Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold221
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: 2539808
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 8 of 19
Found at i:964923 original size:22 final size:20
Alignment explanation
Indices: 964880--964942 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 20
964870 TTTTTATATT
* *
964880 ATTTATATTTAA-AATTTAA
1 ATTTATATATAATTATTTAA
* *
964899 ATTTATTTATTATCTATATTAA
1 ATTTATATATAAT-TAT-TTAA
964921 ATTTATATATAATTATTTAA
1 ATTTATATATAATTATTTAA
964941 AT
1 AT
964943 ATAAATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 5 0.14
22 15 0.43
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATATATAATTATTTAA
Found at i:965230 original size:14 final size:13
Alignment explanation
Indices: 965213--965274 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 13
965203 AATTAAATAA
965213 TAAATTTAGATATT
1 TAAATTTA-ATATT
965227 TAAATTTAATATCT
1 TAAATTTAATAT-T
**
965241 GTAAAAGTAATA--
1 -TAAATTTAATATT
965253 TAAATTTAGATATT
1 TAAATTTA-ATATT
965267 TAAATTTA
1 TAAATTTA
965275 TTATCTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
11 6 0.15
12 3 0.08
13 4 0.10
14 17 0.44
15 9 0.23
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (13 bp):
TAAATTTAATATT
Found at i:965263 original size:40 final size:40
Alignment explanation
Indices: 965212--965291 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
965202 TAATTAAATA
*
965212 ATAAATTTAGATATTTAAATTTAATATCTGTAAAAGTAAT
1 ATAAATTTAGATATTTAAATTTAATATCTATAAAAGTAAT
*
965252 ATAAATTTAGATATTTAAATTTATTATCTATAAAAGTAAT
1 ATAAATTTAGATATTTAAATTTAATATCTATAAAAGTAAT
965292 GTTAATTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (40 bp):
ATAAATTTAGATATTTAAATTTAATATCTATAAAAGTAAT
Found at i:965593 original size:23 final size:26
Alignment explanation
Indices: 965544--965595 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
965534 AACTATATAT
965544 AAAAATATAATAAACATGATATGTTTA
1 AAAAATATAATAAACATGATA-GTTTA
965571 AAAAATATAAT-AACAT-ATA-TTTA
1 AAAAATATAATAAACATGATAGTTTA
965594 AA
1 AA
965596 TATGGTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.24
25 3 0.12
26 5 0.20
27 11 0.44
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAATATAATAAACATGATAGTTTA
Found at i:965883 original size:14 final size:14
Alignment explanation
Indices: 965864--965890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
965854 ATTTTCTTAA
965864 ATTTAAAAAATATT
1 ATTTAAAAAATATT
965878 ATTTAAAAAATAT
1 ATTTAAAAAATAT
965891 AAAAATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAAAAATATT
Found at i:970800 original size:21 final size:23
Alignment explanation
Indices: 970757--970814 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 23
970747 TATATTTTTT
* * *
970757 TTATAATAT-AATTTATATTATA
1 TTATAAAATAAATATATATAATA
970779 -TA-AAAATAAATATATATAATA
1 TTATAAAATAAATATATATAATA
*
970800 TTATAATATAAATAT
1 TTATAAAATAAATAT
970815 TAAAAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.14
21 13 0.45
22 2 0.07
23 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATAAAATAAATATATATAATA
Found at i:970873 original size:22 final size:22
Alignment explanation
Indices: 970848--970905 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
970838 TTTTAAAATT
970848 TAATAAAAATAAAATTAAAAAA
1 TAATAAAAATAAAATTAAAAAA
** * *
970870 TAATTGAAATATATTTAAAAAA
1 TAATAAAAATAAAATTAAAAAA
*
970892 TTA-AAAAATAAAAT
1 TAATAAAAATAAAAT
970906 ATGATATTAA
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
TAATAAAAATAAAATTAAAAAA
Found at i:971307 original size:9 final size:9
Alignment explanation
Indices: 971295--971406 Score: 57
Period size: 9 Copynumber: 12.0 Consensus size: 9
971285 TAATCATTTT
*
971295 TTTATTTAA
1 TTTAATTAA
971304 TTTAATTAA
1 TTTAATTAA
* *
971313 TTTTGATAAAA
1 -TTTAAT-TAA
*
971324 TTTGATT-A
1 TTTAATTAA
*
971332 TTTAAATCAA
1 TTT-AATTAA
*
971342 TTTAAATAAA
1 TTT-AATTAA
*
971352 TTTATTTAA
1 TTTAATTAA
971361 TTT-ATTAA
1 TTTAATTAA
*
971369 TTAAATTAA
1 TTTAATTAA
*
971378 ATTAATTAA
1 TTTAATTAA
* *
971387 ATAAATTGATA
1 TTTAATT-A-A
971398 TTTAATTAA
1 TTTAATTAA
971407 ATCTAAATAA
Statistics
Matches: 80, Mismatches: 16, Indels: 14
0.73 0.15 0.13
Matches are distributed among these distances:
8 10 0.12
9 36 0.45
10 26 0.32
11 8 0.10
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (9 bp):
TTTAATTAA
Found at i:971363 original size:29 final size:30
Alignment explanation
Indices: 971295--971364 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
971285 TAATCATTTT
* **
971295 TTTATTTAATTT-AATTAATTTTGATAAAA
1 TTTATTTAATTTAAATCAATTTAAATAAAA
971324 TTTGA-TT-ATTTAAATCAATTTAAAT-AAA
1 TTT-ATTTAATTTAAATCAATTTAAATAAAA
971352 TTTATTTAATTTA
1 TTTATTTAATTTA
971365 TTAATTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 1 0.03
28 12 0.35
29 20 0.59
30 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTATTTAATTTAAATCAATTTAAATAAAA
Found at i:971373 original size:22 final size:22
Alignment explanation
Indices: 971343--971384 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
971333 TTAAATCAAT
* *
971343 TTAAATAAATTTATTTAATTTA
1 TTAAATAAATTAAATTAATTTA
*
971365 TTAATTAAATTAAATTAATT
1 TTAAATAAATTAAATTAATT
971385 AAATAAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAAATAAATTAAATTAATTTA
Found at i:971375 original size:5 final size:5
Alignment explanation
Indices: 971367--971420 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
971357 TTAATTTATT
* *
971367 AATTA AATTA AATT- AATTA AA-TA AATTGA TATTT AATTA AATCTA AA-TA
1 AATTA AATTA AATTA AATTA AATTA AATT-A AATTA AATTA AAT-TA AATTA
971416 AATTA
1 AATTA
971421 TATATTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 12 0.30
5 20 0.50
6 8 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:971417 original size:26 final size:23
Alignment explanation
Indices: 971343--971423 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 23
971333 TTAAATCAAT
*
971343 TTAAATAAATT-TATTTAATTTA
1 TTAAATAAATTATATTTAATTAA
*
971365 TTAATTAAA-T-TA---AATTAA
1 TTAAATAAATTATATTTAATTAA
971383 TTAAATAAATTGATATTTAATTAAA
1 TTAAATAAATT-ATATTTAATT-AA
971408 TCTAAATAAATTATAT
1 T-TAAATAAATTATAT
971424 ATTTTAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
18 13 0.27
19 1 0.02
21 5 0.10
22 8 0.17
24 4 0.08
25 7 0.15
26 10 0.21
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
TTAAATAAATTATATTTAATTAA
Found at i:971436 original size:26 final size:25
Alignment explanation
Indices: 971377--971423 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
971367 AATTAAATTA
971377 AATTAAT-TAAATAAATTGATATTT
1 AATTAATCTAAATAAATTGATATTT
971401 AATTAAATCTAAATAAATT-ATAT
1 AATT-AATCTAAATAAATTGATAT
971424 ATTTTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.19
25 7 0.33
26 10 0.48
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTAATCTAAATAAATTGATATTT
Found at i:973253 original size:2 final size:2
Alignment explanation
Indices: 973240--973281 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
973230 TGTCTATGAG
* * *
973240 AT AT AG AT AT AT AT AT AT AT AT AT AT GT AT AT GT 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
973282 GCTGCTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:974541 original size:15 final size:15
Alignment explanation
Indices: 974511--974539 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
974501 TTTAATGGGT
974511 TTTTAAGATTTAAAA
1 TTTTAAGATTTAAAA
974526 TTTTAA-ATTTAAAA
1 TTTTAAGATTTAAAA
974540 ATAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTTAAGATTTAAAA
Found at i:977201 original size:22 final size:22
Alignment explanation
Indices: 977156--977216 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
977146 AATAAGTTAT
977156 ATTTTATTATT-TAATTAAAAA-A
1 ATTTTATTATTAT-A-TAAAAATA
977178 TATTATTATTATTATATAAAAATA
1 -ATT-TTATTATTATATAAAAATA
977202 ATTTTATTATTATAT
1 ATTTTATTATTATAT
977217 TCATATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.34
23 12 0.34
24 10 0.29
25 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTATTATTATATAAAAATA
Found at i:977214 original size:25 final size:25
Alignment explanation
Indices: 977143--977214 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
977133 ATAAAAATTA
* *
977143 AAAAATAAGTTATATT-TTATTATTT
1 AAAAATAA-TTTTATTATTATTATAT
* *
977168 AATTAAAAAATATTATTATTATTATAT
1 AA--AAATAATTTTATTATTATTATAT
977195 AAAAATAATTTTATTATTAT
1 AAAAATAATTTTATTATTAT
977215 ATTCATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 18 0.47
26 5 0.13
27 15 0.39
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
AAAAATAATTTTATTATTATTATAT
Found at i:978238 original size:21 final size:19
Alignment explanation
Indices: 978214--978253 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
978204 TAATATTTTA
978214 TTAATAAATGAATATATAATT
1 TTAA-AAATGAA-ATATAATT
*
978235 TTAAAAATTAAATATAATT
1 TTAAAAATGAAATATAATT
978254 AATTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAAAAATGAAATATAATT
Found at i:982181 original size:16 final size:16
Alignment explanation
Indices: 982144--982183 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
982134 GGTTCAAATC
*
982144 AAAATTATTTAAATTT
1 AAAATAATTTAAATTT
982160 -AAATAATTTAAATTT
1 AAAATAATTTAAATTT
982175 AAAATAATT
1 AAAATAATT
982184 CAAACTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATAATTTAAATTT
Found at i:983287 original size:21 final size:21
Alignment explanation
Indices: 983255--983296 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
983245 TAAACTGATT
983255 TTATATTTTTATTAATTATTTA
1 TTATATTTTTATTAATT-TTTA
983277 TTATA-TTTTATTAATTTTTA
1 TTATATTTTTATTAATTTTTA
983297 ATAGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATATTTTTATTAATTTTTA
Found at i:983295 original size:10 final size:10
Alignment explanation
Indices: 983259--983296 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
983249 CTGATTTTAT
983259 ATTTTTATTA
1 ATTTTTATTA
983269 ATTATTTATT-
1 ATT-TTTATTA
983279 ATATTTTATTA
1 AT-TTTTATTA
983290 ATTTTTA
1 ATTTTTA
983297 ATAGTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:983658 original size:22 final size:21
Alignment explanation
Indices: 983615--983656 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
983605 ATTAATATTT
983615 TATATAAATTTAATTATAAAA
1 TATATAAATTTAATTATAAAA
983636 TATATAAATTTTAA-TATAAAA
1 TATATAAA-TTTAATTATAAAA
983657 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATAAATTTAATTATAAAA
Found at i:983813 original size:13 final size:14
Alignment explanation
Indices: 983795--983837 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
983785 AAATTAAATT
983795 TAATTA-ATTTATA
1 TAATTATATTTATA
* *
983808 TAATTATTTTTAAA
1 TAATTATATTTATA
983822 TAATTATATTT-TA
1 TAATTATATTTATA
983835 TAA
1 TAA
983838 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTATATTTATA
Found at i:983819 original size:14 final size:15
Alignment explanation
Indices: 983802--983840 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
983792 ATTTAATTAA
983802 TTTATATAATTAT-T
1 TTTATATAATTATAT
*
983816 TTTAAATAATTATAT
1 TTTATATAATTATAT
983831 TTTATA-AATT
1 TTTATATAATT
983841 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATAATTATAT
Found at i:984097 original size:11 final size:11
Alignment explanation
Indices: 984071--984206 Score: 85
Period size: 11 Copynumber: 12.8 Consensus size: 11
984061 CGAGTAAAGT
984071 TATTA-ATTTA
1 TATTATATTTA
984081 -ATTTATATTTA
1 TA-TTATATTTA
*
984092 TATTATTTTTA
1 TATTATATTTA
*
984103 TATTATAATTA
1 TATTATATTTA
984114 TATT-TATTTATA
1 TATTATA-TT-TA
**
984126 TATTATATAAA
1 TATTATATTTA
*
984137 TTTTAATATATT-
1 TATT-ATAT-TTA
984149 TA-TATATTTA
1 TATTATATTTA
*
984159 TATTAT-TTTT
1 TATTATATTTA
*
984169 TATCATATTT-
1 TATTATATTTA
984179 TA-TAT-TTT-
1 TATTATATTTA
984187 TATTATATTTA
1 TATTATATTTA
*
984198 TATTGTATT
1 TATTATATT
984207 ATTGTGTTAC
Statistics
Matches: 98, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.05
9 8 0.08
10 24 0.24
11 46 0.47
12 13 0.13
13 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (11 bp):
TATTATATTTA
Found at i:984104 original size:17 final size:17
Alignment explanation
Indices: 984082--984201 Score: 79
Period size: 17 Copynumber: 6.8 Consensus size: 17
984072 ATTAATTTAA
984082 TTTATATTTATATTATT
1 TTTATATTTATATTATT
*
984099 TTTATA-TTATAATTATA
1 TTTATATTTAT-ATTATT
*
984116 TTTAT-TTATATATTATA
1 TTTATATT-TATATTATT
**
984133 TAAAT-TTTA-ATATATT
1 TTTATATTTATAT-TATT
*
984149 TATATATTTATATTATTTT
1 TTTATATTTATATTA--TT
984168 TTATCATATTTTATATT-TT
1 TT-T-ATA-TTTATATTATT
984187 TATTATATTTATATT
1 T-TTATATTTATATT
984202 GTATTATTGT
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.02
16 13 0.15
17 42 0.49
18 8 0.09
19 7 0.08
20 2 0.02
21 3 0.04
22 8 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATATTTATATTATT
Found at i:984132 original size:39 final size:36
Alignment explanation
Indices: 984070--984201 Score: 112
Period size: 38 Copynumber: 3.6 Consensus size: 36
984060 TCGAGTAAAG
*
984070 TTATTA-ATTTAATTTATATTTATATTATTTTTATAT
1 TTATTATATTT-ATTTATATTTATATAATTTTTATAT
984106 TATAATTATATTTATTTATATATTATATAAATTTTAATATAT
1 T-T-ATTATATTTATTTATAT-TTATAT-AATTTT--TATAT
* *
984148 TTA-TATATTTATATTAT-TTTTTATCATATTTTATAT
1 TTATTATATTTAT-TTATATTTATATAAT-TTTTATAT
*
984184 TT-TTAT-TATATTTATATT
1 TTATTATATTTATTTATATT
984202 GTATTATTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
34 4 0.05
35 6 0.07
36 11 0.14
37 3 0.04
38 20 0.25
39 20 0.25
40 10 0.12
41 1 0.01
42 6 0.07
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (36 bp):
TTATTATATTTATTTATATTTATATAATTTTTATAT
Found at i:984159 original size:28 final size:29
Alignment explanation
Indices: 984118--984185 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
984108 TAATTATATT
984118 TATTTATATA-TTATATAAATTTTAAT-A
1 TATTTATATATTTATATAAATTTTAATCA
* * *
984145 TATTTATATATTTATATTATTTTTTATCA
1 TATTTATATATTTATATAAATTTTAATCA
984174 TATTT-TATATTT
1 TATTTATATATTT
984186 TTATTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.28
28 20 0.56
29 6 0.17
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTATATATTTATATAAATTTTAATCA
Found at i:985245 original size:35 final size:38
Alignment explanation
Indices: 985206--985279 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 38
985196 ATTTGAATTA
* *
985206 ATTTAAATTATTATT-TAAATAATAAA--AA-TATTTTT
1 ATTTAAA-TATAATTATAAATAATAATATAATTATTTTT
*
985241 ATTTAAATATAATTATAAATATTAATATAATTATTTTT
1 ATTTAAATATAATTATAAATAATAATATAATTATTTTT
985279 A
1 A
985280 ATATTCTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
34 6 0.19
35 16 0.50
37 2 0.06
38 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
ATTTAAATATAATTATAAATAATAATATAATTATTTTT
Found at i:987199 original size:17 final size:18
Alignment explanation
Indices: 987163--987200 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
987153 TTTTAATCTA
*
987163 ATATTATTTTAAAATAAG
1 ATATTATTTAAAAATAAG
*
987181 ATATT-TTTAAAAATGAG
1 ATATTATTTAAAAATAAG
987198 ATA
1 ATA
987201 AGAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
ATATTATTTAAAAATAAG
Found at i:988574 original size:17 final size:17
Alignment explanation
Indices: 988542--988575 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
988532 TTCATACTGT
* *
988542 ATTTATATTATTTTTTA
1 ATTTATATCATATTTTA
988559 ATTTATATCATATTTTA
1 ATTTATATCATATTTTA
988576 TGTCATGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATATCATATTTTA
Found at i:989443 original size:31 final size:28
Alignment explanation
Indices: 989383--989449 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 28
989373 AAATAATTTA
989383 TAATATAATATGATATATTTATTAAAAT
1 TAATATAATATGATATATTTATTAAAAT
989411 TAATATAATATGA-ATTATTAATATATAAAAT
1 TAATATAATATGATA-TATT--TAT-TAAAAT
989442 TAATATAA
1 TAATATAA
989450 ATATAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
27 1 0.03
28 17 0.49
30 3 0.09
31 14 0.40
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
TAATATAATATGATATATTTATTAAAAT
Found at i:989498 original size:32 final size:32
Alignment explanation
Indices: 989336--989499 Score: 87
Period size: 31 Copynumber: 5.1 Consensus size: 32
989326 CGATAATATA
*
989336 AAATAT-AATTAA-ATAAATATATACA-TATAT
1 AAATATAAATTAATATAAATATATAAATTAT-T
* * * *
989366 ATATATAAAATAATTTATAATATAATATGATATATT
1 AAATATAAATTAATATA-AATAT-ATA-AAT-TATT
* * *
989402 TATTA-AAATTAATAT--A-ATATGAATTATT
1 AAATATAAATTAATATAAATATATAAATTATT
*
989430 AATATATAAAATTAATATAAATATA-AAATATTTT
1 AA-ATAT-AAATTAATATAAATATATAAAT-TATT
989464 AAATAT-AATT-ATAATAGAATATATAAATTATT
1 AAATATAAATTAAT-ATA-AATATATAAATTATT
989496 AAAT
1 AAAT
989500 CAGGTTAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
28 5 0.05
29 4 0.04
30 9 0.09
31 24 0.24
32 16 0.16
33 17 0.17
34 11 0.11
35 9 0.09
36 3 0.03
37 3 0.03
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (32 bp):
AAATATAAATTAATATAAATATATAAATTATT
Found at i:989927 original size:21 final size:20
Alignment explanation
Indices: 989898--989960 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
989888 TTTTTATATT
989898 TATATATAATATATAATTTA
1 TATATATAATATATAATTTA
*
989918 TATCATATAA-AAATAA---A
1 TAT-ATATAATATATAATTTA
989935 TATATATAATATTATAATTTA
1 TATATATAATA-TATAATTTA
*
989956 AATAT
1 TATAT
989961 TAAAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
16 6 0.18
17 5 0.15
18 4 0.12
20 8 0.24
21 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATATAATATATAATTTA
Found at i:990339 original size:2 final size:2
Alignment explanation
Indices: 990332--990369 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
990322 GCTCCTTTTC
990332 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
990370 AGAAAAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:991810 original size:22 final size:21
Alignment explanation
Indices: 991771--991811 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
991761 AATAAAAAAT
991771 TATTTTTTATTAATATTTATA
1 TATTTTTTATTAATATTTATA
991792 TATTTTTATAATTAA-ATTTA
1 TATTTTT-T-ATTAATATTTA
991812 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTTTTATTAATATTTATA
Found at i:991949 original size:33 final size:32
Alignment explanation
Indices: 991907--991985 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
991897 TATTTTTATG
*
991907 TTAATATTTTTATATT-TTATAATTA-AATTTAAA
1 TTAA-ATTTTT-TATTATTA-AATAATAATTTAAA
991940 TATAAATTTTTTATTATTAAATAATAATTTAAA
1 T-TAAATTTTTTATTATTAAATAATAATTTAAA
991973 TTAAATTTATTTA
1 TTAAATTT-TTTA
991986 AATTATTACA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
32 15 0.37
33 23 0.56
34 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TTAAATTTTTTATTATTAAATAATAATTTAAA
Found at i:991986 original size:15 final size:15
Alignment explanation
Indices: 991933--991990 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
991923 TTATAATTAA
991933 ATTTAAATATAAATTT
1 ATTTAAAT-TAAATTT
* *
991949 -TTTATTATTAAATAATA
1 ATTTA-AATTAAAT--TT
991966 ATTTAAATTAAATTT
1 ATTTAAATTAAATTT
991981 ATTTAAATTA
1 ATTTAAATTA
991991 TTACAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 20 0.59
16 2 0.06
17 8 0.24
18 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAAATTAAATTT
Found at i:992808 original size:36 final size:35
Alignment explanation
Indices: 992750--992820 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
992740 TATTTTTAAC
* *
992750 AAAATTTTAAATTTTTATTATATTTTATGTTATAT
1 AAAATTTTAAATTTATATTATATTTTATATTATAT
*
992785 AAAATTATTAACTTTATATTATATTTTATATTATAT
1 AAAATT-TTAAATTTATATTATATTTTATATTATAT
992821 TTTAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (35 bp):
AAAATTTTAAATTTATATTATATTTTATATTATAT
Found at i:992818 original size:17 final size:17
Alignment explanation
Indices: 992765--992838 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
992755 TTTAAATTTT
*
992765 TATTATATTTTATGTTA
1 TATTATATTTTATATTA
* *
992782 TATAAAATTATTA-ACTTTA
1 TATTATATT-TTATA--TTA
992801 TATTATATTTTATATTA
1 TATTATATTTTATATTA
* *
992818 TATTTTA-ATT-TATTA
1 TATTATATTTTATATTA
992833 TATTAT
1 TATTAT
992839 TAAAATTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
15 10 0.22
16 2 0.04
17 16 0.36
18 6 0.13
19 11 0.24
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (17 bp):
TATTATATTTTATATTA
Found at i:992830 original size:12 final size:12
Alignment explanation
Indices: 992760--992824 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
992750 AAAATTTTAA
992760 ATTTT-TATTAT
1 ATTTTATATTAT
*
992771 ATTTTATGTTAT
1 ATTTTATATTAT
***
992783 ATAAAATTATTA-
1 ATTTTA-TATTAT
*
992795 ACTTTATATTAT
1 ATTTTATATTAT
992807 ATTTTATATTAT
1 ATTTTATATTAT
992819 ATTTTA
1 ATTTTA
992825 ATTTATTATA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
11 10 0.24
12 27 0.66
13 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:992847 original size:17 final size:15
Alignment explanation
Indices: 992801--992849 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 15
992791 ATTAACTTTA
992801 TATTATATTTT--A-
1 TATTATATTTTAAAT
*
992813 TATTATATTTTAATT
1 TATTATATTTTAAAT
992828 TATTATATTATTAAAAT
1 TATTATATT-TT-AAAT
992845 TATTA
1 TATTA
992850 ACTTTACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 11 0.37
15 9 0.30
16 2 0.07
17 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATTTTAAAT
Found at i:992913 original size:19 final size:21
Alignment explanation
Indices: 992886--992930 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
992876 TAAAATATGA
992886 TTTTAAAAAAA-AAGCTT-TAT
1 TTTTAAAAAAATAA-CTTATAT
992906 TTTTAAAAAAATAACTTATAT
1 TTTTAAAAAAATAACTTATAT
992927 TTTT
1 TTTT
992931 TATTGTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAAATAACTTATAT
Found at i:994100 original size:24 final size:25
Alignment explanation
Indices: 994052--994125 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
994042 AAGTTAGGTA
*
994052 AATTATAT-ATAATA-TAAATTATT
1 AATTATATAAAAATATTAAATTATT
994075 AATTATATAAAAATATTAAATT-TT
1 AATTATATAAAAATATTAAATTATT
* *
994099 AA-TATAATACATATATTAAATATATT
1 AATTAT-ATAAAAATATTAAAT-TATT
994125 A
1 A
994126 TTTTAATCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.26
24 22 0.51
25 7 0.16
26 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATATAAAAATATTAAATTATT
Found at i:994206 original size:13 final size:13
Alignment explanation
Indices: 994190--994219 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
994180 CAATAAATAT
*
994190 TATTTTTATATTA
1 TATTTTTACATTA
994203 TATTTTTACATTA
1 TATTTTTACATTA
994216 TATT
1 TATT
994220 CAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTTACATTA
Found at i:994861 original size:22 final size:23
Alignment explanation
Indices: 994836--994881 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
994826 TATATTTAAT
994836 AAAATAATAT-AATATAATATAA
1 AAAATAATATAAATATAATATAA
*
994858 AAAATAATATAAATATTATATAA
1 AAAATAATATAAATATAATATAA
994881 A
1 A
994882 TGCTGTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATAAATATAATATAA
Found at i:995667 original size:13 final size:13
Alignment explanation
Indices: 995649--995673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
995639 ATATTTATAT
995649 TATTTATATATTA
1 TATTTATATATTA
995662 TATTTATATATT
1 TATTTATATATT
995674 TACTAAACGA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATATATTA
Found at i:996157 original size:30 final size:30
Alignment explanation
Indices: 996118--996176 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
996108 ATTAAATATT
* **
996118 TTAATAATTTATTTAGTTATAAATTAAAAA
1 TTAAAAATTTATTTAAATATAAATTAAAAA
996148 TTAAAAATTTATTTAAATATAAATTAAAA
1 TTAAAAATTTATTTAAATATAAATTAAAA
996177 TAATAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAAAAATTTATTTAAATATAAATTAAAAA
Found at i:996365 original size:7 final size:7
Alignment explanation
Indices: 996353--996450 Score: 79
Period size: 7 Copynumber: 13.1 Consensus size: 7
996343 ATATACTTAC
996353 AAATATA
1 AAATATA
996360 AAATATA
1 AAATATA
996367 AAATATA
1 AAATATA
996374 AAATATA
1 AAATATA
*
996381 AAATTTA
1 AAATATA
996388 AATATATA
1 AA-ATATA
** *
996396 TTATCTA
1 AAATATA
* *
996403 AAATTTT
1 AAATATA
996410 AAATATTA
1 AAATA-TA
*
996418 AATAAATA
1 AA-ATATA
996426 AAATATGA
1 AAATAT-A
996434 AAATATTTA
1 AAATA--TA
996443 AAATATA
1 AAATATA
996450 A
1 A
996451 TAAATTATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
7 46 0.64
8 17 0.24
9 8 0.11
10 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (7 bp):
AAATATA
Found at i:996861 original size:28 final size:28
Alignment explanation
Indices: 996829--996882 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
996819 AGCCTCCCCC
*
996829 GAAAAACAGACCGTACGGTATTTTAAGA
1 GAAAAACAGACCGTACGGTACTTTAAGA
* *
996857 GAAAAGCAGATCGTACGGTACTTTAA
1 GAAAAACAGACCGTACGGTACTTTAA
996883 TGAATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (28 bp):
GAAAAACAGACCGTACGGTACTTTAAGA
Found at i:997067 original size:384 final size:391
Alignment explanation
Indices: 996483--997245 Score: 1229
Period size: 386 Copynumber: 2.0 Consensus size: 391
996473 GATAGCTTAT
996483 TTTAATGAATATATTTTATTTTTAAATATAATTATAAAAGTTTAAAATGATCAAAAAAATTAAAA
1 TTTAATGAATATATTTTATTTTTAAATATAATTATAAAAGTTTAAAATGAT-AAAAAAATTAAAA
996548 ATAGAATAAAATAAATAAAAAAGTTTTTAAAAAAATAAAAAAATTACTAATACAAATTAAATACC
65 ATAGAATAAAAT--AT----AAGTTTTTAAAAAAATAAAAAAATTACTAATACAAATTAAATACC
* *
996613 TACCAATAAAAAGATTGAAATGATATATTATTAATAATATTTTATTTTATTTTAAAATAGATATA
124 TACCAATAAAAAGACTGAAATGATATATTACTAATAATATTTTATTTTATTTTAAAATAGATATA
996678 TATAATTGATATATGACTACATTTATATAAATTAAAAATTAAAAATTTTCATTTA-G-GT-GTAA
189 TATAATTGATATATGACTACATTTATATAAATTAAAAATTAAAAATTTTCATTTAGGTGTAGTAA
*
996740 TATAAGGGTATATTTGCACAAATGATAAAGTTAAGAGATTTTTATTATTTTAGTCAAAAATCAAA
254 TATAAGGGTATA-TTGCACAAATGATAAAGTTAAGAGATTTTTATTATTTTAGTAAAAAATCAAA
996805 CAAAGCTGAAATAAAGCCTCCCCCGAAAAACAGACCGTACGGTATTTTA-AGAGAAAAGCAGATC
318 CAAAGCTGAAATAAAGCCTCCCCCGAAAAACAGACCGTACGGTATTTTAGAGAGAAAAGCAGATC
996869 GTACGGTAC
383 GTACGGTAC
996878 TTTAATGAATATATTTTATTTTTAAATATAATTATAAAAGTTTAAAATGAT-AAAAAATTAAAAA
1 TTTAATGAATATATTTTATTTTTAAATATAATTATAAAAGTTTAAAATGATAAAAAAATTAAAAA
** * * * ** *
996942 TA-AAT-AAAT-T-TTTTTTTAAAAAAATAAAAAATTTATTAATATAAATTAAATATGTACTAAT
66 TAGAATAAAATATAAGTTTTTAAAAAAATAAAAAAATTACTAATACAAATTAAATACCTACCAAT
* *
997003 AAAAAGACTGAAAATGATATATTGCTAATAATATTTTATTTTATTTTAAAATTGATATATATAAT
131 AAAAAGACTG-AAATGATATATTACTAATAATATTTTATTTTATTTTAAAATAGATATATATAAT
* *
997068 TGATATATGATTATATTTATATAAATTAAAAATTAAAAATTTTCATTTAGGTGTAGTAATATAAG
195 TGATATATGACTACATTTATATAAATTAAAAATTAAAAATTTTCATTTAGGTGTAGTAATATAAG
* *
997133 GGTATATTGCACAAATGATAAAGTTCAGGGATTTTTATTATTTTAGTAAAAAATCAAACAAAGCT
260 GGTATATTGCACAAATGATAAAGTTAAGAGATTTTTATTATTTTAGTAAAAAATCAAACAAAGCT
997198 GAAATAAAGCCTCCCCCGAAAAACAGACCGTACGGTATTTTAGAGAGA
325 GAAATAAAGCCTCCCCCGAAAAACAGACCGTACGGTATTTTAGAGAGA
997246 GAAATAAACA
Statistics
Matches: 346, Mismatches: 17, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
383 52 0.15
384 98 0.28
385 1 0.00
386 100 0.29
387 21 0.06
388 1 0.00
391 4 0.01
392 3 0.01
393 15 0.04
395 51 0.15
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (391 bp):
TTTAATGAATATATTTTATTTTTAAATATAATTATAAAAGTTTAAAATGATAAAAAAATTAAAAA
TAGAATAAAATATAAGTTTTTAAAAAAATAAAAAAATTACTAATACAAATTAAATACCTACCAAT
AAAAAGACTGAAATGATATATTACTAATAATATTTTATTTTATTTTAAAATAGATATATATAATT
GATATATGACTACATTTATATAAATTAAAAATTAAAAATTTTCATTTAGGTGTAGTAATATAAGG
GTATATTGCACAAATGATAAAGTTAAGAGATTTTTATTATTTTAGTAAAAAATCAAACAAAGCTG
AAATAAAGCCTCCCCCGAAAAACAGACCGTACGGTATTTTAGAGAGAAAAGCAGATCGTACGGTA
C
Found at i:1006555 original size:37 final size:37
Alignment explanation
Indices: 1006514--1006596 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
1006504 TTATGAATAA
* *
1006514 AAAATTAAATCAAATATATTTAATTTTTA-CTTAAATT
1 AAAATTAAATCAAATATATTTAATTATAATC-TAAATT
* * *
1006551 AAAATCAACTTAAATATATTTAATTATAATCTAAATT
1 AAAATTAAATCAAATATATTTAATTATAATCTAAATT
1006588 AAAATTAAA
1 AAAATTAAA
1006597 CTAAATTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (37 bp):
AAAATTAAATCAAATATATTTAATTATAATCTAAATT
Found at i:1006867 original size:15 final size:16
Alignment explanation
Indices: 1006836--1006869 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1006826 TGTATAACAG
1006836 ATATAAATATTTATTTA
1 ATATAAATA-TTATTTA
1006853 ATATAAATA-TATTTA
1 ATATAAATATTATTTA
1006868 AT
1 AT
1006870 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAAATATTATTTA
Found at i:1008367 original size:21 final size:19
Alignment explanation
Indices: 1008334--1008384 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1008324 AAATATATTT
*
1008334 AAATTAAAT-TTAATTATAA
1 AAATAAAATATTAA-TATAA
1008353 AATATAAAATATTAATATAA
1 AA-ATAAAATATTAATATAA
*
1008373 AAATATAATATT
1 AAATAAAATATT
1008385 TTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.39
20 13 0.46
21 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATAAAATATTAATATAA
Found at i:1008388 original size:21 final size:22
Alignment explanation
Indices: 1008342--1008391 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
1008332 TTAAATTAAA
1008342 TTTAAT-TATAAAATATAAAAT
1 TTTAATATATAAAATATAAAAT
* *
1008363 ATTAATATA-AAAATATAATAT
1 TTTAATATATAAAATATAAAAT
1008384 TTTAATAT
1 TTTAATAT
1008392 TTTGAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAATATATAAAATATAAAAT
Found at i:1009484 original size:16 final size:14
Alignment explanation
Indices: 1009465--1009503 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 14
1009455 GGTAAAAAAA
1009465 AAAAAGAAAGAAGATG
1 AAAAAGAAAGAA-A-G
1009481 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
1009495 AAAAAGAAA
1 AAAAAGAAA
1009504 AAAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 12 0.52
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:1009484 original size:20 final size:20
Alignment explanation
Indices: 1009461--1009517 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1009451 GTTAGGTAAA
* *
1009461 AAAAAAAAAGAAAGAAGATG
1 AAAAAAAAAGAAAGAAAAAG
*
1009481 AAAAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAAGAAAAAG
1009501 AAAAAAAAAGAAA-AAAA
1 AAAAAAAAAGAAAGAAAA
1009518 TATGAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAAAAG
Found at i:1009510 original size:16 final size:16
Alignment explanation
Indices: 1009458--1009515 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
1009448 AAAGTTAGGT
1009458 AAAAAAA-AAAAAGAA
1 AAAAAAAGAAAAAGAA
* * *
1009473 AGAAGATGAAAAAG--
1 AAAAAAAGAAAAAGAA
*
1009487 AAAGAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
1009503 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
1009516 AATATGAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
14 10 0.31
15 4 0.12
16 18 0.56
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:1009524 original size:11 final size:10
Alignment explanation
Indices: 1009461--1009517 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
1009451 GTTAGGTAAA
1009461 AAAAAAAAAG
1 AAAAAAAAAG
* * *
1009471 AAAGAAGATG
1 AAAAAAAAAG
*
1009481 AAAAAGAAAG
1 AAAAAAAAAG
*
1009491 AAAGAAAAAG
1 AAAAAAAAAG
1009501 AAAAAAAAAG
1 AAAAAAAAAG
1009511 AAAAAAA
1 AAAAAAA
1009518 TATGAAATTG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1014249 original size:27 final size:27
Alignment explanation
Indices: 1014150--1014997 Score: 1302
Period size: 27 Copynumber: 31.0 Consensus size: 27
1014140 ACTGTGACCT
* *
1014150 CTTTAAAGCCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
1014178 CTTTTTAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1014205 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1014233 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1014260 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1014287 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1014315 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014342 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014369 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1014397 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1014424 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
**
1014452 CTTTTAAGTCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1014479 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1014507 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1014534 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1014561 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014588 CTTTTAAAGTCCATAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1014616 CTTTTAAATCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1014643 CTTTTAAGTCCACAACTCCATGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014670 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1014697 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1014724 CTTTTAATTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1014752 CTTTTAAGTCCACAACTCCGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1014780 CTTTT-AGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014806 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1014833 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014860 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014887 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1014914 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1014942 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1014969 CTTTTAAAATCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1014997 C
1 C
1014998 ATTTCAAAGC
Statistics
Matches: 754, Mismatches: 56, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
26 6 0.01
27 501 0.66
28 247 0.33
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1014290 original size:82 final size:81
Alignment explanation
Indices: 1014150--1014997 Score: 1302
Period size: 82 Copynumber: 10.3 Consensus size: 81
1014140 ACTGTGACCT
* * * * *
1014150 CTTTAAAGCCCACAACTCCGTGGCATCCCTTTTTAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
1014215 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCACC
1014233 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1014298 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
*
1014315 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1014380 ATAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* * *
1014397 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
**
1014462 CACAACTCTATGGCACC
65 CACAACTCCGTGGCACC
1014479 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1014544 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
1014561 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAATC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1014626 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * *
1014643 CTTTTAAGTCCACAACTCCATGGCATCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1014708 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* * *
1014724 CTTTTAATTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCCTTTT-AGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
1014788 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
*
1014806 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1014871 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* * * *
1014887 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1014952 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
1014969 CTTTTAAAATCCACAACTCCGTGGCACCC
1 CTTTT-AAGTCCACAACTCCGTGGCACCC
1014998 ATTTCAAAGC
Statistics
Matches: 708, Mismatches: 48, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
80 7 0.01
81 207 0.29
82 375 0.53
83 119 0.17
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:1014351 original size:109 final size:108
Alignment explanation
Indices: 1014150--1014997 Score: 1302
Period size: 109 Copynumber: 7.8 Consensus size: 108
1014140 ACTGTGACCT
* * * * *
1014150 CTTTAAAGCCCACAACTCCGTGGCATCCCTTTTTAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
1014215 CCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1014260 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1014325 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1014369 CTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * * **
1014434 CATAACTCCATGGCATCTCTTTTAAGTCCACAACTCTATGGCACC
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
1014479 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1014544 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCATC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1014588 CTTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
1014653 CACAACTCCATGGCATCCTTTTAAGACCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
1014697 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAATTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1014762 CACAACTCCGTGGCACCCCTTTT-AGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
1014806 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1014871 ACAACTCCGTGGCATCCTTTTAAGACCACAACTCCGTGGCACC
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * *
1014914 CTTTTAAGTCCATAACTCTGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
1014979 CCACAACTCCGTGGCACCC
64 CCACAACTCCGTGGCACCC
1014998 ATTTCAAAGC
Statistics
Matches: 681, Mismatches: 48, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
107 6 0.01
108 112 0.16
109 377 0.55
110 167 0.25
111 19 0.03
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (108 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1015030 original size:32 final size:32
Alignment explanation
Indices: 1014980--1015453 Score: 761
Period size: 32 Copynumber: 14.8 Consensus size: 32
1014970 TTTTAAAATC
* *
1014980 CACAACTCCGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1015011 CACAAGTCGGTAGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1015043 CACAAGTCGATGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1015075 CACAAGTCAGTGGCAACCCATTTCAAAGCGCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1015107 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1015139 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1015171 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1015203 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1015235 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1015267 TACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1015299 CACAAGTTAGTGGCAACCCATTCCAATGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1015331 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1015363 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1015395 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1015427 TGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
1015454 TCACCATTTT
Statistics
Matches: 408, Mismatches: 34, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
31 11 0.03
32 397 0.97
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1016000 original size:18 final size:17
Alignment explanation
Indices: 1015973--1016006 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1015963 CCAACAACAA
*
1015973 AAAAATCAAAAAGAAAAC
1 AAAAAGCAAAAA-AAAAC
1015991 AAAAAGCAAAAAAAAA
1 AAAAAGCAAAAAAAAA
1016007 TGGGGGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.82, C:0.09, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAAAGCAAAAAAAAAC
Found at i:1016696 original size:17 final size:15
Alignment explanation
Indices: 1016676--1016726 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
1016666 TTAAGTAAAA
1016676 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
1016693 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
* *
1016707 AA-AAAGAAAAAAAA
1 AAGAAAGAAAGAAAG
1016721 AAGAAA
1 AAGAAA
1016727 AAAATATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:1016727 original size:17 final size:17
Alignment explanation
Indices: 1016673--1016728 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
1016663 AAGTTAAGTA
* *
1016673 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAAAAAAAAG
** * *
1016690 ATGAAGAAGAAAGAAAG
1 AAAAAGAAAAAAAAAAG
1016707 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
1016724 AAAAA
1 AAAAA
1016729 AATATGAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:1019600 original size:26 final size:25
Alignment explanation
Indices: 1019564--1019614 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
1019554 GTAAATATAT
*
1019564 ATATATATATATATATAAT-TTTAA
1 ATATATATATATATTTAATATTTAA
*
1019588 ATATATATTTATATTTAATATTTAA
1 ATATATATATATATTTAATATTTAA
1019613 AT
1 AT
1019615 TCAACTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATATATATATATTTAATATTTAA
Found at i:1020017 original size:18 final size:17
Alignment explanation
Indices: 1019977--1020030 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
1019967 AATATATTTC
*
1019977 AAAATTAATAT-AATAT
1 AAAATTTATATAAATAT
1019993 -AAA-TTAT-TAATATAT
1 AAAATTTATATAA-ATAT
1020008 CAAAATTTATATAAATAT
1 -AAAATTTATATAAATAT
1020026 AAAAT
1 AAAAT
1020031 ATCTCAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
13 1 0.03
14 4 0.13
15 7 0.23
17 8 0.26
18 8 0.26
19 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:1022170 original size:22 final size:22
Alignment explanation
Indices: 1022143--1022196 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
1022133 TAACATAATA
1022143 AAATAAT-TAAAATATAATATAC
1 AAATAATAT-AAATATAATATAC
*
1022165 AAATAATATGAATATAATAT--
1 AAATAATATAAATATAATATAC
1022185 AAAT-ATATAAAT
1 AAATAATATAAAT
1022197 TGTTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 4 0.14
22 17 0.59
23 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATAATATAAATATAATATAC
Found at i:1022189 original size:11 final size:11
Alignment explanation
Indices: 1022140--1022191 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
1022130 AAGTAACATA
1022140 ATAAA-ATAAT
1 ATAAATATAAT
1022150 -TAAAATATAAT
1 AT-AAATATAAT
1022161 ATACAA-ATAAT
1 ATA-AATATAAT
*
1022172 ATGAATATAAT
1 ATAAATATAAT
1022183 ATAAATATA
1 ATAAATATA
1022192 TAAATTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 26 0.74
12 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:1022660 original size:28 final size:27
Alignment explanation
Indices: 1022628--1022689 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
1022618 TTGCATTTAG
*
1022628 ATTTAATAATTTATATATTCATAATTAT
1 ATTTAATAATTTATATATT-ATAATCAT
* *
1022656 ATTTATATATTTTATGTATTATAATCAT
1 ATTTA-ATAATTTATATATTATAATCAT
1022684 ATTTAA
1 ATTTAA
1022690 AATATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 17 0.57
29 12 0.40
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTAATAATTTATATATTATAATCAT
Found at i:1022675 original size:29 final size:27
Alignment explanation
Indices: 1022628--1022709 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 27
1022618 TTGCATTTAG
* *
1022628 ATTTAATAATTTATATATTCATAATTAT
1 ATTTAATATTTTATATATT-ATAATCAT
*
1022656 ATTTATATATTTTATGTATTATAATCAT
1 ATTTA-ATATTTTATATATTATAATCAT
*
1022684 ATTTAAAATATTTTATAATTTTATAA
1 ATTT--AATATTTTAT-ATATTATAA
1022710 ATTTTAATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 16 0.36
29 21 0.47
30 8 0.18
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (27 bp):
ATTTAATATTTTATATATTATAATCAT
Found at i:1024281 original size:23 final size:22
Alignment explanation
Indices: 1024233--1024293 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
1024223 TAATAAAATA
* * *
1024233 TAAATTTAAACTTAAACCTATT
1 TAAATTTAAACTAAAAACTATC
1024255 TAAATTTAAACTAAAAACTCATC
1 TAAATTTAAACTAAAAACT-ATC
*
1024278 TAAACTTAAACTAAAA
1 TAAATTTAAACTAAAA
1024294 GTTCAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATTTAAACTAAAAACTATC
Found at i:1024333 original size:23 final size:22
Alignment explanation
Indices: 1024307--1024364 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
1024297 CAATTAAAAC
*
1024307 AAAAAAAATAACA-AAATTCAATT
1 AAAAAAAA-AA-ATAAATTAAATT
1024330 AAAATAAAAAAATAAATTAAATT
1 AAAA-AAAAAAATAAATTAAATT
*
1024353 AAATAAAAAAAT
1 AAAAAAAAAAAT
1024365 CTGAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 9 0.29
23 18 0.58
24 4 0.13
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAAAAAAAATAAATTAAATT
Found at i:1024347 original size:18 final size:18
Alignment explanation
Indices: 1024311--1024364 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
1024301 TAAAACAAAA
* *
1024311 AAAATAACAAAATTCAATT
1 AAAATAA-AAAAATAAATT
1024330 AAAATAAAAAAATAAATT
1 AAAATAAAAAAATAAATT
*
1024348 AAATTAAATAAAA-AAAT
1 AAAATAAA-AAAATAAAT
1024365 CTGAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAAAAAAATAAATT
Found at i:1024359 original size:27 final size:27
Alignment explanation
Indices: 1024290--1024360 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
1024280 AACTTAAACT
* *
1024290 AAAAGTTCAATTAAAACAAAAAAAATAAC
1 AAAA-TTCAAATAAAA-TAAAAAAATAAC
*
1024319 AAAATTCAATTAAAATAAAAAAATAA-
1 AAAATTCAAATAAAATAAAAAAATAAC
1024345 ATTAAATT-AAATAAAA
1 A--AAATTCAAATAAAA
1024361 AAATCTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 1 0.03
27 17 0.45
28 16 0.42
29 4 0.11
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.23
Consensus pattern (27 bp):
AAAATTCAAATAAAATAAAAAAATAAC
Found at i:1025887 original size:21 final size:21
Alignment explanation
Indices: 1025857--1025922 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1025847 ATAAATTATT
1025857 TAAAAA-ATAATTTTAATTAA
1 TAAAAATATAATTTTAATTAA
*** *
1025877 TATTTATATAA-TTAAATTAAA
1 TAAAAATATAATTTTAATT-AA
*
1025898 TAAAAATATTATTTTAATTAA
1 TAAAAATATAATTTTAATTAA
1025919 TAAA
1 TAAA
1025923 TAATGATTCA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
20 9 0.26
21 19 0.56
22 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAAATATAATTTTAATTAA
Found at i:1027459 original size:20 final size:20
Alignment explanation
Indices: 1027436--1027473 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1027426 ATGTAATAAT
1027436 TATTTACTATTAAAATTACA
1 TATTTACTATTAAAATTACA
* *
1027456 TATTTATTATTTAAATTA
1 TATTTACTATTAAAATTA
1027474 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTACTATTAAAATTACA
Found at i:1028393 original size:8 final size:8
Alignment explanation
Indices: 1028380--1028414 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
1028370 GTCAGGTTAA
1028380 TTTAAAAT
1 TTTAAAAT
1028388 TTTAAAAT
1 TTTAAAAT
1028396 TTTAAATAT
1 TTTAAA-AT
*
1028405 TTTTAAAT
1 TTTAAAAT
1028413 TT
1 TT
1028415 AAATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTAAAAT
Found at i:1028415 original size:16 final size:15
Alignment explanation
Indices: 1028378--1028496 Score: 103
Period size: 16 Copynumber: 7.5 Consensus size: 15
1028368 GGGTCAGGTT
* *
1028378 AATTTAAAATTTTAA
1 AATTTAAATTTTTTA
1028393 AATTTTAAATATTTTTA
1 AA-TTTAAAT-TTTTTA
1028410 AATTTAAATTATTTTA
1 AATTTAAATT-TTTTA
** *
1028426 TTTTTAAATTATATTA
1 AATTTAAATT-TTTTA
1028442 AATTTAAATTCTTTTA
1 AATTTAAATT-TTTTA
* *
1028458 ATTTTTAAATTATTTA
1 A-ATTTAAATTTTTTA
*
1028474 AATTTTAAATTTATTA
1 AA-TTTAAATTTTTTA
1028490 AATTTAA
1 AATTTAA
1028497 TACTTAAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
15 8 0.09
16 62 0.73
17 15 0.18
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTAAATTTTTTA
Found at i:1028462 original size:38 final size:36
Alignment explanation
Indices: 1028422--1028555 Score: 93
Period size: 37 Copynumber: 3.8 Consensus size: 36
1028412 TTTAAATTAT
1028422 TTTATTTTTAAATTATATTAAATTTAAATTCTTTT-A
1 TTTATTTTTAAATTATATTAAATTTAAATT-TTTTAA
*
1028458 ---ATTTTTAAATTAT-TTAAATTTTAAATTTATTAAA
1 TTTATTTTTAAATTATATTAAA-TTTAAATTT-TTTAA
** *
1028492 TTTAATACTTAAATTA-ATTAAATTTAAAATATTTTAA
1 TTT-ATTTTTAAATTATATTAAATTT-AAATTTTTTAA
* * * *
1028529 ATTCTGATTTAAATTA-ATCAAATTTAA
1 TTTAT-TTTTAAATTATATTAAATTTAA
1028556 TAATTTACAT
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
32 6 0.08
33 23 0.29
34 1 0.01
36 3 0.04
37 26 0.33
38 20 0.25
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (36 bp):
TTTATTTTTAAATTATATTAAATTTAAATTTTTTAA
Found at i:1028467 original size:33 final size:31
Alignment explanation
Indices: 1028395--1028484 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 31
1028385 AATTTTAAAA
*
1028395 TTTTAAATATTTTTAAATTTAAATTATTTTAT
1 TTTTAAAT-TATTTAAATTTAAATTATTTTAT
*
1028427 TTTTAAATTATATTAAATTTAAATTCTTTTAAT
1 TTTTAAATTAT-TTAAATTTAAATTATTTT-AT
1028460 TTTTAAATTATTTAAATTTTAAATT
1 TTTTAAATTATTTAAA-TTTAAATT
1028485 TATTAAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
31 2 0.04
32 30 0.57
33 21 0.40
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTAAATTATTTAAATTTAAATTATTTTAT
Found at i:1028494 original size:22 final size:23
Alignment explanation
Indices: 1028428--1028531 Score: 88
Period size: 22 Copynumber: 4.3 Consensus size: 23
1028418 TTATTTTATT
*
1028428 TTTAAATTATATTAAATTTAAATTC
1 TTTAAATT-TATTAAATTTAAA-TA
*
1028453 TTTTAATTT-TTAAATTATTTAAAT-
1 TTTAAATTTATT-AA--ATTTAAATA
1028477 TTTAAATTTATTAAATTT-AATA
1 TTTAAATTTATTAAATTTAAATA
* *
1028499 CTTAAATTAATTAAATTTAAAATA
1 TTTAAATTTATTAAATTT-AAATA
1028523 TTTTAAATT
1 -TTTAAATT
1028532 CTGATTTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.05
22 20 0.30
23 2 0.03
24 17 0.26
25 17 0.26
26 7 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAATTTATTAAATTTAAATA
Found at i:1028968 original size:23 final size:23
Alignment explanation
Indices: 1028928--1028976 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
1028918 TTATTTAAAT
*
1028928 TTAATTATAAAAGTATATTAA-TA
1 TTAATTATAAAAATATA-TAATTA
1028951 TTAA-TATAAAAATAATATAATTA
1 TTAATTATAAAAAT-ATATAATTA
1028974 TTA
1 TTA
1028977 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TTAATTATAAAAATATATAATTA
Found at i:1029026 original size:13 final size:13
Alignment explanation
Indices: 1028981--1029031 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
1028971 TTATTATTTT
1028981 TTAAATAATAAAA
1 TTAAATAATAAAA
*
1028994 TTAATTAATTAAAA
1 TTAAATAA-TAAAA
1029008 TTAAATAA-AAAA
1 TTAAATAATAAAA
*
1029020 TTTAAATCATAA
1 -TTAAATAATAA
1029032 TTTCGATCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 4 0.12
13 14 0.44
14 14 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAATAATAAAA
Found at i:1029513 original size:6 final size:6
Alignment explanation
Indices: 1029504--1029568 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
1029494 TATAATTTAA
*
1029504 AAATTT AAATTTT AAATTT AAATTT AAATTT -AA-TT AAGTTT -AATTT
1 AAATTT AAA-TTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
1029550 ATTTATTT AAATTT AAATT
1 A--AATTT AAATTT AAATT
1029569 ATTATTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 2 0.04
5 7 0.14
6 29 0.59
7 6 0.12
8 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (6 bp):
AAATTT
Found at i:1029528 original size:19 final size:18
Alignment explanation
Indices: 1029504--1029568 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
1029494 TATAATTTAA
1029504 AAATTTAAATTTTAAATTT
1 AAATTTAAATTTT-AATTT
1029523 AAATTTAAA-TTTAA-TT
1 AAATTTAAATTTTAATTT
* * *
1029539 AAGTTTAATTTATTTATTT
1 AAATTTAAATT-TTAATTT
1029558 AAATTTAAATT
1 AAATTTAAATT
1029569 ATTATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 9 0.24
17 3 0.08
18 6 0.16
19 20 0.53
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AAATTTAAATTTTAATTT
Found at i:1029545 original size:10 final size:10
Alignment explanation
Indices: 1029515--1029565 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
1029505 AATTTAAATT
1029515 TTAAATTTAAA
1 TTAAATTT-AA
1029526 TTTAAATTTAA
1 -TTAAATTTAA
*
1029537 TTAAGTTTAA
1 TTAAATTTAA
* *
1029547 TT-TATTTAT
1 TTAAATTTAA
1029556 TTAAATTTAA
1 TTAAATTTAA
1029566 ATTATTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 16 0.50
11 2 0.06
12 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTAAATTTAA
Found at i:1029570 original size:19 final size:19
Alignment explanation
Indices: 1029504--1029576 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
1029494 TATAATTTAA
*
1029504 AAATTTAAATT-TTAAATTT
1 AAATTTAAATTATT-TATTT
*
1029523 AAATTT-AA--ATTTAATT
1 AAATTTAAATTATTTATTT
* *
1029539 AAGTTTAATTTATTTATTT
1 AAATTTAAATTATTTATTT
1029558 AAATTTAAATTA-TTATTT
1 AAATTTAAATTATTTATTT
1029576 A
1 A
1029577 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
16 8 0.19
17 3 0.07
18 9 0.21
19 23 0.53
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
AAATTTAAATTATTTATTT
Found at i:1029576 original size:22 final size:21
Alignment explanation
Indices: 1029514--1029579 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
1029504 AAATTTAAAT
*
1029514 TTTAAATTTAAATTTAAATTTA
1 TTTAAATTTAAATTT-TATTTA
* *
1029536 ATTAAGTTT-AA-TTTATTTA
1 TTTAAATTTAAATTTTATTTA
1029555 TTTAAATTTAAATTATTATTTA
1 TTTAAATTTAAATT-TTATTTA
1029577 TTT
1 TTT
1029580 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 12 0.33
20 4 0.11
21 3 0.08
22 17 0.47
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAAATTTAAATTTTATTTA
Found at i:1029852 original size:15 final size:16
Alignment explanation
Indices: 1029821--1029857 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1029811 TTAATGCCTC
1029821 AAATATTTTTTATATT
1 AAATATTTTTTATATT
*
1029837 ATATATTTTTTA-ATT
1 AAATATTTTTTATATT
1029852 AAATAT
1 AAATAT
1029858 ATGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AAATATTTTTTATATT
Found at i:1029923 original size:18 final size:19
Alignment explanation
Indices: 1029889--1029934 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
1029879 AGCATTTGAT
1029889 TATAATTT--TATTAAATA
1 TATAATTTAATATTAAATA
*
1029906 TAT-ATTTAATATTTAATA
1 TATAATTTAATATTAAATA
*
1029924 TTTAATTTAAT
1 TATAATTTAAT
1029935 TATGATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 3 0.12
18 10 0.42
19 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAATTTAATATTAAATA
Found at i:1030730 original size:31 final size:31
Alignment explanation
Indices: 1030695--1030754 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
1030685 ATTCTATATA
1030695 CATTCTTTTA-TACGATTGTTTATCGCCCACT
1 CATTC-TTTAGTACGATTGTTTATCGCCCACT
1030726 CATTCTTTAGTACGATTGTTTATCGCCCA
1 CATTCTTTAGTACGATTGTTTATCGCCCA
1030755 AAACAGGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (31 bp):
CATTCTTTAGTACGATTGTTTATCGCCCACT
Found at i:1030940 original size:19 final size:18
Alignment explanation
Indices: 1030916--1030955 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
1030906 AAATTTAATA
1030916 ATTTATATATTTATATTAT
1 ATTTATATATTT-TATTAT
1030935 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
1030953 ATT
1 ATT
1030956 ATAATCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:1031635 original size:25 final size:25
Alignment explanation
Indices: 1031607--1031679 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
1031597 ATTTAAATTA
1031607 TTATTTAATTATAAAAATAATATTT
1 TTATTTAATTATAAAAATAATATTT
** *
1031632 TTATTTAAATT-TAATTATAATATAT
1 TTATTT-AATTATAAAAATAATATTT
*
1031657 ATA-TTAA-TAT-AAAATAATATTT
1 TTATTTAATTATAAAAATAATATTT
1031679 T
1 T
1031680 AATAATATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
22 10 0.26
23 3 0.08
24 2 0.05
25 19 0.50
26 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTATTTAATTATAAAAATAATATTT
Found at i:1031851 original size:26 final size:26
Alignment explanation
Indices: 1031822--1031876 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
1031812 TAAACATGAT
1031822 ATAAAAGAGTA-ATTAAAA-TAGAATAA
1 ATAAAA-AGTATATTAAAATTA-AATAA
*
1031848 ATAAAAATTATATTAAAATTAAATAA
1 ATAAAAAGTATATTAAAATTAAATAA
1031874 ATA
1 ATA
1031877 TATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 21 0.81
27 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (26 bp):
ATAAAAAGTATATTAAAATTAAATAA
Found at i:1031857 original size:21 final size:23
Alignment explanation
Indices: 1031831--1031885 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
1031821 TATAAAAGAG
*
1031831 TAATTAAAATAGAA-TAAATAAA
1 TAATTAAAATAAAATTAAATAAA
* *
1031853 -AATTATATTAAAATTAAATAAA
1 TAATTAAAATAAAATTAAATAAA
1031875 TATATTAAAAT
1 TA-ATTAAAAT
1031886 TTATATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 10 0.40
22 8 0.32
23 1 0.04
24 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TAATTAAAATAAAATTAAATAAA
Found at i:1031884 original size:31 final size:32
Alignment explanation
Indices: 1031832--1031891 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
1031822 ATAAAAGAGT
1031832 AATTAAAATAGAATAAATAAAAATTATATTAA
1 AATTAAAATAGAATAAATAAAAATTATATTAA
* *
1031864 AATT-AAATA-AATATATTAAAATTTATAT
1 AATTAAAATAGAATA-AATAAAAATTATAT
1031892 AATATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 17 0.68
32 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (32 bp):
AATTAAAATAGAATAAATAAAAATTATATTAA
Found at i:1031896 original size:17 final size:17
Alignment explanation
Indices: 1031857--1031923 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 17
1031847 AATAAAAATT
* *
1031857 ATATTAAAATTAAATAAA
1 ATATTAAAATT-TATATA
1031875 TATATTAAAATTTATATA
1 -ATATTAAAATTTATATA
*
1031893 ATA-TAAATTATTA-ATA
1 ATATTAAAAT-TTATATA
1031909 A-ATTAAAATTTATAT
1 ATATTAAAATTTATAT
1031924 TTATATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 4 0.10
16 16 0.39
17 6 0.15
18 4 0.10
19 11 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:1032665 original size:21 final size:21
Alignment explanation
Indices: 1032641--1032681 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
1032631 TTTTTTAATT
1032641 AAAAT-TTAATTATTAAAATATA
1 AAAATATTAA-TA-TAAAATATA
1032663 AAAATATTAATATAAAATA
1 AAAATATTAATATAAAATA
1032682 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATATTAATATAAAATATA
Found at i:1033075 original size:24 final size:24
Alignment explanation
Indices: 1033044--1033089 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1033034 ATATATATTA
*
1033044 ATAT-AAAAATATAATTATTTTAAT
1 ATATAAAAAAT-TAAATATTTTAAT
1033068 ATATAAAAAATTAAATATTTTA
1 ATATAAAAAATTAAATATTTTA
1033090 TATCTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAAAAAATTAAATATTTTAAT
Found at i:1033209 original size:27 final size:28
Alignment explanation
Indices: 1033157--1033214 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
1033147 ACATATATAT
*
1033157 ATATATTTATAATTTTTTATATAA-TTA
1 ATATATTTATAATTTATTATATAATTTA
1033184 ATAT-TTTATAAATTTATTAT-TAAATTTA
1 ATATATTTAT-AATTTATTATAT-AATTTA
1033212 ATA
1 ATA
1033215 ATATAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.22
27 15 0.56
28 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATATTTATAATTTATTATATAATTTA
Found at i:1033308 original size:24 final size:25
Alignment explanation
Indices: 1033281--1033335 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
1033271 AAAATATTAT
** *
1033281 TTTTAATATATTTAATAATTAAA-A
1 TTTTAATATATCAAATAAATAAATA
**
1033305 TTTTTTTATATCAAATAAATAAATA
1 TTTTAATATATCAAATAAATAAATA
1033330 TTTTAA
1 TTTTAA
1033336 ATAAATTTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTAATATATCAAATAAATAAATA
Found at i:1033400 original size:53 final size:54
Alignment explanation
Indices: 1033309--1033417 Score: 125
Period size: 53 Copynumber: 2.0 Consensus size: 54
1033299 TTAAAATTTT
* * * * *
1033309 TTTATATCAAATAAATAAATATTTTAAATAAATTTTAAATTTAATATATA-TAA
1 TTTATATCAAATAAATAAATATATAAAATAAATATTAAATTAAATAAATATTAA
*
1033362 TTTATAT-ACATAAATAAA-ATATAAAATATAATAATTAAATTAAATAAATATTAA
1 TTTATATCAAATAAATAAATATATAAAATA-AAT-ATTAAATTAAATAAATATTAA
1033416 TT
1 TT
1033418 AAAATTACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
51 8 0.17
52 13 0.28
53 21 0.45
54 5 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (54 bp):
TTTATATCAAATAAATAAATATATAAAATAAATATTAAATTAAATAAATATTAA
Found at i:1033422 original size:16 final size:19
Alignment explanation
Indices: 1033378--1033422 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
1033368 TACATAAATA
1033378 AAATATAAAATATAATAATT
1 AAAT-TAAAATATAATAATT
1033398 AAATT-AAATA-AAT-ATT
1 AAATTAAAATATAATAATT
1033414 -AATTAAAAT
1 AAATTAAAAT
1033423 TACCATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 3 0.12
18 5 0.21
19 1 0.04
20 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTAAAATATAATAATT
Found at i:1034866 original size:13 final size:13
Alignment explanation
Indices: 1034848--1034923 Score: 70
Period size: 13 Copynumber: 6.1 Consensus size: 13
1034838 CTTTTAAAAA
1034848 TAATTATATAAAT
1 TAATTATATAAAT
*
1034861 TAATTATTTAAAT
1 TAATTATATAAAT
*
1034874 TACA-TAAATAAAT
1 TA-ATTATATAAAT
* *
1034887 T--TTTTA-AAAA
1 TAATTATATAAAT
1034897 TAATTATATAAAT
1 TAATTATATAAAT
*
1034910 TAATTAAATAAAT
1 TAATTATATAAAT
1034923 T
1 T
1034924 TATATTTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
10 4 0.08
11 2 0.04
12 4 0.08
13 38 0.78
14 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTATATAAAT
Found at i:1034875 original size:22 final size:22
Alignment explanation
Indices: 1034849--1034894 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1034839 TTTTAAAAAT
* *
1034849 AATTATATAAATTAATTATTTA
1 AATTACATAAATAAATTATTTA
*
1034871 AATTACATAAATAAATTTTTTA
1 AATTACATAAATAAATTATTTA
1034893 AA
1 AA
1034895 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTACATAAATAAATTATTTA
Found at i:1034957 original size:21 final size:21
Alignment explanation
Indices: 1034933--1034990 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1034923 TTATATTTTT
*
1034933 AATAAAAAA-TTATAATCTTAA
1 AATAAAAAATTTA-AATATTAA
1034954 AATAAAAAATTTAAATATTAA
1 AATAAAAAATTTAAATATTAA
**
1034975 AATTTAAAATTTAAAT
1 AATAAAAAATTTAAAT
1034991 TTATTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAAAAATTTAAATATTAA
Found at i:1034992 original size:13 final size:13
Alignment explanation
Indices: 1034960--1035012 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
1034950 TTAAAATAAA
*
1034960 AAATTTAAATATTA
1 AAATTTAAA-ATTT
1034974 AAATTTAAAATTT
1 AAATTTAAAATTT
1034987 AAATTTATTAAATATT
1 AAATTTA--AAAT-TT
*
1035003 AACTTTAAAA
1 AAATTTAAAA
1035013 AGTAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 10 0.29
14 12 0.35
15 4 0.12
16 8 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:1035368 original size:27 final size:29
Alignment explanation
Indices: 1035312--1035369 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
1035302 AAAAATTAAT
* *
1035312 TTAATATTTTTATTATATTATTATGAATA
1 TTAATATTTTTAATATATTATTATAAATA
1035341 TTAAT-TTTTTAATATA-TATT-TAACATA
1 TTAATATTTTTAATATATTATTATAA-ATA
1035368 TT
1 TT
1035370 TATTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.08
27 9 0.35
28 10 0.38
29 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
TTAATATTTTTAATATATTATTATAAATA
Found at i:1035456 original size:19 final size:18
Alignment explanation
Indices: 1035432--1035467 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1035422 ATTTATATTA
1035432 AAAATTAATTAAATATTTT
1 AAAATTAATTAAA-ATTTT
*
1035451 AAAATTATTTAAAATTT
1 AAAATTAATTAAAATTT
1035468 AATATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTAATTAAAATTTT
Found at i:1036776 original size:4 final size:4
Alignment explanation
Indices: 1036762--1036795 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
1036752 AATAATAAAA
*
1036762 TAAT ATAAT TAAT TAAT TAAA TAAT TAAT TAAT T
1 TAAT -TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1036796 TTGCATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
TAAT
Found at i:1039012 original size:20 final size:20
Alignment explanation
Indices: 1038984--1039058 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1038974 TCATACCCTG
1038984 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1039004 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1039024 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1039044 ATGTATCGATACATT
1 ATGTATCGATACATT
1039059 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1039051 original size:40 final size:39
Alignment explanation
Indices: 1038984--1039061 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1038974 TCATACCCTG
* *
1038984 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1039024 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1039062 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1040001 original size:23 final size:23
Alignment explanation
Indices: 1039974--1040029 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1039964 AGCCTTTGAC
1039974 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1039997 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1040019 CATGCATTTTT
1 CATGCATTTTT
1040030 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:1040036 original size:20 final size:21
Alignment explanation
Indices: 1039982--1040036 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
1039972 ACCATGCATT
**
1039982 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
1040003 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
1040025 -TTTTTAACATGT
1 TTTTTTAACATGT
1040037 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:1053791 original size:8 final size:8
Alignment explanation
Indices: 1053774--1053838 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
1053764 CTTTACACCC
1053774 AAAA-AAA
1 AAAACAAA
1053781 AAAACAAA
1 AAAACAAA
*
1053789 AAAAGAAA
1 AAAACAAA
1053797 CAAAACAAA
1 -AAAACAAA
1053806 AAAACAAA
1 AAAACAAA
1053814 AAAA-AAA
1 AAAACAAA
*
1053821 GAAA-AAA
1 AAAACAAA
* *
1053828 ATAGCAAA
1 AAAACAAA
1053836 AAA
1 AAA
1053839 TAGAAGGGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
7 14 0.29
8 27 0.56
9 7 0.15
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.02
Consensus pattern (8 bp):
AAAACAAA
Found at i:1053806 original size:28 final size:30
Alignment explanation
Indices: 1053773--1053838 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 30
1053763 CCTTTACACC
* *
1053773 CAAAAAAAAAAACAAAAAAAGAAACAAA-A-
1 CAAAAAAACAAA-AAAAAAAGAAAAAAATAG
1053802 CAAAAAAACAAAAAAAAAAGAAAAAAATAG
1 CAAAAAAACAAAAAAAAAAGAAAAAAATAG
1053832 CAAAAAA
1 CAAAAAA
1053839 TAGAAGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 14 0.42
29 12 0.36
30 7 0.21
ACGTcount: A:0.85, C:0.09, G:0.05, T:0.02
Consensus pattern (30 bp):
CAAAAAAACAAAAAAAAAAGAAAAAAATAG
Found at i:1053818 original size:17 final size:17
Alignment explanation
Indices: 1053777--1053818 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1053767 TACACCCAAA
*
1053777 AAAAAAAACAAAAAAAG
1 AAAAAAAACAAAAAAAC
*
1053794 AAACAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
1053811 AAAAAAAA
1 AAAAAAAA
1053819 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:1053826 original size:25 final size:24
Alignment explanation
Indices: 1053774--1053828 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
1053764 CTTTACACCC
1053774 AAAAAAAAAAACAAAAAAAGAAACA
1 AAAAAAAAAAACAAAAAAAGAAA-A
* *
1053799 AAACAAAAAAACAAAAAAA-AAAG
1 AAAAAAAAAAACAAAAAAAGAAAA
1053822 AAAAAAA
1 AAAAAAA
1053829 TAGCAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 3 0.11
25 18 0.67
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAACAAAAAAAGAAAA
Done.