAATAAAAATATAAAT
TAATATTAATAATAAAAATAATTAAAAACCTAAACACTCA
Found at i:962002 original size:24 final size:21
Alignment explanation
Indices: 961975--962031 Score: 51
Period size: 24 Copynumber: 2.5 Consensus size: 21
961965 TTATATTTAA
961975 TTTAAATTTATCTGAAATATAAGT
1 TTTAAATTTAT-TGAAATAT-A-T
* *
961999 TTTATATTTTATTTAAATATAT
1 TTTA-AATTTATTGAAATATAT
*
962021 TTTATATTTAT
1 TTTAAATTTAT
962032 AAATAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 5 0.18
22 5 0.18
23 1 0.04
24 11 0.39
25 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAAATTTATTGAAATATAT
Found at i:962213 original size:29 final size:28
Alignment explanation
Indices: 962181--962253 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
962171 ATTTATTCTT
962181 TATATAATATAAATTA-TATATAATTTAAA
1 TATATAA-ATAAATTATTATATAA-TTAAA
* *
962210 TATAAAAATAAAATATTATATAATTAAA
1 TATATAAATAAATTATTATATAATTAAA
*
962238 -AAATAAATAAA-TATTA
1 TATATAAATAAATTATTA
962254 AAGTCAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 5 0.13
27 9 0.23
28 12 0.31
29 13 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
TATATAAATAAATTATTATATAATTAAA
Found at i:962225 original size:24 final size:23
Alignment explanation
Indices: 962198--962251 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
962188 TATAAATTAT
*
962198 ATATAATTTAAATATAAAAATAAA
1 ATATAATATAAATA-AAAAATAAA
* *
962222 ATATTATATAATTAAAAAAT-AA
1 ATATAATATAAATAAAAAATAAA
962244 ATA-AATAT
1 ATATAATAT
962252 TAAAGTCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 6 0.23
24 11 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAATATAAATAAAAAATAAA
Found at i:962237 original size:16 final size:15
Alignment explanation
Indices: 962181--962238 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
962171 ATTTATTCTT
*
962181 TATATAATATAAATTA
1 TATATAAT-TAAAATA
*
962197 TATATAATTTAAATA
1 TATATAATTAAAATA
*
962212 TA-A-AAATAAAATA
1 TATATAATTAAAATA
962225 TTATATAATTAAAA
1 -TATATAATTAAAA
962239 AATAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 8 0.24
14 3 0.09
15 8 0.24
16 15 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TATATAATTAAAATA
Found at i:962855 original size:21 final size:22
Alignment explanation
Indices: 962807--962855 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
962797 TTTCAACTAC
962807 TTAATTTTTTAATATATTAAAT
1 TTAATTTTTTAATATATTAAAT
* *
962829 AT-ATTTTTTATTAT-TTAAAT
1 TTAATTTTTTAATATATTAAAT
962849 TTAATTT
1 TTAATTT
962856 AACTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTAATTTTTTAATATATTAAAT
Found at i:967117 original size:18 final size:18
Alignment explanation
Indices: 967085--967130 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
967075 TATACTAAGG
*
967085 TTAAAACCGAAAACGATTC
1 TTAAAACC-AAAACGATCC
*
967104 TTAGAACCAAAACGATCC
1 TTAAAACCAAAACGATCC
967122 TTAAAACCA
1 TTAAAACCA
967131 GCTCAAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.20
Consensus pattern (18 bp):
TTAAAACCAAAACGATCC
Found at i:967949 original size:14 final size:13
Alignment explanation
Indices: 967930--967967 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
967920 AAAGCTTTCA
967930 CTCTTTTATTTTTT
1 CTCTTTT-TTTTTT
967944 CTC-TTTTTTTTT
1 CTCTTTTTTTTTT
967956 C-CTTTTTTTTTT
1 CTCTTTTTTTTTT
967968 TATTGAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 16 0.70
13 3 0.13
14 3 0.13
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
CTCTTTTTTTTTT
Found at i:968031 original size:28 final size:28
Alignment explanation
Indices: 967975--968034 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
967965 TTTTATTGAG
*
967975 AGGAGAAATATGAAAAATATGAGCTAAT
1 AGGAGAAATATGAAAAATATGAGCGAAT
968003 AGGAGAAATATGAAAAATATGAAG-GAAT
1 AGGAGAAATATGAAAAATATG-AGCGAAT
968031 AGGA
1 AGGA
968035 TAGAAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.25, T:0.18
Consensus pattern (28 bp):
AGGAGAAATATGAAAAATATGAGCGAAT
Found at i:973519 original size:155 final size:156
Alignment explanation
Indices: 973219--973669 Score: 542
Period size: 155 Copynumber: 2.9 Consensus size: 156
973209 AGTAACACTT
* * *
973219 TCACACCATATTCAAATTTCATTTTCC-AGGAAGGTAACCCCAAGTTCAAAATCCG-AGCCAACT
1 TCACACCATTTTCAAATTTCATTTTCCAAGGAAGGTAACCCCAAGTTTAAAATCCGAAACCAACT
* * **
973282 GTTTATCGAACCACCTATAACCATCACCCCCAATTAGTACACAAGCCATTTAATGCACACTTGCA
66 GTTTATCGAACCACCTATAACCATCA-CCCCAATTAGTACACAAACCACTTAATGCATGCTT--A
* **
973347 -CCGTATTTATA-CATGTTGCTGGCATTG
128 TCCATATACATAGCATGTTGCTGGCATTG
* * *
973374 TCACACTATTTTCAAATTTCATTTTCCAAGGAA-GTAACCCAAAGTTTACAATCCGAAACCAACT
1 TCACACCATTTTCAAATTTCATTTTCCAAGGAAGGTAACCCCAAGTTTAAAATCCGAAACCAACT
* * * * **
973438 ATTTA-CTGAACCGCCTATAATCATCACCCCGATTAGTACACAAATTACTTAATGCATGCTATAT
66 GTTTATC-GAACCACCTATAACCATCACCCCAATTAGTACACAAACCACTTAATGCATGCT-TAT
* *
973502 CCATATCCATAGC-TGTTGCTGGCATTT
129 CCATATACATAGCATGTTGCTGGCATTG
*
973529 TCACGCCATTTTCAAATTTCATTTTCCAA-GAAGGTAACCCCAAGTTTAAAATCC-AAAGCCAAC
1 TCACACCATTTTCAAATTTCATTTTCCAAGGAAGGTAACCCCAAGTTTAAAATCCGAAA-CCAAC
* * * *
973592 TGTCTATGGAACCACCTATAACCATCATCCCAATTAGTACACAAACCACTTAATGCATGCTTTCT
65 TGTTTATCGAACCACCTATAACCATCACCCCAATTAGTACACAAACCACTTAATGCATGC-TTAT
973657 CCATATACATAGC
129 CCATATACATAGC
973670 CGTTTCTAGC
Statistics
Matches: 251, Mismatches: 35, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
154 7 0.03
155 208 0.83
156 36 0.14
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (156 bp):
TCACACCATTTTCAAATTTCATTTTCCAAGGAAGGTAACCCCAAGTTTAAAATCCGAAACCAACT
GTTTATCGAACCACCTATAACCATCACCCCAATTAGTACACAAACCACTTAATGCATGCTTATCC
ATATACATAGCATGTTGCTGGCATTG
Found at i:974948 original size:21 final size:22
Alignment explanation
Indices: 974915--974955 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
974905 TTTGAAAATT
**
974915 TTTTATTTGATTTAA-TTATTA
1 TTTTATTAAATTTAAGTTATTA
974936 TTTTATTAAATTTAAGTTAT
1 TTTTATTAAATTTAAGTTAT
974956 CAAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTTATTAAATTTAAGTTATTA
Found at i:975018 original size:17 final size:16
Alignment explanation
Indices: 974978--975032 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 16
974968 ATTTAAATAT
* *
974978 TTTAATATTTAATTTA
1 TTTAATTTTTAATTAA
*
974994 TGTAATTTTTAAGTTAA
1 TTTAATTTTTAA-TTAA
*
975011 TTTAATTTTTTA-T-A
1 TTTAATTTTTAATTAA
975025 TTTAATTT
1 TTTAATTT
975033 ATATTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 9 0.27
15 1 0.03
16 10 0.30
17 13 0.39
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTAATTTTTAATTAA
Found at i:975146 original size:24 final size:24
Alignment explanation
Indices: 975119--975167 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
975109 TTTTACTAGG
* *
975119 TAAATGAGTTTAATTAAATTTAAT
1 TAAATAAGTTTAAGTAAATTTAAT
*
975143 TAAATAAGTTTAAGTAATTTTAAT
1 TAAATAAGTTTAAGTAAATTTAAT
975167 T
1 T
975168 TTTATTTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (24 bp):
TAAATAAGTTTAAGTAAATTTAAT
Found at i:976176 original size:18 final size:17
Alignment explanation
Indices: 976146--976183 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
976136 AAAAATGTTA
976146 TATATTTATATAAATTTT
1 TATATTTATAT-AATTTT
976164 TATATGTTA-ATAATTTT
1 TATAT-TTATATAATTTT
976181 TAT
1 TAT
976184 TATATAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 7 0.37
19 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATTTATATAATTTT
Found at i:976586 original size:20 final size:17
Alignment explanation
Indices: 976547--976579 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
976537 TTTATCATAA
976547 TAATAATTAAATATATT
1 TAATAATTAAATATATT
976564 TAATAATTAAA-ATATT
1 TAATAATTAAATATATT
976580 CATTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATAATTAAATATATT
Found at i:976616 original size:22 final size:22
Alignment explanation
Indices: 976577--976618 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
976567 TAATTAAAAT
*
976577 ATTCATTTAAATTCAAATATTA
1 ATTCATTTAAATTAAAATATTA
976599 ATTCAATTTAAA-TAAAATAT
1 ATTC-ATTTAAATTAAAATAT
976619 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTCATTTAAATTAAAATATTA
Found at i:977056 original size:2 final size:2
Alignment explanation
Indices: 977049--977074 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
977039 TGCACTCTTT
977049 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
977075 ATTTTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:977423 original size:22 final size:23
Alignment explanation
Indices: 977398--977448 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
977388 TTTAAATCTG
*
977398 ACATAGC-CCAGTTCATGAAAAT
1 ACATAGCTACAGTTCATGAAAAT
*
977420 ACATATCTTACAGTTCATGAAAAT
1 ACATAGC-TACAGTTCATGAAAAT
977444 ACATA
1 ACATA
977449 TCCTTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.24
24 19 0.76
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (23 bp):
ACATAGCTACAGTTCATGAAAAT
Found at i:980057 original size:35 final size:35
Alignment explanation
Indices: 980011--980084 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
980001 GAAGGAAAAC
*
980011 TATTTATTTTGTTTTGCTTATCTGAAGATTGTTTA
1 TATTTATTTTGTTCTGCTTATCTGAAGATTGTTTA
* *
980046 TATTTATTTTGTTCTGCTTATTTGAAGTTTGTTTA
1 TATTTATTTTGTTCTGCTTATCTGAAGATTGTTTA
980081 TATT
1 TATT
980085 GATATAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (35 bp):
TATTTATTTTGTTCTGCTTATCTGAAGATTGTTTA
Found at i:986953 original size:11 final size:11
Alignment explanation
Indices: 986920--986967 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
986910 ATAAATATGC
986920 TTTAAATAAACT
1 TTTAAATAAA-T
** *
986932 AATAAACAAAT
1 TTTAAATAAAT
986943 TTTAAATAAAT
1 TTTAAATAAAT
*
986954 TATAAATAAAT
1 TTTAAATAAAT
986965 TTT
1 TTT
986968 TTCATAAACT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
11 21 0.75
12 7 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTAAATAAAT
Found at i:986968 original size:23 final size:23
Alignment explanation
Indices: 986920--986967 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
986910 ATAAATATGC
986920 TTTAAATAAACTAATAAACAAAT
1 TTTAAATAAACTAATAAACAAAT
* *
986943 TTTAAATAAA-TTATAAATAAAT
1 TTTAAATAAACTAATAAACAAAT
986965 TTT
1 TTT
986968 TTCATAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAAATAAACTAATAAACAAAT
Found at i:989480 original size:19 final size:22
Alignment explanation
Indices: 989452--989495 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
989442 CATGTCATAT
989452 TTTTTATTATATT-T-TAATTA
1 TTTTTATTATATTATGTAATTA
989472 TTTTT-TTATATTATGTAATTA
1 TTTTTATTATATTATGTAATTA
989493 TTT
1 TTT
989496 CGTGTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 6 0.27
21 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTATTATATTATGTAATTA
Found at i:989722 original size:18 final size:18
Alignment explanation
Indices: 989695--989734 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
989685 ACATACACTT
989695 GTAAACTTAACTACTTTG
1 GTAAACTTAACTACTTTG
*
989713 GTAAAGTTAACTACTTTG
1 GTAAACTTAACTACTTTG
989731 GTAA
1 GTAA
989735 TAATTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
GTAAACTTAACTACTTTG
Found at i:990904 original size:7 final size:7
Alignment explanation
Indices: 990892--990920 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
990882 GACATAAAAA
990892 TAAATTT
1 TAAATTT
990899 TAAATTT
1 TAAATTT
990906 TAAATTT
1 TAAATTT
990913 TAAATTT
1 TAAATTT
990920 T
1 T
990921 TTTTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAAATTT
Found at i:993676 original size:2 final size:2
Alignment explanation
Indices: 993669--993695 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
993659 TTGTTACCTT
993669 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
993696 TATCTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:994292 original size:11 final size:11
Alignment explanation
Indices: 994276--994377 Score: 84
Period size: 11 Copynumber: 9.2 Consensus size: 11
994266 TTCTAAAGAT
*
994276 ATATAATATGA
1 ATATAATATAA
994287 ATATAATATAA
1 ATATAATATAA
*
994298 AAATAAT-TAAA
1 ATATAATAT-AA
* *
994309 ATTTAAAATAA
1 ATATAATATAA
994320 ATATAATATAAA
1 ATATAATAT-AA
994332 ATATAATATAA
1 ATATAATATAA
994343 ATAT-ATA-AA
1 ATATAATATAA
* **
994352 TATATAAAATTTT
1 -ATATAATA-TAA
994365 ATATAATATAA
1 ATATAATATAA
994376 AT
1 AT
994378 TATTATATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
9 2 0.03
10 8 0.11
11 42 0.59
12 19 0.27
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (11 bp):
ATATAATATAA
Found at i:994316 original size:16 final size:16
Alignment explanation
Indices: 994276--994361 Score: 73
Period size: 16 Copynumber: 5.1 Consensus size: 16
994266 TTCTAAAGAT
* * *
994276 ATATAATATGAATATA
1 ATATAAAATAAATAAA
*
994292 ATATAAAAATAATTAAA
1 ATAT-AAAATAAATAAA
* *
994309 ATTTAAAATAAATATA
1 ATATAAAATAAATAAA
994325 ATATAAAATATAATATAA
1 ATATAAAATA-AATA-AA
*
994343 ATATATAAATATATAAA
1 ATATA-AAATAAATAAA
994360 AT
1 AT
994362 TTTATATAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
16 23 0.41
17 19 0.34
18 9 0.16
19 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (16 bp):
ATATAAAATAAATAAA
Found at i:994339 original size:45 final size:45
Alignment explanation
Indices: 994276--994386 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
994266 TTCTAAAGAT
* *
994276 ATATAATAT-GAATATAATATAAAAATAATTAAA-ATTTAAAA-TAA
1 ATATAATATAAAATATAATATAAAAAT-A-TAAATATATAAAATTAA
* **
994320 ATATAATATAAAATATAATATAAATATATAAATATATAAAATTTT
1 ATATAATATAAAATATAATATAAAAATATAAATATATAAAATTAA
* *
994365 ATATAATATAAATTATTATATA
1 ATATAATATAAAATATAATATA
994387 TTTTAATTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 4 0.07
44 17 0.30
45 36 0.63
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (45 bp):
ATATAATATAAAATATAATATAAAAATATAAATATATAAAATTAA
Found at i:994357 original size:33 final size:35
Alignment explanation
Indices: 994274--994377 Score: 101
Period size: 33 Copynumber: 3.1 Consensus size: 35
994264 AATTCTAAAG
*
994274 ATATATAATATGAATATAATATAAAA-ATAAT-TAA
1 ATATATAAAAT-AATATAATATAAAATATAATATAA
*
994308 A-ATTTAAAATAAATATAATATAAAATATAATATAA
1 ATATATAAAAT-AATATAATATAAAATATAATATAA
* ***
994343 ATATAT-AAAT-ATATAAAATTTTATATAATATAA
1 ATATATAAAATAATATAATATAAAATATAATATAA
994376 AT
1 AT
994378 TATTATATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
33 42 0.71
34 6 0.10
35 8 0.14
36 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.38
Consensus pattern (35 bp):
ATATATAAAATAATATAATATAAAATATAATATAA
Found at i:994397 original size:17 final size:17
Alignment explanation
Indices: 994332--994407 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
994322 ATAATATAAA
994332 ATATAATATAAA-TA-T
1 ATATAATATAAATTATT
*
994347 ATAAATATATAAAATT-TT
1 ATATA-ATAT-AAATTATT
994365 ATATAATATAAATTATT
1 ATATAATATAAATTATT
* * *
994382 ATATATTTTAATTTA-T
1 ATATAATATAAATTATT
994398 ATA-AATATAA
1 ATATAATATAA
994408 TATTTTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 9 0.18
16 13 0.27
17 21 0.43
18 6 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATATAAATTATT
Found at i:994543 original size:2 final size:2
Alignment explanation
Indices: 994536--994575 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
994526 CTCTTATACT
994536 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
994576 ATTCTTTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:995012 original size:2 final size:2
Alignment explanation
Indices: 994994--995032 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
994984 GACAAGGTAT
* *
994994 AC AC AC CC AC AC CC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
995033 TATATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:995763 original size:10 final size:12
Alignment explanation
Indices: 995693--995766 Score: 52
Period size: 12 Copynumber: 6.5 Consensus size: 12
995683 ATTGATTCGA
*
995693 AAATTTAT-TTT
1 AAATTTATAATT
995704 AATATTTA-AATT
1 AA-ATTTATAATT
* *
995716 ATATTTAAAAGTT
1 AAATTTATAA-TT
*
995729 AATTTTAT-ATT
1 AAATTTATAATT
995740 -AATTTATAATT
1 AAATTTATAATT
995751 AAATTTA-AA-T
1 AAATTTATAATT
995761 AAATTT
1 AAATTT
995767 TTTATTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
10 13 0.25
11 14 0.27
12 17 0.33
13 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (12 bp):
AAATTTATAATT
Done.