Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold81
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: 1151237
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 79344 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:759262 original size:18 final size:18
Alignment explanation
Indices: 759186--759262 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 18
759176 AATAAAAATT
*
759186 ATTAAATTAATA-AAAAA
1 ATTAAATAAATATAAAAA
*
759203 ATTAAATTAAAAATATATTTAAA
1 ATTAAA-T--AAATATA--AAAA
**
759226 A-TAAATAATATATTTAAA
1 ATTAAATAA-ATATAAAAA
759244 ATTAAATAAATATAAAAA
1 ATTAAATAAATATAAAAA
759262 A
1 A
759263 ATTATGTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
17 6 0.13
18 14 0.30
19 9 0.19
20 8 0.17
21 2 0.04
22 4 0.09
23 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAATAAATATAAAAA
Found at i:766199 original size:16 final size:16
Alignment explanation
Indices: 766166--766226 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
766156 GATACTAGAA
766166 TTTATGTATTTATATAT
1 TTTAT-TATTTATATAT
766183 TTTATTA--TAT-TAT
1 TTTATTATTTATATAT
*
766196 TATTA-TATTTAAAATAT
1 T-TTATTATTT-ATATAT
766213 TTTA-TATTTATATA
1 TTTATTATTTATATA
766227 AATCTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 5 0.14
16 11 0.30
17 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTATTATTTATATAT
Found at i:767356 original size:20 final size:20
Alignment explanation
Indices: 767301--767357 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
767291 TTTATGAATC
**
767301 AATTTTTTATATTATATCAT
1 AATTTTTTATATTATATTTT
767321 -ATTTTTTA-ATTATATTTT
1 AATTTTTTATATTATATTTT
767339 AATTTTTTATATTATATTT
1 AATTTTTTATATTATATTT
767358 ATATTATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.24
19 16 0.48
20 9 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
AATTTTTTATATTATATTTT
Found at i:767743 original size:19 final size:19
Alignment explanation
Indices: 767721--767768 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
767711 ATAAATTTAT
767721 TTTAATAAAT-TTTTAATTA
1 TTTAATAAATATTTTAA-TA
*
767740 TTTAAAAAATAATTTTAATA
1 TTTAATAAAT-ATTTTAATA
*
767760 TTAAATAAA
1 TTTAATAAA
767769 AATTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAATAAATATTTTAATA
Found at i:767786 original size:20 final size:22
Alignment explanation
Indices: 767761--767802 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
767751 ATTTTAATAT
*
767761 TAAATAAA-AAT-TAAATATAA
1 TAAATAAATAATAAAAATATAA
767781 TAAATAAATAATAAAAATATAA
1 TAAATAAATAATAAAAATATAA
767803 ATTTGATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAATAATAAAAATATAA
Found at i:768268 original size:2 final size:2
Alignment explanation
Indices: 768261--768287 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
768251 AATGATAATT
768261 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
768288 CGTATTTTAT
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:773123 original size:20 final size:21
Alignment explanation
Indices: 773086--773124 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
773076 AAATTAAATA
*
773086 TTTATTTTTTTATTATTTTAT
1 TTTATTTTTTTATCATTTTAT
773107 TTTATTTTTTTA-CATTTT
1 TTTATTTTTTTATCATTTT
773125 TAATGCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTATTTTTTTATCATTTTAT
Found at i:773572 original size:22 final size:21
Alignment explanation
Indices: 773544--773591 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
773534 TATAATTCAA
*
773544 TTTTAAATTTTATT-TACAATAT
1 TTTTAAATATTATTAT-C-ATAT
773566 TTTTAAATATTATTATCATAT
1 TTTTAAATATTATTATCATAT
773587 TTTTA
1 TTTTA
773592 TTTTAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 14 0.58
23 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAATATTATTATCATAT
Found at i:773586 original size:21 final size:22
Alignment explanation
Indices: 773544--773591 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
773534 TATAATTCAA
*
773544 TTTTAAATTTTATTTACAATAT
1 TTTTAAATATTATTTACAATAT
773566 TTTTAAATATTA-TTATC-ATAT
1 TTTTAAATATTATTTA-CAATAT
773587 TTTTA
1 TTTTA
773592 TTTTAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAATATTATTTACAATAT
Found at i:775042 original size:33 final size:33
Alignment explanation
Indices: 775005--775089 Score: 84
Period size: 36 Copynumber: 2.5 Consensus size: 33
774995 TATATTATCA
*
775005 TATTTTTAATTTAAATAT-ATCAA-TAGTTAATTT
1 TATTTTTAATTTAAATATAAT-AATTAATT-ATTT
*
775038 TATTTATTAAAATTTAAATATAATAATTAATTTTTT
1 TATTT-TT--AATTTAAATATAATAATTAATTATTT
*
775074 TATTATTAATTTAAAT
1 TATTTTTAATTTAAAT
775090 TTTGGAGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
33 14 0.32
34 2 0.05
35 2 0.05
36 20 0.45
37 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (33 bp):
TATTTTTAATTTAAATATAATAATTAATTATTT
Found at i:775052 original size:36 final size:35
Alignment explanation
Indices: 775012--775089 Score: 99
Period size: 33 Copynumber: 2.3 Consensus size: 35
775002 TCATATTTTT
*
775012 AATTTAAATATATCAATAGTTAATTTTATTTATTA-A
1 AATTTAAATATAT-AATAATTAATTTT-TTTATTATA
*
775048 AATTT-AA-ATATAATAATTAATTTTTTTATTATT
1 AATTTAAATATATAATAATTAATTTTTTTATTATA
775081 AATTTAAAT
1 AATTTAAAT
775090 TTTGGAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
32 7 0.19
33 17 0.46
34 6 0.16
35 2 0.05
36 5 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (35 bp):
AATTTAAATATATAATAATTAATTTTTTTATTATA
Found at i:776034 original size:2 final size:2
Alignment explanation
Indices: 776027--776054 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
776017 TACTCTACAA
776027 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
776055 CACTCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:776375 original size:22 final size:22
Alignment explanation
Indices: 776349--776390 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
776339 TATTTTTATT
776349 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
776371 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
776391 ATTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:777225 original size:22 final size:22
Alignment explanation
Indices: 777190--777231 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
777180 ATTTAAAAAA
*
777190 TTATATTAATATTTATATAATT
1 TTATATTAATATTTAAATAATT
777212 TTATAATTAA-ATTTAAATAA
1 TTAT-ATTAATATTTAAATAA
777232 AAATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATTAATATTTAAATAATT
Found at i:777400 original size:3 final size:3
Alignment explanation
Indices: 777392--777426 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
777382 TTTCCAAAGA
777392 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
777427 CCAAACTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:780222 original size:2 final size:2
Alignment explanation
Indices: 780215--780243 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
780205 AGGCAACGAA
780215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
780244 CACAGTATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:782835 original size:16 final size:16
Alignment explanation
Indices: 782803--782848 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
782793 TATTTTTAAA
*
782803 ATTTTTAA-AATTATTT
1 ATTTTTAATTATT-TTT
782819 ATTTTTAATTATTTTT
1 ATTTTTAATTATTTTT
*
782835 ACTTTTAATTATTT
1 ATTTTTAATTATTT
782849 AATATCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTAATTATTTTT
Found at i:783694 original size:5 final size:5
Alignment explanation
Indices: 783684--783710 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
783674 TAAAAGAGAA
783684 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
783711 TGTTGGTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:784423 original size:16 final size:16
Alignment explanation
Indices: 784399--784456 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
784389 TACATCTTTT
*
784399 TATTAAATATTTATTA
1 TATTTAATATTTATTA
784415 TATTTAATACTTT-TTA
1 TATTTAATA-TTTATTA
* *
784431 TA-TTAAAATTTTTTA
1 TATTTAATATTTATTA
784446 -ATTT-ATATTTA
1 TATTTAATATTTA
784457 AAATTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 9 0.26
15 10 0.29
16 13 0.37
17 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTAATATTTATTA
Found at i:784452 original size:20 final size:21
Alignment explanation
Indices: 784427--784467 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
784417 TTTAATACTT
784427 TTTATA-TTAAAATTTTTTAA
1 TTTATATTTAAAATTTTTTAA
784447 TTTATATTTAAAATTTTTTAA
1 TTTATATTTAAAATTTTTTAA
784468 AATTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATATTTAAAATTTTTTAA
Found at i:784985 original size:26 final size:26
Alignment explanation
Indices: 784945--785037 Score: 68
Period size: 27 Copynumber: 3.5 Consensus size: 26
784935 TATAAATTAT
784945 ATATATTAAAT-TTTAATTAAATAAAA
1 ATAT-TTAAATATTTAATTAAATAAAA
* *
784971 ATATTTAAATATTTATTTATTATAAAA
1 ATATTTAAATATTTAATTA-AATAAAA
* * *
784998 A-ATTTTAATTATTAAATATGTAATAAAA
1 ATA-TTTAAATATTTAAT-T-AAATAAAA
785026 ATA-TT-AATATTT
1 ATATTTAAATATTT
785038 TCGATTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
25 6 0.12
26 17 0.33
27 20 0.38
28 8 0.15
29 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
ATATTTAAATATTTAATTAAATAAAA
Found at i:788689 original size:2 final size:2
Alignment explanation
Indices: 788684--788713 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
788674 ACACACACAC
*
788684 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
788714 CATCAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:789227 original size:16 final size:17
Alignment explanation
Indices: 789206--789240 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
789196 AAACTTAAAA
789206 ATATTTAA-AAATATTC
1 ATATTTAATAAATATTC
*
789222 ATATTTAATATATATTC
1 ATATTTAATAAATATTC
789239 AT
1 AT
789241 GTCTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTTAATAAATATTC
Found at i:789247 original size:17 final size:17
Alignment explanation
Indices: 789216--789249 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
789206 ATATTTAAAA
*
789216 ATATTCATATTTAATAT
1 ATATTCATATCTAATAT
*
789233 ATATTCATGTCTAATAT
1 ATATTCATATCTAATAT
789250 TTATATTTGA
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:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATTCATATCTAATAT
Found at i:789665 original size:3 final size:3
Alignment explanation
Indices: 789659--789684 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
789649 TTGAATAATA
789659 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
789685 CCAAAAAAGT
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:790137 original size:23 final size:22
Alignment explanation
Indices: 790074--790138 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
790064 ATATATTTAT
* **
790074 ATATATTTATGTTTTAATATTAA
1 ATATATTTA-GTTATAATAAAAA
* *
790097 ATATAATTAATTATTAATAAAAA
1 ATATATTTAGTTA-TAATAAAAA
790120 ATATATTTAGGTTATAATA
1 ATATATTTA-GTTATAATA
790139 TAATTTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.06
23 28 0.85
24 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATATTTAGTTATAATAAAAA
Found at i:791191 original size:20 final size:21
Alignment explanation
Indices: 791152--791197 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
791142 AAAAACAAAA
791152 ATTAAATTTTTATCTA-TTTT
1 ATTAAATTTTTATCTATTTTT
791172 ATTAAATTTTTAT-TATTTTTT
1 ATTAAATTTTTATCTA-TTTTT
791193 ATTAA
1 ATTAA
791198 TTAAATACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTAAATTTTTATCTATTTTT
Found at i:791199 original size:20 final size:20
Alignment explanation
Indices: 791152--791190 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
791142 AAAAACAAAA
791152 ATTAAATTTTTATCTATTTT
1 ATTAAATTTTTATCTATTTT
791172 ATTAAATTTTTAT-TATTTT
1 ATTAAATTTTTATCTATTTT
791191 TTATTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTAAATTTTTATCTATTTT
Found at i:792245 original size:15 final size:17
Alignment explanation
Indices: 792225--792262 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
792215 CTAATATATT
792225 TTAAAATT-T-AATTTA
1 TTAAAATTATGAATTTA
*
792240 TTAAAATTATGATTTTA
1 TTAAAATTATGAATTTA
792257 TTAAAA
1 TTAAAA
792263 AAAGTTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAAATTATGAATTTA
Found at i:793848 original size:45 final size:45
Alignment explanation
Indices: 793761--793850 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
793751 GTTGTATTAG
** *
793761 GTTCTTTGAGTGATTAATGATTATATTTTGTGAGAGGTGATGGTT
1 GTTCTTTGAGTGACCAATAATTATATTTTGTGAGAGGTGATGGTT
793806 GTTCTTTGAGTGACCAGATAATTATATTTTTGTGA-AGG-GATGGTT
1 GTTCTTTGAGTGACCA-ATAATTATA-TTTTGTGAGAGGTGATGGTT
793851 TATAATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 21 0.52
46 11 0.28
47 8 0.20
ACGTcount: A:0.23, C:0.04, G:0.28, T:0.44
Consensus pattern (45 bp):
GTTCTTTGAGTGACCAATAATTATATTTTGTGAGAGGTGATGGTT
Found at i:794662 original size:14 final size:14
Alignment explanation
Indices: 794643--794672 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
794633 AAACACGTTT
794643 TTTAACCCATTTTC
1 TTTAACCCATTTTC
*
794657 TTTAACTCATTTTC
1 TTTAACCCATTTTC
794671 TT
1 TT
794673 CAACTTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAACCCATTTTC
Found at i:796027 original size:31 final size:30
Alignment explanation
Indices: 796008--796065 Score: 66
Period size: 30 Copynumber: 1.9 Consensus size: 30
795998 AATTTTAATA
*
796008 ATAATTT-AAT-TTAATAAAATAAAATATTAT
1 ATAATTTAAATCTT-ATAAAAT-AAATTTTAT
*
796038 ATAATTTAAATCTTATAAAATAATTTTT
1 ATAATTTAAATCTTATAAAATAAATTTT
796066 TATTCTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
30 12 0.50
31 10 0.42
32 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
ATAATTTAAATCTTATAAAATAAATTTTAT
Found at i:796846 original size:22 final size:23
Alignment explanation
Indices: 796785--796847 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 23
796775 TCATATTGGA
* *
796785 TTAATTTAAATT-TTTAAAATTT
1 TTAAATTAAATTATTTTAAATTT
* * *
796807 TTTAATCAAATTA-ATTAAA-TT
1 TTAAATTAAATTATTTTAAATTT
796828 TTAAATTAAATTATTTTAAA
1 TTAAATTAAATTATTTTAAA
796848 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAAATTAAATTATTTTAAATTT
Found at i:796890 original size:14 final size:14
Alignment explanation
Indices: 796871--796905 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
796861 TCGATTTATT
796871 TTAAATTTAAATAA
1 TTAAATTTAAATAA
*
796885 TTAAATTTTAATAA
1 TTAAATTTAAATAA
796899 TTAAATT
1 TTAAATT
796906 AATCGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATTTAAATAA
Found at i:796946 original size:19 final size:19
Alignment explanation
Indices: 796922--796962 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
796912 ATTTAAATCA
796922 TTATAA-ATTAATTTAATTT
1 TTATAATATTAATTT-ATTT
*
796941 TTATAATTTTAATTTATTT
1 TTATAATATTAATTTATTT
796960 TTA
1 TTA
796963 AATCGATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATAATATTAATTTATTT
Found at i:797123 original size:19 final size:19
Alignment explanation
Indices: 797085--797123 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
797075 TAATTCGACC
* * *
797085 AAATTTGATGCTTAATTTT
1 AAATTTGATACATAAATTT
797104 AAATTTGATACATAAATTT
1 AAATTTGATACATAAATTT
797123 A
1 A
797124 TCGAATTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (19 bp):
AAATTTGATACATAAATTT
Found at i:797286 original size:5 final size:5
Alignment explanation
Indices: 797276--797314 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
797266 TTAATTTTTT
797276 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATT
797315 TGAGTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:798245 original size:22 final size:22
Alignment explanation
Indices: 798219--798263 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
798209 ATTTTTTTGA
*
798219 ATTTTATAT-TTTTTTAAAAAAT
1 ATTTT-TATCTTTTATAAAAAAT
*
798241 ATTTTTATCTTTTATAATAAAT
1 ATTTTTATCTTTTATAAAAAAT
798263 A
1 A
798264 ATTATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTATCTTTTATAAAAAAT
Found at i:799084 original size:19 final size:19
Alignment explanation
Indices: 799022--799099 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 19
799012 AGATGATTTA
*
799022 TTATATTATAAAATA-ACATA
1 TTAT-TTATAAAATATA-ATT
* *
799042 TTATATTATAAAATTTTAA-A
1 TTAT-TTATAAAA-TATAATT
799062 TTA-TTATATAAATATAATT
1 TTATTTATA-AAATATAATT
799081 TTATTTATAAAATATAATT
1 TTATTTATAAAATATAATT
799100 AAAAATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
18 9 0.18
19 16 0.32
20 22 0.44
21 2 0.04
22 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTTATAAAATATAATT
Found at i:799117 original size:16 final size:17
Alignment explanation
Indices: 799087--799121 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
799077 AATTTTATTT
799087 ATAAAATATAATTAAAA
1 ATAAAATATAATTAAAA
799104 ATAAAATA-AATTAAAA
1 ATAAAATATAATTAAAA
799120 AT
1 AT
799122 GTTCAGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATAATTAAAA
Found at i:799994 original size:22 final size:22
Alignment explanation
Indices: 799964--800006 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
799954 AAATTATTTT
*
799964 TATTTAAAT-TTAATTATAAAAA
1 TATTAAAATATTAA-TATAAAAA
799986 TATTAAAATATTAATATAAAA
1 TATTAAAATATTAATATAAAA
800007 TAATGTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTAAAATATTAATATAAAAA
Found at i:801210 original size:13 final size:13
Alignment explanation
Indices: 801192--801216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
801182 TATTAATAGA
801192 TAAGTTAAAATTT
1 TAAGTTAAAATTT
801205 TAAGTTAAAATT
1 TAAGTTAAAATT
801217 AAAATTTTTT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TAAGTTAAAATTT
Found at i:807475 original size:61 final size:61
Alignment explanation
Indices: 807380--807502 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
807370 TTCCTTTTTT
* * * *
807380 AGATTTGTACTTGTTGCATCATGTATGGTTTTATACACTGAATGTCTCCTCGATTAAATTA
1 AGATTTATACTTGTTGCATCATGTACGGTTTTATACACTGAATATCTCCTCAATTAAATTA
807441 AGATTTATACTTGTTGCATCATGTACGGTTTTATACACTGAATATCTCCTCAATTAAATTA
1 AGATTTATACTTGTTGCATCATGTACGGTTTTATACACTGAATATCTCCTCAATTAAATTA
807502 A
1 A
807503 CTCCTTTTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (61 bp):
AGATTTATACTTGTTGCATCATGTACGGTTTTATACACTGAATATCTCCTCAATTAAATTA
Found at i:815226 original size:2 final size:2
Alignment explanation
Indices: 815215--815243 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
815205 CAACTGCCAA
815215 AT AT -T 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
815244 CCAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:816781 original size:16 final size:16
Alignment explanation
Indices: 816762--816929 Score: 81
Period size: 16 Copynumber: 11.1 Consensus size: 16
816752 TCATAAATTA
*
816762 TATATTTATATTATTT
1 TATATTTATATTATAT
*
816778 TATATTTTTATTATAT
1 TATATTTATATTATAT
* *
816794 TATAATTATATT-TAA
1 TATATTTATATTATAT
*
816809 AATATTTTATATT-TAT
1 TATA-TTTATATTATAT
* * *
816825 ATAAATTT-TAATAAAT
1 -TATATTTATATTATAT
*
816841 TAATATTCATATTATA-
1 T-ATATTTATATTATAT
*
816857 TATATTT-TA--AGA-
1 TATATTTATATTATAT
* *
816869 TATATTCATATTTTAT
1 TATATTTATATTATAT
* *
816885 CATATTT-TATTAAAT
1 TATATTTATATTATAT
*
816900 T-TATGTATATTATAT
1 TATATTTATATTATAT
*
816915 T-TATATA-ATTATAT
1 TATATTTATATTATAT
816929 T
1 T
816930 TAATATTACT
Statistics
Matches: 113, Mismatches: 29, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
12 8 0.07
13 2 0.02
14 14 0.12
15 34 0.30
16 48 0.42
17 7 0.06
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (16 bp):
TATATTTATATTATAT
Found at i:816793 original size:11 final size:11
Alignment explanation
Indices: 816767--816805 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
816757 AATTATATAT
816767 TTATATTATT-
1 TTATATTATTA
*
816777 TTATATTTTTA
1 TTATATTATTA
*
816788 TTATATTATAA
1 TTATATTATTA
816799 TTATATT
1 TTATATT
816806 TAAAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATATTATTA
Found at i:816846 original size:33 final size:34
Alignment explanation
Indices: 816809--816884 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
816799 TTATATTTAA
816809 AATATTTTATATTTATATAAATTTT-A-ATAAATT
1 AATATTTTATA-TTATATAAATTTTAAGATAAATT
* * *
816842 AATA-TTCATATTATATATATTTTAAGATATATT
1 AATATTTTATATTATATAAATTTTAAGATAAATT
*
816875 CATATTTTAT
1 AATATTTTAT
816885 CATATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 12 0.34
32 6 0.17
33 13 0.37
34 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (34 bp):
AATATTTTATATTATATAAATTTTAAGATAAATT
Found at i:816864 original size:31 final size:30
Alignment explanation
Indices: 816821--816914 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 30
816811 TATTTTATAT
*
816821 TTATATAAATTTTAATAAATTAATATTCATA
1 TTATATATATTTTAATAAATT-ATATTCATA
*
816852 TTATATATATTTT-A-AGA-TATATTCATA
1 TTATATATATTTTAATAAATTATATTCATA
* *
816879 TTTTATCATATTTTATTAAATT-TATGT-ATA
1 TTATAT-ATATTTTAATAAATTATAT-TCATA
816909 TTATAT
1 TTATAT
816915 TTATATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
27 14 0.27
28 8 0.15
29 2 0.04
30 14 0.27
31 14 0.27
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
TTATATATATTTTAATAAATTATATTCATA
Found at i:816880 original size:59 final size:58
Alignment explanation
Indices: 816786--816920 Score: 145
Period size: 59 Copynumber: 2.3 Consensus size: 58
816776 TTTATATTTT
*
816786 TATTATATTATAATTATATTTAAAATATTTTATATTTATAT-AAATTTTAATAAATTAA
1 TATTATATTATAATTATATTTAAAATATTTCATATTT-TATCAAATTTTAATAAATTAA
* * *
816844 TATTCATATTAT-A-TATATTTTAAGATATATTCATATTTTATCATATTTTATTAAATT--
1 TATT-ATATTATAATTATA-TTTAAAATAT-TTCATATTTTATCAAATTTTAATAAATTAA
*
816901 TATGTATATTATATTTATAT
1 TAT-TATATTATAATTATAT
816921 AATTATATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
57 14 0.22
58 19 0.29
59 32 0.49
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (58 bp):
TATTATATTATAATTATATTTAAAATATTTCATATTTTATCAAATTTTAATAAATTAA
Found at i:817145 original size:2 final size:2
Alignment explanation
Indices: 817138--817165 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
817128 CGAAGATCCC
817138 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
817166 TTGGTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:818237 original size:11 final size:11
Alignment explanation
Indices: 818206--818244 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
818196 ATATGATTGA
818206 AAATATAATAT
1 AAATATAATAT
818217 AAA-A-AATAT
1 AAATATAATAT
818226 AAATATAATAT
1 AAATATAATAT
818237 AAATATAA
1 AAATATAA
818245 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 2 0.08
11 16 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAATAT
Found at i:818293 original size:32 final size:32
Alignment explanation
Indices: 818228--818297 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
818218 AAAAATATAA
* *
818228 ATATAATATAAATATAAATTTTTTAAAATTTT
1 ATATAATATAAATATAAATATATTAAAATTTT
* *
818260 ATATAATATAAATTATTAATATATTAATA-TTT
1 ATATAATATAAA-TATAAATATATTAAAATTTT
818292 ATATAA
1 ATATAA
818298 AAAGTAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATAATATAAATATAAATATATTAAAATTTT
Found at i:820428 original size:17 final size:18
Alignment explanation
Indices: 820399--820459 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
820389 ATAACTCTAC
820399 AAATAATATAATAATATA
1 AAATAATATAATAATATA
* *
820417 AAATAA-AAAATAATTAAA
1 AAATAATATAATAA-TATA
820435 AAATAATATAA-AATATA
1 AAATAATATAATAATATA
*
820452 ACATAATA
1 AAATAATA
820460 AAACAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 16 0.44
18 17 0.47
19 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAATATAATAATATA
Found at i:820436 original size:12 final size:12
Alignment explanation
Indices: 820399--820467 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
820389 ATAACTCTAC
820399 AAATAATATAATA
1 AAATAATATAA-A
* *
820412 ATATAAAATAAA
1 AAATAATATAAA
820424 AAATAAT-TAAA
1 AAATAATATAAA
820435 AAATAATATAAA
1 AAATAATATAAA
* *
820447 ATATAACATAATA
1 AAATAATATAA-A
*
820460 AAACAATA
1 AAATAATA
820468 ATATTTATAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
11 11 0.24
12 19 0.42
13 15 0.33
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATAATATAAA
Found at i:820440 original size:28 final size:28
Alignment explanation
Indices: 820408--820471 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
820398 CAAATAATAT
820408 AATAATATAAAATAAAAAATAATTAAAA-
1 AATAATATAAAATAAAAAATAA-TAAAAC
* *
820436 AATAATATAAAATATAACATAATAAAAC
1 AATAATATAAAATAAAAAATAATAAAAC
820464 AATAATAT
1 AATAATAT
820472 TTATACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (28 bp):
AATAATATAAAATAAAAAATAATAAAAC
Found at i:820445 original size:23 final size:25
Alignment explanation
Indices: 820399--820462 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
820389 ATAACTCTAC
*
820399 AAATAATATAATAATATAAAATAAA
1 AAATAATATAATAAAATAAAATAAA
*
820424 AAATAAT-TAA-AAAATAATATAAA
1 AAATAATATAATAAAATAAAATAAA
* *
820447 ATATAACATAATAAAA
1 AAATAATATAATAAAA
820463 CAATAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 16 0.48
24 6 0.18
25 11 0.33
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
AAATAATATAATAAAATAAAATAAA
Found at i:820651 original size:3 final size:3
Alignment explanation
Indices: 820643--820670 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
820633 TTCATATTTT
820643 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
820671 TTTTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:820687 original size:24 final size:25
Alignment explanation
Indices: 820660--820743 Score: 118
Period size: 24 Copynumber: 3.4 Consensus size: 25
820650 AATAATAATA
820660 ATAATAATAAT-TTTTTATATTTTT
1 ATAATAATAATATTTTTATATTTTT
* *
820684 ATAATAATAATAATTTTATA-TTTA
1 ATAATAATAATATTTTTATATTTTT
820708 ATAATAATAATAATTTTTATATTTTT
1 ATAATAATAAT-ATTTTTATATTTTT
820734 AATAATAATA
1 -ATAATAATA
820744 CTAACTTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
24 25 0.48
25 15 0.29
26 3 0.06
27 9 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAATAATAATATTTTTATATTTTT
Found at i:820695 original size:27 final size:26
Alignment explanation
Indices: 820657--820743 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 26
820647 AATAATAATA
820657 ATAATAATAATAATTTTTTATATTTTT
1 ATAATAATAATAA-TTTTTATATTTTT
*
820684 ATAATAATAATAA-TTTTATA-TTTA
1 ATAATAATAATAATTTTTATATTTTT
820708 ATAATAATAATAATTTTTATATTTTT
1 ATAATAATAATAATTTTTATATTTTT
820734 AATAATAATA
1 -ATAATAATA
820744 CTAACTTACA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 16 0.29
25 14 0.25
26 3 0.05
27 22 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATAATAATAATTTTTATATTTTT
Found at i:822846 original size:21 final size:22
Alignment explanation
Indices: 822813--822853 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
822803 TAAACTCAAT
*
822813 CTTAATTTAATTTAA-ATATAA
1 CTTAATTCAATTTAAGATATAA
*
822834 CTTAATTCGATTTAAGATAT
1 CTTAATTCAATTTAAGATAT
822854 GAATATCTCT
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:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (22 bp):
CTTAATTCAATTTAAGATATAA
Found at i:825427 original size:13 final size:13
Alignment explanation
Indices: 825409--825434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
825399 ATTAGTATTA
825409 AAAAATAAAAAAT
1 AAAAATAAAAAAT
825422 AAAAATAAAAAAT
1 AAAAATAAAAAAT
825435 CAATTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:827049 original size:2 final size:2
Alignment explanation
Indices: 827044--827090 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
827034 AAAAATTGGG
827044 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
827086 GA GA G
1 GA GA G
827091 CAAACCTCCA
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:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:830093 original size:26 final size:29
Alignment explanation
Indices: 830064--830121 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
830054 AAAAATATTA
830064 AAATATT-AT-TATTTTTAATTAAA-AAT
1 AAATATTAATATATTTTTAATTAAATAAT
*
830090 AAATATTAAATATTTTTTTAATTAAATAAT
1 AAATATT-AATATATTTTTAATTAAATAAT
830120 AA
1 AA
830122 TTTAAATCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 7 0.26
28 2 0.07
29 13 0.48
30 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATTAATATATTTTTAATTAAATAAT
Found at i:830126 original size:28 final size:30
Alignment explanation
Indices: 830070--830128 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
830060 ATTAAAATAT
830070 TATTATTTTTAATTAAAAATAAATATTAAA
1 TATTATTTTTAATTAAAAATAAATATTAAA
830100 TATT-TTTTTAATTAAATAAT-AAT-TTAAA
1 TATTATTTTTAATTAAA-AATAAATATTAAA
830128 T
1 T
830129 CGAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 6 0.21
29 15 0.54
30 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTATTTTTAATTAAAAATAAATATTAAA
Found at i:830381 original size:3 final size:3
Alignment explanation
Indices: 830373--830410 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
830363 AAATTGTAAA
830373 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
830411 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:830415 original size:4 final size:4
Alignment explanation
Indices: 830406--830432 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
830396 TAATAATAAT
830406 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
830433 CCAAACCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:840701 original size:14 final size:14
Alignment explanation
Indices: 840681--840715 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
840671 ATTTCTCCAT
*
840681 GGATATGGGGATAA
1 GGATATGGGCATAA
*
840695 GGCTATGGGCATAA
1 GGATATGGGCATAA
840709 GGATATG
1 GGATATG
840716 ACCTCCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.40, T:0.23
Consensus pattern (14 bp):
GGATATGGGCATAA
Found at i:842016 original size:18 final size:18
Alignment explanation
Indices: 841993--842031 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
841983 GTTGGAGAAA
*
841993 GAGCTGGAGCTAGAGCTG
1 GAGCTGGAGCCAGAGCTG
842011 GAGCTGGAGCCAGAGCTG
1 GAGCTGGAGCCAGAGCTG
842029 GAG
1 GAG
842032 GCGAGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.46, T:0.13
Consensus pattern (18 bp):
GAGCTGGAGCCAGAGCTG
Found at i:844108 original size:3 final size:3
Alignment explanation
Indices: 844102--844139 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
844092 ATCATCATCA
* *
844102 TCT TCT TCT TCC TCT TCT TCT TCT TCT TCC TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
844140 CTTATGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:844117 original size:9 final size:9
Alignment explanation
Indices: 844105--844141 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
844095 ATCATCATCT
844105 TCTTCTTCC
1 TCTTCTTCC
*
844114 TCTTCTTCT
1 TCTTCTTCC
844123 TCTTCTTCC
1 TCTTCTTCC
844132 TCTTCTTCC
1 TCTTCTTCC
844141 T
1 T
844142 TATGATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (9 bp):
TCTTCTTCC
Found at i:844635 original size:38 final size:38
Alignment explanation
Indices: 844588--844669 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
844578 AGAAACTTTC
* *
844588 AAAAGTTTATTTTATAATTTAAAAT-AAT-ATTAAATTTT
1 AAAAATTTATTTT-TAAATTAAAATGAATAATTAAA-TTT
* *
844626 AAAAATTTATTTTTAAATTAATATGTATAATTAAATTT
1 AAAAATTTATTTTTAAATTAAAATGAATAATTAAATTT
844664 AAAAAT
1 AAAAAT
844670 AATTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 9 0.24
38 23 0.61
39 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (38 bp):
AAAAATTTATTTTTAAATTAAAATGAATAATTAAATTT
Found at i:844708 original size:27 final size:27
Alignment explanation
Indices: 844678--844744 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
844668 ATAATTTTTT
844678 ATTATATAAATATTAATATT-AATTAAA
1 ATTATATAAATATTAAT-TTAAATTAAA
* *
844705 ATTAT-TAAAATATTTATTTAAATTTAA
1 ATTATAT-AAATATTAATTTAAATTAAA
*
844732 TTTAATATAAATA
1 ATT-ATATAAATA
844745 AAATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.09
27 22 0.67
28 7 0.21
29 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTATATAAATATTAATTTAAATTAAA
Found at i:844785 original size:20 final size:19
Alignment explanation
Indices: 844723--844789 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
844713 AATATTTATT
* *
844723 TAAATTTAATTTAATATAAA
1 TAAATTT-ATTAAATTTAAA
844743 TAAAATTTATTAAATTT-AA
1 T-AAATTTATTAAATTTAAA
844762 TAAA-TTATTTAAATTTTAAA
1 TAAATTTA-TTAAA-TTTAAA
844782 TAAATTTA
1 TAAATTTA
844790 ATTTATATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.08
18 8 0.20
19 6 0.15
20 14 0.35
21 9 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATTTATTAAATTTAAA
Found at i:845548 original size:29 final size:29
Alignment explanation
Indices: 845494--845556 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
845484 AAGTATTTTT
*
845494 AAAATGATATTTTAATTATATTATTTTAA
1 AAAATGATATTTTAATTACATTATTTTAA
845523 AAAATGTATATTTT-A-TACATTCATTTTAA
1 AAAATG-ATATTTTAATTACATT-ATTTTAA
*
845552 TAAAT
1 AAAAT
845557 TTAAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 18 0.60
30 7 0.23
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (29 bp):
AAAATGATATTTTAATTACATTATTTTAA
Found at i:845666 original size:32 final size:32
Alignment explanation
Indices: 845598--845682 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
845588 AAAACATTAT
** *
845598 TTTAATTAATATTTTAACAAATATCATTAAACA
1 TTTAATTAATATTTT-TTAACTATCATTAAACA
*
845631 TTTAATTAATATTTTTTAACTATTATT-AACTA
1 TTTAATTAATATTTTTTAACTATCATTAAAC-A
* * *
845663 TTTATTTTATAATTTTTAAC
1 TTTAATTAATATTTTTTAAC
845683 CAAATCCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 3 0.07
32 26 0.59
33 15 0.34
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTAATTAATATTTTTTAACTATCATTAAACA
Found at i:846785 original size:3 final size:3
Alignment explanation
Indices: 846777--846808 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
846767 AGTAAAAAAC
846777 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
846809 GGAATGAATA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:846987 original size:2 final size:2
Alignment explanation
Indices: 846980--847010 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
846970 AATGTGAATA
846980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
847011 AAGAGGTTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:850429 original size:5 final size:5
Alignment explanation
Indices: 850386--850416 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
850376 TCTTTTTATC
850386 AAATT AAATT AAATT AAATT AAATTT AAATT
1 AAATT AAATT AAATT AAATT AAA-TT AAATT
850417 CAAACAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AAATT
Found at i:851330 original size:18 final size:18
Alignment explanation
Indices: 851309--851344 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
851299 AACAAATAAA
*
851309 AAATATTTTTTAAAATTT
1 AAATAGTTTTTAAAATTT
*
851327 AAATAGTTTTTATAATTT
1 AAATAGTTTTTAAAATTT
851345 TCTGCCCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
AAATAGTTTTTAAAATTT
Found at i:851635 original size:29 final size:30
Alignment explanation
Indices: 851602--851669 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
851592 AATCAAAATT
* * * *
851602 ATATATTATATATTAT-ATATAATATTTAA
1 ATATATTATATATCATAAAAAAATATATAA
851631 ATATATT-TATATCATAAAAAAATATATAA
1 ATATATTATATATCATAAAAAAATATATAA
*
851660 ATATAATATA
1 ATATATTATA
851670 ATAAATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 7 0.22
29 23 0.72
30 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATATTATATATCATAAAAAAATATATAA
Found at i:852490 original size:23 final size:23
Alignment explanation
Indices: 852466--852511 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
852456 TAATTTTTAA
852466 TTTATTAAAAATAATATATTAAAT
1 TTTATTAAAAATAATA-ATTAAAT
* *
852490 TTTTTTTAAAATAATAATTAAA
1 TTTATTAAAAATAATAATTAAA
852512 AAATCTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATTAAAAATAATAATTAAAT
Found at i:852631 original size:15 final size:16
Alignment explanation
Indices: 852611--852643 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
852601 AATTTATGTA
*
852611 TTTATAT-TTATAATT
1 TTTATATATAATAATT
852626 TTTATATATAATAATT
1 TTTATATATAATAATT
852642 TT
1 TT
852644 ATTTTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATATATAATAATT
Found at i:854142 original size:17 final size:17
Alignment explanation
Indices: 854102--854145 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
854092 AAATTTTTTA
854102 TTTAATCAATCTAATCT
1 TTTAATCAATCTAATCT
* *
854119 ATCAATCAATCTAAAT-T
1 TTTAATCAATCT-AATCT
854136 TTTAATCAAT
1 TTTAATCAAT
854146 AATCGTTAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAATCAATCTAATCT
Found at i:854598 original size:2 final size:2
Alignment explanation
Indices: 854585--854619 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
854575 CAAGTATCAA
*
854585 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
854620 AGAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:854661 original size:15 final size:16
Alignment explanation
Indices: 854641--854674 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
854631 GAGTCAACTT
854641 AATATTAAC-CATATA
1 AATATTAACGCATATA
854656 AATATTAACGCATATA
1 AATATTAACGCATATA
854672 AAT
1 AAT
854675 CAACGATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (16 bp):
AATATTAACGCATATA
Found at i:855955 original size:61 final size:60
Alignment explanation
Indices: 855851--856297 Score: 302
Period size: 61 Copynumber: 7.4 Consensus size: 60
855841 AGGTATGGGG
* * * * * *
855851 ACCTTCCAGT-CTCAAAGAGTAGGATGC-CTTCCTTTCAAAGCCCACACAAGTTAGTGAC
1 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCTTTCAAAGCCCACACAAGTTGGTGAC
** * * * **
855909 ACCTTCTAGTCCTCAAAGAATAAGGTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGT
1 ACCTTCTAGTCCTCAAAG-AGCAGGATACTTTTTCTTTCAAAGCCCACACAAGTTGGTGAC
* * * *
855970 ACCTTCTAGTCCTCAAAGAGCATGACAC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCTTTCAAAGCCCACACAAGTTGGTGAC
* *
856029 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCCTTCTAAAGCCCACACAAGTTGATGAC
1 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCTTTC-AAAGCCCACACAAGTTGGTGAC
** ** *** * * *
856090 ACCTT-TCAGTCCTCAAAGAGCACAACGCCTTCCCCTTTTAAAGCCCACGCAAGTT-GTAGGC
1 ACCTTCT-AGTCCTCAAAGAGCAGGA-TACTTTTTCTTTCAAAGCCCACACAAGTTGGT-GAC
* * ** ** * * * ** *
856151 ACCTT-TCAGTTCTCAAAGAGTATAACGCCTTTCCTTTTTAAAAACCACACGAA-CTGGTGAC
1 ACCTTCT-AGTCCTCAAAGAGCAGGATACTTTTTC-TTTCAAAGCCCACAC-AAGTTGGTGAC
* * * *
856212 ACCATT-TAGTTCTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGT-AGC
1 ACC-TTCTAGTCCTCAAAGAGCAGGATACTTT-TTCTTTCAAAGCCCACACAAGTTGGTGA-C
*
856273 ACTTTCTAGT-CTCCAAAGAGCAGGA
1 ACCTTCTAGTCCT-CAAAGAGCAGGA
856298 CGCACTTTCT
Statistics
Matches: 310, Mismatches: 62, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
58 9 0.03
59 61 0.20
60 30 0.10
61 194 0.63
62 16 0.05
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (60 bp):
ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCTTTCAAAGCCCACACAAGTTGGTGAC
Found at i:856074 original size:120 final size:120
Alignment explanation
Indices: 855880--856297 Score: 393
Period size: 122 Copynumber: 3.5 Consensus size: 120
855870 TAGGATGCCT
* * ** * *
855880 TCCTTTCAAAGCCCACACAAGTTAGTGACACCTTCTAGTCCTCAAAGAATAAGGTTTCTTTTT-C
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAG-AGCAGGATACTTTTTCC
** *
855944 TTTTAAAGCCCACACAAGTTGGTGGTACCTTCTAGTCCTCAAAGAGCATGACACTT-
65 TTTTAAAGCCCACACAAGTTGGTGACACCTT-TAGTCCTCAAAGAGCACGACACTTC
856000 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCCT
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCCT
* * * *
856065 TCTAAAGCCCACACAAGTTGATGACACCTTTCAGTCCTCAAAGAGCACAACGCCTTC
66 TTTAAAGCCCACACAAGTTGGTGACACCTTT-AGTCCTCAAAGAGCACGAC-ACTTC
* * * * * * **
856122 CCCTTTTAAAGCCCACGCAAGTT-GTAGGCACCTT-TCAGTTCTCAAAGAGTA-TA-ACGCCTTT
1 TCCTTTCAAAGCCCACACAAGTTGGT-GGCACCTTCT-AGTCCTCAAAGAGCAGGATAC-TTTTT
** * * * **
856183 CCTTTTTAAAAACCACACGAA-CTGGTGACACCATTTAGTTCTCAAAGAGCAGGATGCTTTC
63 CC-TTTTAAAGCCCACAC-AAGTTGGTGACACC-TTTAGTCCTCAAAGAGCACGACAC-TTC
* * *
856244 TCCTTGCAAAGCCCACACAAGTTGGTAGCACTTTCTAGT-CTCCAAAGAGCAGGA
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT-CAAAGAGCAGGA
856298 CGCACTTTCT
Statistics
Matches: 244, Mismatches: 39, Indels: 27
0.79 0.13 0.09
Matches are distributed among these distances:
119 12 0.05
120 92 0.38
121 15 0.06
122 116 0.48
123 9 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (120 bp):
TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCCT
TTTAAAGCCCACACAAGTTGGTGACACCTTTAGTCCTCAAAGAGCACGACACTTC
Found at i:856294 original size:183 final size:181
Alignment explanation
Indices: 855851--856267 Score: 426
Period size: 181 Copynumber: 2.3 Consensus size: 181
855841 AGGTATGGGG
* * * * *
855851 ACCTTCCAGT-CTCAAAGAGTAGGATGCCTTC-CTTTC-AAAGCCCACACAAGTT-AGTGACACC
1 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTCTCCTTCTAAAGCCCACACAAGTTGA-TGACACC
* * * *** *
855912 -TTCTAGTCCTCAAAGA--ATAAGGTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGTACCT
65 TTTC-AGTCCTCAAAGAGCACAACG--CCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* ** * *
855974 TCTAGTCCTCAAAGAGCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
127 TCTAGTCCTCAAAGAGCATAACACTTTCCTTTCAAAAACCACACAAGCTGGTGAC
*
856029 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCCTTCTAAAGCCCACACAAGTTGATGACACCT
1 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTCTCCTTCTAAAGCCCACACAAGTTGATGACACCT
*
856094 TTCAGTCCTCAAAGAGCACAACGCCTTCCCCTTTTAAAGCCCACGCAAGTT-GTAGGCACCTT-T
66 TTCAGTCCTCAAAGAGCACAACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGT-GGCACCTTCT
* * * *
856157 CAGTTCTCAAAGAGTATAACGCCTTTCCTTTTTAAAAACCACACGAA-CTGGTGAC
130 -AGTCCTCAAAGAGCATAAC-ACTTTCC-TTTCAAAAACCACAC-AAGCTGGTGAC
* *
856212 ACCATT-TAGTTCTCAAAGAGCAGGATGCTTTCTCCTTGC-AAAGCCCACACAAGTTG
1 ACC-TTCTAGTCCTCAAAGAGCAGGATACTTTCTCCTT-CTAAAGCCCACACAAGTTG
856268 GTAGCACTTT
Statistics
Matches: 199, Mismatches: 26, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
178 9 0.05
179 17 0.09
180 7 0.04
181 81 0.41
182 10 0.05
183 70 0.35
184 5 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (181 bp):
ACCTTCTAGTCCTCAAAGAGCAGGATACTTTCTCCTTCTAAAGCCCACACAAGTTGATGACACCT
TTCAGTCCTCAAAGAGCACAACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
GTCCTCAAAGAGCATAACACTTTCCTTTCAAAAACCACACAAGCTGGTGAC
Found at i:856330 original size:40 final size:42
Alignment explanation
Indices: 856286--856422 Score: 154
Period size: 42 Copynumber: 3.3 Consensus size: 42
856276 TTCTAGTCTC
*
856286 CAAAGAGCAGGACGCACTTTCTTTCC-TTTC-CCTTTGTCCT
1 CAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCT
* * *
856326 CAAAGAGCATGATGCACTTTATTTCCTTTTCTCCTTTGTTCT
1 CAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCT
* * * *
856368 CAAAGAGCATGACACA-TTTAATTTCCTTCTTTTCTTTTGTCCT
1 CAAAGAGCAGGACGCACTTT-ATTTCCTT-TTCTCCTTTGTCCT
*
856411 CGAAGAGCAGGA
1 CAAAGAGCAGGA
856423 TGTACTCATT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 23 0.28
41 7 0.09
42 31 0.38
43 21 0.26
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (42 bp):
CAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCT
Found at i:857004 original size:61 final size:59
Alignment explanation
Indices: 856822--857268 Score: 490
Period size: 61 Copynumber: 7.4 Consensus size: 59
856812 AGGTACGGGG
* * * * *
856822 ACCTTCCAGTTCTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTCTAGTCCTCAAAGAGCAGGACCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * *
856881 ACCTTCCAGTCCTCAAAGAGTAGGACGCTTTCCTTTCAAAGTCCACACAAGTTGGTGGC
1 ACCTTCTAGTCCTCAAAGAGCAGGACCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
*
856940 ACCTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCATACAAGTTGGTGGC
1 ACCTTCTAGTCCTCAAAGAGCAGGAC-CC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
857001 ACCTT-TCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTCT-AGTCCTCAAAGAGCAGGAC-CCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
857062 ACCTT-TCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTCT-AGTCCTCAAAGAGCAGGAC-CCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC
* ** *
857123 A-CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTAAAGCCTACACGAA-TTGGTGGC
1 ACCTTCT-AGTCCTCAAAGAGCAGGAC-CCTTTCCTTTTAAAGCCCACAC-AAGTTGGTGGC
* * * * **
857183 ACCTTTTA-TCCTCAAAAAGCATGACGCTTTCTCCTTACAAAGCCCACACAAGTTGGTGGC
1 ACCTTCTAGTCCTCAAAGAGCAGGAC-CCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC
*
857243 ACCTTCTAGTCCCCAAAGAGCAGGAC
1 ACCTTCTAGTCCTCAAAGAGCAGGAC
857269 ACACTTCCTT
Statistics
Matches: 345, Mismatches: 33, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
59 100 0.29
60 59 0.17
61 186 0.54
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (59 bp):
ACCTTCTAGTCCTCAAAGAGCAGGACCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:857197 original size:181 final size:181
Alignment explanation
Indices: 856822--857268 Score: 575
Period size: 181 Copynumber: 2.5 Consensus size: 181
856812 AGGTACGGGG
* * *
856822 ACCTTCCAGTTCTCAAAGAA-CAGGACG-CTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 ACCTTTCAGTCCTCAAA-AAGCAGGACGCCTTCCCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* * *
856884 TTCCAGTCCTCAAAGAGTAGGACGCTTTCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTAG
65 TTCCAGTCCTCAAAAAGTAGGACGCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAG
*
856949 TCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCATACAAGTTGGTGGC
130 TCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* *
857001 ACCTTTCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 ACCTTTCAGTCCTCAAAAAGCAGGACGCCTTCCCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * *
857066 TTCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTC
66 TCCAGTCCTCAAAAAGTAGGACG-CTT-CCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT-
* ** *
857130 AGTCCTCAAAGAGCAGGACGCC-TTTTTTTTTAAAGCCTACACGAA-TTGGTGGC
128 AGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCACAC-AAGTTGGTGGC
* * * * *
857183 ACCTTTTA-TCCTCAAAAAGCATGACGCTTTCTCCTTACAAAGCCCACACAAGTTGGTGGCACCT
1 ACCTTTCAGTCCTCAAAAAGCAGGACGCCTTCCCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * *
857247 TCTAGTCCCCAAAGAGCAGGAC
66 TCCAGTCCTCAAAAAGTAGGAC
857269 ACACTTCCTT
Statistics
Matches: 233, Mismatches: 28, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
178 2 0.01
179 21 0.09
180 3 0.01
181 119 0.51
182 38 0.16
183 50 0.21
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (181 bp):
ACCTTTCAGTCCTCAAAAAGCAGGACGCCTTCCCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
TCCAGTCCTCAAAAAGTAGGACGCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
CCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:857243 original size:120 final size:118
Alignment explanation
Indices: 856833--857268 Score: 531
Period size: 120 Copynumber: 3.6 Consensus size: 118
856823 CCTTCCAGTT
*
856833 CTCAAAGAA-CAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
1 CTCAAA-AAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* * *
856897 AGAGTAGGACG-CTTTCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTAGTC
65 AGAGCAGGACGCCTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTTTAGTC
* * * *
856951 CTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTTCAGTCCTCA
1 CTCAAAAAGCAGGAC-GC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
* * * *
857016 AAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
64 AAGAGCAGGACGCCTT-TCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTTTAGTC
* * * *
857073 CTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCA
1 CTCAAAAAGCAGGACG-CTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
**
857138 AAGAGCAGGACGCCTTTTTTTTTAAAGCCTACACGAA-TTGGTGGCACCTTTTA-TC
64 AAGAGCAGGACGCCTTTCCTTTTAAAGCC-ACAC-AAGTTGGTGGCACCTTTTAGTC
* * *
857193 CTCAAAAAGCATGACGCTTTCTCCTTACAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCCC
1 CTCAAAAAGCAGGACGC-TT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTC
857257 AAAGAGCAGGAC
63 AAAGAGCAGGAC
857269 ACACTTCCTT
Statistics
Matches: 277, Mismatches: 30, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
117 1 0.00
118 12 0.04
119 5 0.02
120 121 0.44
121 32 0.12
122 106 0.38
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (118 bp):
CTCAAAAAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACGCCTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCTTTTAGTC
Found at i:857301 original size:41 final size:41
Alignment explanation
Indices: 857251--857428 Score: 174
Period size: 41 Copynumber: 4.4 Consensus size: 41
857241 GCACCTTCTA
* ** *
857251 GTCCCCAAAGAGCAGGACACACTTCCTTTCCCTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTAATTTCTCTTTTCCTTT
* *
857292 GTCCTCAAAGAGCAGGACGCACTTTATTT-TCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTAATTTCTCTTTTC-C-TTT
* *
857334 GTCCTCAAAGAGCAGGACACATTTAATTTTCTTCTTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTAA-TTTC-TCTTTTCCTTT
* *
857377 GTCCTCGAAGAGCAGGACACAC-T-A----T-TTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTAATTTCTCTTTTCCTTT
857411 GTCCTCAAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
857429 GCTCATTCCT
Statistics
Matches: 120, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
34 26 0.22
35 1 0.01
40 6 0.05
41 27 0.22
42 27 0.22
43 26 0.22
45 7 0.06
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACACTTAATTTCTCTTTTCCTTT
Found at i:857348 original size:42 final size:42
Alignment explanation
Indices: 857251--857410 Score: 193
Period size: 42 Copynumber: 3.8 Consensus size: 42
857241 GCACCTTCTA
* ** *
857251 GTCCCCAAAGAGCAGGACACACTTCCTTTCCCTTTTC-C-TTT
1 GTCCTCAAAGAGCAGGACACACTTTATTT-TCTTTTCTCTTTT
*
857292 GTCCTCAAAGAGCAGGACGCACTTTATTTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCTTTTCTCTTTT
*
857334 GTCCTCAAAGAGCAGGACACA-TTTAATTTTCTTCTTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTTCTT-TTCTCTTTT
* *
857377 GTCCTCGAAGAGCAGGACACACTAT-TTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCTTTT
857411 GTCCTCAAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
40 6 0.06
41 31 0.30
42 38 0.36
43 28 0.27
44 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTTCTTTTCTCTTTT
Found at i:857677 original size:971 final size:969
Alignment explanation
Indices: 855771--859062 Score: 4227
Period size: 971 Copynumber: 3.4 Consensus size: 969
855761 GTAATATTGA
* *
855771 CTGTAGACACCTAATTTTGTCAAGG-TAATTTTTTCGACAACCTGAAGCATGCTTAGATGGAGGG
1 CTGTAGACACCTAATTTTGTCAAGGCCAATTTTTTCGACAACCTGAAACATGCTTAGATGGAGGG
** * *
855835 ATCGAAAGGTATGGGGACCTTCCAGTCTCAAAGAGTAGGATGCCTTCCTTTCAAAGCCCACACAA
66 ATCGAAAGGTATGGGGACCTTCCAGTCTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACACAA
* * ** *** * *
855900 GTTAGTGACACCTTCTAGTCCTCAAAGAATAAGGTTTCTTTTTCTTTTAAAGCCCACACAAGTTG
131 GTTGGTGGCACCTTCTAGTCCTCAAAG-AGCAGGACACATTTCCTTTTAAAGCCCACACAAGTTG
* * *
855965 GTGGTACCTTCTAGTCCTCAAAGAGCATGACA-CTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
195 GTGGCACCTTCTAGTCCTCAAAAAGCAGGACACCTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * * *
856029 ACCTTCTAGTCCTCAAAGAGCAGGATACTTTTTCCTTCTAAAGCCCACACAAGTTGATGACACCT
260 ACCTTCTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
856094 TTCAGTCCTCAAAGAGCACAACGCCTTCCCCTTTTAAAGCCCACGCAAGTT-GTAGGCACCTTTC
325 TTCAGTCCTCAAAAAGCACGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGT-GGCACTTTTC
* * ** * * * * * *
856158 AGTTCTCAAAGAGTATAACGCCTTTCCTTTTTAAAAACCACACGAACTGGTGACACCATTTAGTT
389 AGTCCTCAAAGAGCAGGACGCCTTT-CTTTTTTAAAGCCACACGAATTGGTGGCACCTTTTAGTC
* * *
856223 CTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTAGCACTTTCTAGTCTCCA
453 CTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACATTCTAGTCTCCA
* * *
856288 AAGAGCAGGACGCACTTTCTTTCCTTTCCCTTTGTCCTCAAAGAGCATGATGCACTTTATTTCCT
518 AAGAGCAGGACGCAC-TTCTTTCCTTTTCCTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCCT
* *
856353 TTTCTCCTTTGTTCTCAAAGAGCATGACACATTTAATTTCCTTCTTTTCTTTTGTCCTCGAAGAG
582 TTTCTCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCTTTTGTCCTCGAAGAG
* * * * *
856418 CAGGATGTACTCA-TTTTCCTTTGTCCTCAAAGAGTAGGATGCCCCTTCTTTTTCTTTCCCCTTC
647 CAGGACGTACT-ATTTTTCCTTTGTCCTCAAAGAGCAGGACGCTCCTTCCTTTTCTTTCCCCTTC
856482 TAAAGTCTGCACAAGTTGGCAGCACCCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAAAG
711 TAAAGTCTGCACAAGTTGGCAGCACCCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAAAG
* * *
856547 CCTATAGTAACCAACACCTGTCTAAAGAGGATAAGCCTTAGAAAATCTCAAAACCTAGGAGGGAA
776 CCTATAATAACCAACACCTATCTAAAGAGGACAAGCCTTAGAAAATCTCAAAACCTAGGAGGGAA
* * * * * *
856612 GACCACAAAAAAAAAATCAAATGCCGTCATTTTACATGAATCTAGCTAATCATTTTTCTACTGCG
841 GATCACAAAAAAAAAATCGAATGTCGTCATTTTACATGAATCTAGCTAAGCATTTTTCTACCGCA
* *
856677 GACAAAATGGTATCTTTTGTCTTTGCCCTGTTCTTGATACTCAGGAACGGCCAAAGAGGGGCAT
906 GACAAAATGGTGTCTTTTGTCTTTGCCCTGTTCTTGATACTCAGGAACGGCCAAAGAGGGGCAG
* * *
856741 CTGTAGACACCTAATTTTGTTC-GGGCTAATTTTTTCGACAACCTAAAACATGCTTAGATGGAGG
1 CTGTAGACACCTAATTTTG-TCAAGGCCAATTTTTTCGACAACCTGAAACATGCTTAGATGGAGG
*
856805 GATCGAAAGGTACGGGGACCTTCCAGTTCTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACAC
65 GATCGAAAGGTATGGGGACCTTCCAG-TCTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACAC
* * * * *
856870 AAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGC-TTTCCTTTCAAAGTCCACACAAGTT
129 AAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACATTTCCTTTTAAAGCCCACACAAGTT
* * *
856934 GGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCCATACAAGTTGGTG
194 GGTGGCACCTTCTAGTCCTCAAAAAGCAGGACACC-TTTCCTTTCAAAGCCCACACAAGTTGGTG
* * * *
856999 GCACCTT-TCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCA
258 GCACCTTCT-AGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
857063 CCTTTCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
322 CCTTTCAGTCCTCAAAAAGCACGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
857128 TCAGTCCTCAAAGAGCAGGACGCCTTT-TTTTTTAAAGCCTACACGAATTGGTGGCACCTTTTA-
387 TCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTTTAAAGCC-ACACGAATTGGTGGCACCTTTTAG
* * * * *
857191 TCCTCAAAAAGCATGACGCTTTCTCCTTACAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCC
451 TCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACATTCTAGTCTC
* *
857256 CAAAGAGCAGGACACACTTCCTTTCCCTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTT
516 CAAAGAGCAGGACGCACTT-CTTT-CCTTTTCCTTTGTCCTCAAAGAGCAAGACGCACTTTATTT
* * * *
857321 TCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACATTTAATTTTCTTCTTTTCTTTTGTCCTCGAA
579 CCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCTTTTGTCCTCGAA
** * *
857386 GAGCAGGACACACTATTTTTCTTTTGTCCTCAAAGAGCAGGACGCTCATTCCTTTTCTTTCCCCT
644 GAGCAGGACGTACTATTTTTCCTTTGTCCTCAAAGAGCAGGACGCTCCTTCCTTTTCTTTCCCCT
*
857451 TCTAAAGTCTGCACAAGTTGGCAGCACTCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAA
709 TCTAAAGTCTGCACAAGTTGGCAGCACCCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAA
857516 AGCCTATAATAACCAACACCTATCTAAAGAGGACAAGCCTTAGAAAATCTCAAAACCTAGGAGGG
774 AGCCTATAATAACCAACACCTATCTAAAGAGGACAAGCCTTAGAAAATCTCAAAACCTAGGAGGG
* *
857581 AAGATCAAAAAAAAAAAATCGAATGTCGTCATTTTACATGAATCTAACTAAGCATTTTTCTACCG
839 AAGATCACAAAAAAAAAATCGAATGTCGTCATTTTACATGAATCTAGCTAAGCATTTTTCTACCG
* *
857646 CAGATAAAATGGTGTCTTTTGTCTTTGCCCTGTTCTTGATACTCAGGAACAGCCAAAGAGGGGCA
904 CAGACAAAATGGTGTCTTTTGTCTTTGCCCTGTTCTTGATACTCAGGAACGGCCAAAGAGGGGCA
857711 G
969 G
* * *
857712 CTGTAGACACCTGATTTTGTTC-AGACCAATTTTTTCGACAACCTGAAGCATGCTTAGATGGAGG
1 CTGTAGACACCTAATTTTG-TCAAGGCCAATTTTTTCGACAACCTGAAACATGCTTAGATGGAGG
* * * *
857776 GATCGAAAGGTATGGGGACCCTCCAAGTCTCAAAGAATAAGACACTTTCCTTTCAAAGCCCACAC
65 GATCGAAAGGTATGGGGACCTTCC-AGTCTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACAC
* * * ***
857841 AAGTTGGTGGCACCTTCTAATCTTCAAAGGGCAGGATTTATTTTCCTTTTAAAGCCCACACAAGT
129 AAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACA-TTTCCTTTTAAAGCCCACACAAGT
* * ** *
857906 TGGTGGCACCTTCCAATCCTCAAAAAGCAGGA-TGCTTTCCTTTCAAAGTCCACACAAGTTGGTG
193 TGGTGGCACCTTCTAGTCCTCAAAAAGCAGGACACCTTTCCTTTCAAAGCCCACACAAGTTGGTG
* * *
857970 GCACCTTCTAGTCCTCAAAGAGCAGGAAACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
258 GCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * * *
858035 CTTTTAATCTTCACAGAGCACGACGCCTTCCCTTTTTAAAGCCTACACAAGTTGGTGGCACTTTT
323 CTTTCAGTCCTCAAAAAGCACGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
* * * * *
858100 CAGTCCTCAAAGAGCAAGACACATTTCCTTTTTAAAGCCCACACGAATTGGTGGCATCTTTTAGT
388 CAGTCCTCAAAGAGCAGGACGCCTTTCTTTTTTAAAG-CCACACGAATTGGTGGCACCTTTTAGT
* * * *
858165 CCTCAAAGAGTAGGACGCTTTCTCCTTGCAAAGCTCACACAAGTTGGTGGCACATTTTAGTCTCG
452 CCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACATTCTAGTCTCC
* * *
858230 AAAGAGCAGAACGCGCTTCTTTTCC-TTTCCTTTTGTCCTCAAAGAGTAAGACG-ACTTTATTTC
517 AAAGAGCAGGACGCACTTC-TTTCCTTTTCC-TTTGTCCTCAAAGAGCAAGACGCACTTTATTTC
*
858293 CTTTTCTCCTTTGTCCTTAAAGAGCAAGACACATTTAATTTCCTTCTTTTCTTTTGTCCTCGAAG
580 CTTTTCTCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCTTTTGTCCTCGAAG
* * * *
858358 AGTAGGACGTACTTTTTTTCCTTTGTCCTCAAAGAGCAGGACG-TCCCTTCCTTTTCGTTCCTCT
645 AGCAGGACGTACTATTTTTCCTTTGTCCTCAAAGAGCAGGACGCT-CCTTCCTTTTCTTTCCCCT
* *
858422 TCTAAAGTCTACACAAGTTTGCAGCACCCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAA
709 TCTAAAGTCTGCACAAGTTGGCAGCACCCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAA
* * * * *
858487 AGCCTACAATAACTAACACCTATATAAAGAGGACAAGCCTTAGAAAATCTCAAAACCTAAGAGGA
774 AGCCTATAATAACCAACACCTATCTAAAGAGGACAAGCCTTAGAAAATCTCAAAACCTAGGAGGG
* * ** * * * *
858552 AAGATCACCCAAAAAAAAACCGAATGTCGTCCCTTTACATAAATCTAGCTATGCATTTTTTTGCC
839 AAGATCA-CAAAAAAAAAATCGAATGTCGTCATTTTACATGAATCTAGCTAAGCATTTTTCTACC
858617 GCAGACAAAATGGTGTCTTTTGTCTTTGTCCC-GTTCTTGATACTCAGGAACGGCCAAAGAGGGG
903 GCAGACAAAATGGTGTCTTTTGTCTTTG-CCCTGTTCTTGATACTCAGGAACGGCCAAAGAGGGG
858681 CAG
967 CAG
* * * **
858684 CTGTAGATATCTAAATTTGTCTGGGCCAATTTTTTC-AGCAA-C----ACA-----AG-T-----
1 CTGTAGACACCTAATTTTGTCAAGGCCAATTTTTTCGA-CAACCTGAAACATGCTTAGATGGAGG
* * * * * *
858732 --T-----GG--T-GGCACCTTCCAGTCCTCAAAGAGCATGACGTTTTCCTTTCAAAGTCCACAT
65 GATCGAAAGGTATGGGGACCTTCCAGT-CTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACAC
* *
858787 AAG-T--TGGCACTTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCTACACAAGT
129 AAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACA-CATTTCCTTTTAAAGCCCACACAAGT
* * * * *
858849 TGGTGGCACCTT-TCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCTACACAAGTTGG
193 TGGTGGCACCTTCT-AGTCCTCAAAAAGCAGGACACCTT-TCCTTTCAAAGCCCACACAAGTTGG
* * * * ** *
858913 TGGCA-CTTTTCAGTTCTTAAAGAGCAGGACGCCTTTCTTTTTTAAAGCCTACACGAA-TTGGTG
256 TGGCACCTTCT-AGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACAC-AAGTTGGTG
* * * * * **
858976 GCACCTTT-TGTCCTCAAAAAGCAAGAAGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCAC
319 GCACCTTTCAGTCCTCAAAAAGCACGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
859040 -CTTCTAGTCCCCAAAGAGCAGGA
384 TTTTC-AGTCCTCAAAGAGCAGGA
859063 TGCACTTCCT
Statistics
Matches: 2045, Mismatches: 244, Indels: 92
0.86 0.10 0.04
Matches are distributed among these distances:
943 79 0.04
944 67 0.03
945 80 0.04
946 43 0.02
947 1 0.00
949 2 0.00
954 1 0.00
961 1 0.00
962 2 0.00
967 2 0.00
969 2 0.00
970 163 0.08
971 1055 0.52
972 414 0.20
973 133 0.07
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (969 bp):
CTGTAGACACCTAATTTTGTCAAGGCCAATTTTTTCGACAACCTGAAACATGCTTAGATGGAGGG
ATCGAAAGGTATGGGGACCTTCCAGTCTCAAAGAACAGGACGCTTTCCTTTCAAAGCCCACACAA
GTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACATTTCCTTTTAAAGCCCACACAAGTTGG
TGGCACCTTCTAGTCCTCAAAAAGCAGGACACCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
CCTTCTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAAAGCACGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
TCCTCAAAGAGCAGGACGCCTTTCTTTTTTAAAGCCACACGAATTGGTGGCACCTTTTAGTCCTC
AAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACATTCTAGTCTCCAAAG
AGCAGGACGCACTTCTTTCCTTTTCCTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTC
TCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCTTTTGTCCTCGAAGAGCAGG
ACGTACTATTTTTCCTTTGTCCTCAAAGAGCAGGACGCTCCTTCCTTTTCTTTCCCCTTCTAAAG
TCTGCACAAGTTGGCAGCACCCATAAAGCCCACACAAGTTGGTGGCAAACCTTTCCAAAGCCTAT
AATAACCAACACCTATCTAAAGAGGACAAGCCTTAGAAAATCTCAAAACCTAGGAGGGAAGATCA
CAAAAAAAAAATCGAATGTCGTCATTTTACATGAATCTAGCTAAGCATTTTTCTACCGCAGACAA
AATGGTGTCTTTTGTCTTTGCCCTGTTCTTGATACTCAGGAACGGCCAAAGAGGGGCAG
Found at i:858011 original size:120 final size:119
Alignment explanation
Indices: 857820--858238 Score: 475
Period size: 122 Copynumber: 3.5 Consensus size: 119
857810 GAATAAGACA
* * * ***
857820 CTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAATCTTCAAAGGGCAGGATTTATTTT
1 CTTTCCTTTCAAAG-CCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAAACATTTT
* ** * *
857885 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAAAGCAGGATG
65 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATCCTCAAAGAGCAGGACG
*
857940 CTTTCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAAACCTTTT
1 CTTTCCTTTCAAAG-CCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAAACATTTT
* * *
858005 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATCTTCACAGAGCACGACG
65 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATCCTCAAAGAGCAGGACG
* * * * *
858060 CCTTCCCTTTTTAAAGCCTACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCAAGACACAT
1 -CTTTCC-TTTCAAAGCC-ACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGAAACAT
* * * *
858124 TTCCTTTTTAAAGCCCACACGAA-TTGGTGGCATCTTTTAGTCCTCAAAGAGTAGGACG
62 TTTCTTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTTTAATCCTCAAAGAGCAGGACG
* * *
858182 CTTTCTCCTTGCAAAGCTCACACAAGTTGGTGGCACATTTTAGT-CTCGAAAGAGCAG
1 C-TT-TCCTTTCAAAGC-CACACAAGTTGGTGGCACCTTCTAGTCCTC-AAAGAGCAG
858239 AACGCGCTTC
Statistics
Matches: 255, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
120 104 0.41
121 15 0.06
122 127 0.50
123 9 0.04
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (119 bp):
CTTTCCTTTCAAAGCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAAACATTTTC
TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATCCTCAAAGAGCAGGACG
Found at i:858223 original size:61 final size:61
Alignment explanation
Indices: 857823--858243 Score: 403
Period size: 61 Copynumber: 6.9 Consensus size: 61
857813 TAAGACACTT
* * * * * ** *
857823 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAATCTTCAAAGGGCAGGA-TTTATTT
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCT-TTC
** * * *
857884 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAAAGCAGGATGC-TT-
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
* * *
857943 TCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAAAC-CTTT-
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGG--ACGCTTTC
* * * * * *
858004 TCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATCTTCACAGAGCACGACGCCTTC
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
* * *
858065 -CCTTTTTAAAGCCTACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCAAGACACATTTC
1 TCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGACGC-TTTC
* * *
858127 -CTTTTTAAAGCCCACACGAA-TTGGTGGCATCTTTTAGTCCTCAAAGAGTAGGACGCTTTC
1 TCCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
** * * *
858187 TCCTTGCAAAGCTCACACAAGTTGGTGGCACATTTTAGT-CTCGAAAGAGCAGAACGC
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC-AAAGAGCAGGACGC
858244 GCTTCTTTTC
Statistics
Matches: 303, Mismatches: 43, Indels: 28
0.81 0.11 0.07
Matches are distributed among these distances:
59 50 0.17
60 21 0.07
61 221 0.73
62 11 0.04
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (61 bp):
TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
Found at i:858378 original size:43 final size:42
Alignment explanation
Indices: 858254--858380 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 42
858244 GCTTCTTTTC
*
858254 CTTTCCTTTTGTCCTCAAAGAGTAAGACGACTTTATTTCCTT
1 CTTTTCTTTTGTCCTCAAAGAGTAAGACGACTTTATTTCCTT
* * * *
858296 -TTCTCCTTTGTCCTTAAAGAGCAAGAC-ACATTTAATTTCCTT
1 CTTTTCTTTTGTCCTCAAAGAGTAAGACGAC-TTT-ATTTCCTT
* * *
858338 CTTTTCTTTTGTCCTCGAAGAGTAGGACGTACTTTTTTTCCTT
1 CTTTTCTTTTGTCCTCAAAGAGTAAGACG-ACTTTATTTCCTT
858381 TGTCCTCAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
40 2 0.03
41 25 0.37
42 8 0.12
43 28 0.41
44 3 0.04
45 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (42 bp):
CTTTTCTTTTGTCCTCAAAGAGTAAGACGACTTTATTTCCTT
Found at i:858871 original size:61 final size:60
Alignment explanation
Indices: 858724--859062 Score: 320
Period size: 61 Copynumber: 5.7 Consensus size: 60
858714 TTTTTCAGCA
* * ** *
858724 ACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGAC-GTTTTCCTTTCAAAGTCC-
1 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAG-CCT
*
858783 ACATAAG-T--TGGCA-CTTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCT
1 ACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACC-TTTCCTTTTAAAGCCT
* * * *
858841 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCT
1 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTT-TCCTTTTAAAGCCT
* * * * *
858902 ACACAAGTTGGTGGCACTTTTCAGTTCTTAAAGAGCAGGACGCCTTTCTTTTTTAAAGCCT
1 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC-CTTTTAAAGCCT
* * * * ** *
858963 ACACGAA-TTGGTGGCACCTTT-TGTCCTCAAAAAGCAAGA-AGCTTTCTCCTTGCAAAGCCC
1 ACAC-AAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA-CCTT-TCCTTTTAAAGCCT
*
859023 ACACAAGTTGGTGGCACC-TTCTAGTCCCCAAAGAGCAGGA
1 ACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA
859063 TGCACTTCCT
Statistics
Matches: 230, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
55 4 0.02
56 23 0.10
57 2 0.01
58 19 0.08
59 11 0.05
60 42 0.18
61 122 0.53
62 7 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCT
Found at i:859057 original size:121 final size:121
Alignment explanation
Indices: 858724--859062 Score: 388
Period size: 121 Copynumber: 2.8 Consensus size: 121
858714 TTTTTCAGCA
* * * * *
858724 ACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGACG-TTT-TCCTTTCAAAGTCCACAT
1 ACACAAGTTGGTGGCACCTT-TAGTCCTCAAAAAGCAAGACGCTTTCTCCTTTCAAAGCCCACAC
*
858787 AAG-T--TGGCACTTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCT
65 AAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCT
* * * * * *
858841 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTTAAAGCCTACAC
1 ACACAAGTTGGTGGCACCTTT-AGTCCTCAAAAAGCAAGACGCTTTCTCCTTTCAAAGCCCACAC
* * * * *
858906 AAGTTGGTGGCA-CTTTTCAGTTCTTAAAGAGCAGGACGCC-TTTCTTTTTTAAAGCCT
65 AAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACACCATTTC-CTTTTAAAGCCT
* * *
858963 ACACGAA-TTGGTGGCACCTTTTGTCCTCAAAAAGCAAGAAGCTTTCTCCTTGCAAAGCCCACAC
1 ACAC-AAGTTGGTGGCACCTTTAGTCCTCAAAAAGCAAGACGCTTTCTCCTTTCAAAGCCCACAC
*
859027 AAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAGGA
65 AAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
859063 TGCACTTCCT
Statistics
Matches: 183, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
117 37 0.20
118 2 0.01
119 16 0.09
120 1 0.01
121 68 0.37
122 57 0.31
123 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (121 bp):
ACACAAGTTGGTGGCACCTTTAGTCCTCAAAAAGCAAGACGCTTTCTCCTTTCAAAGCCCACACA
AGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCATTTCCTTTTAAAGCCT
Found at i:859109 original size:41 final size:41
Alignment explanation
Indices: 859046--859189 Score: 144
Period size: 42 Copynumber: 3.4 Consensus size: 41
859036 GCACCTTCTA
* * **
859046 GTCCCCAAAGAGCAGGATGCACTTCCTTTCCCTTTCCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTAATTTCCCTTTCCCTTT
* **
859087 GTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTAATTTCCCTTTC-CCTTT
* * * * *
859129 GTCCTCAAAGAGTAGGACACATTTAATTTCCTTCTTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTAATTTCC--CTTTCCCTTT
*
859172 GTCCTCGAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
859190 ATACTCATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 30 0.36
42 31 0.37
43 20 0.24
44 3 0.04
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACGCACTTAATTTCCCTTTCCCTTT
Found at i:859146 original size:42 final size:42
Alignment explanation
Indices: 859046--859189 Score: 150
Period size: 41 Copynumber: 3.4 Consensus size: 42
859036 GCACCTTCTA
* * ** **
859046 GTCCCCAAAGAGCAGGATGCACTTCCTTTCCCTTTC-CCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCCTTT
859087 GTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCCTTT
* * *
859129 GTCCTCAAAGAGTAGGACACA-TTTAATTTCCTTCTTT-TCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTT-CTT-TTTCTCCTTT
*
859172 GTCCTCGAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
859190 ATACTCATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 33 0.38
42 28 0.32
43 24 0.27
44 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCCTTT
Found at i:859602 original size:824 final size:822
Alignment explanation
Indices: 857940--859738 Score: 2237
Period size: 824 Copynumber: 2.2 Consensus size: 822
857930 AAGCAGGATG
* *
857940 CTTT-CCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAAACCTTT
1 CTTTACCTTTCAAAGTCCACATAAG-T--TGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTT
* * * * * * *
858004 TCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAATCTTCACAGAGCACGACGCCTTCCCTT
63 TCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCACGACGCCTTCCCCT
858069 TTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACATTTCCTTTTTA
128 TTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACATTTCCTTTTTA
* * * * *
858134 AAGCCCACACGAATTGGTGGCATCTTTTAGTCCTCAAAGAGTAGGACGCTTTCTCCTTGCAAAGC
193 AAGCCCACACGAATTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAAGCTTTCTCCTTGCAAAGC
* * * * * * *
858199 TCACACAAGTTGGTGGCACATTTTAGTCTCGAAAGAGCAGAACGCGCTTCTTTTCCTTTCCTTTT
258 CCACACAAGTTGGTGGCACATTCTAGTCCCCAAAGAGCAGAACGCACTTCTTTCCCTTTCCCTTT
* *
858264 GTCCTCAAAGAGTAAGACGACTTTATTTCCTTTTCTCCTTTGTCCTTAAAGAGCAAGACACATTT
323 GTCCTCAAAGAGCAAGACGACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACATTT
* * **
858329 AATTTCCTTCTTTTCTTTTGTCCTCGAAGAGTAGGACGTACTTTTTTTCCTTTGTCCTCAAAGAG
388 AATTTCCTTCTTTTCTTTTGTCCTCGAAGAGCAGGACATACTCATTTTCCTTTGTCCTCAAAGAG
* * * *
858394 CAGGACGTCCCTTCCTTTTCGTTCCTCTTCTAAAGTCTACACAAGTTTGCAGCACCCATAAAGCC
453 CAAGACGCCCCTTCCTTTTCGTTCCCCTTCTAAAGTCTACACAAGTTGGCAGCACCCATAAAGCC
* *
858459 CACACAAGTTGGTGGCAAACCTTTCCAAAGCCTACAATAACTAACACCTATATAAAGAGGACAAG
518 CACACAAGTTGGTAGCAAACCTTTCCAAAGCCTACAATAACCAACACCTATATAAAGAGGACAAG
* *
858524 CCTTAGAAAATCTCAAAACCTAAGAGGAAAGATCACCCAAAAAAAAACCGAATGTCGTCCCTTTA
583 CCTTAGAAAATCTCAAAACCTAAGAGGAAAGATCACACAAAAAAAAACCGAATGTCATCCCTTTA
* * *
858589 CATAAATCTAGCTATGCATTTTTTTGCCGCAGACAAAATGGTGTCTTTTGTCTTTGTCCCGTTCT
648 CATAAATCTAGCTAAGCATTTTTCTGCCGCAGACAAAATGGTGTCTTTTGTCTTTGTCCCATTCT
* * * * *
858654 TGATACTCAGGAACGGCCAAAGAGGGGCAGCTGTAGATATCTAAATTTGTCTGGGCCAATTTTTT
713 AGATACTCAGGAACAGCCAAAGAGGGGCAGCTGTAGACATCTAAATTTGTCCGAGCCAATTTTTT
* * * * *
858719 CAGCAACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGAC
778 CAGCAACACAAGATGGTAGCA-CTTCAAGGCATCAAAGAGCATGAC
* * * *
858765 GTTTTCCTTTCAAAGTCCACATAAGTTGGCACTTTCTAGTCCTCAAAGAGCAGGACACCATTTCC
1 CTTTACCTTTCAAAGTCCACATAAGTTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
* * *
858830 TTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGTAGGACGCCTTCCCCTTTT
66 TTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCACGACGCCTTCCCCTTTT
* * * * * *
858895 AAAGCCTACACAAGTTGGTGGCACTTTTCAGTTCTTAAAGAGCAGGACGCCTTTCTTTTTTAAAG
131 AAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACATTTCCTTTTTAAAG
*
858960 CCTACACGAATTGGTGGCACCTTTT-GTCCTCAAAAAGCAAGAAGCTTTCTCCTTGCAAAGCCCA
196 CCCACACGAATTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAAGCTTTCTCCTTGCAAAGCCCA
* * *
859024 CACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAGGATGCACTTCCTTTCCCTTTCCCTTTGT
261 CACAAGTTGGTGGCACATTCTAGTCCCCAAAGAGCAGAACGCACTT-CTTTCCCTTTCCCTTTGT
* * * *
859089 CCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCCTTTGTCCTCAAAGAGTAGGACACATTTA
325 CCTCAAAGAGCAAGACG-ACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACATTTA
* *
859154 ATTTCCTTCTTTTCTTTTGTCCTCGAAGAGCAGGACATACTCATTTTCTTTTGTCCTTAAAGAGC
389 ATTTCCTTCTTTTCTTTTGTCCTCGAAGAGCAGGACATACTCATTTTCCTTTGTCCTCAAAGAGC
* * *
859219 AAGACGCCCCTTCCTTTTCTTTCCCCTTCTAAAGTTTGCACAAGTTGGCAGCACCCATAAAGCCC
454 AAGACGCCCCTTCCTTTTCGTTCCCCTTCTAAAGTCTACACAAGTTGGCAGCACCCATAAAGCCC
* * * * *
859284 ACACAAGTTGGTAGCAAACCTTTCCAAAGCCTACAGTAACCAGCACCTGTCTAAAGGGGACAAGC
519 ACACAAGTTGGTAGCAAACCTTTCCAAAGCCTACAATAACCAACACCTATATAAAGAGGACAAGC
* * * *
859349 CTTAGAAAATCTCAAAATC-AAGGAGGGAAGA-C-CAC-AAAAAAAATCGAATG-CTATCCTTTT
584 CTTAGAAAATCTCAAAACCTAA-GAGGAAAGATCACACAAAAAAAAACCGAATGTC-ATCCCTTT
** * ** *
859409 ACATGCATCTAGCTAAGCATTTTTCTGTCGTGGACAAAATGGTGTCTTTTGTTTTTG-CCCTATT
647 ACATAAATCTAGCTAAGCATTTTTCTGCCGCAGACAAAATGGTGTCTTTTGTCTTTGTCCC-ATT
* * *
859473 CTAGATACTCAGGAACAGCTAAAGAGGGGCAGCTGTTGACA-CATAATTTTGTCCGAGCCAATTT
711 CTAGATACTCAGGAACAGCCAAAGAGGGGCAGCTGTAGACATC-TAAATTTGTCCGAGCCAATTT
** * * *
859537 TTTTGGCAACTTA-AAGCATGCTTAG-A-TT-AAGGGATCGAAAG-GTATAGGGAC
775 TTTCAGCAAC--ACAAG-ATG-GTAGCACTTCAAGGCATC-AAAGAGCAT---GAC
** *** * *** ** * *
859588 CTTCTAGTTTTCAAAAAGCATGATGTTTTCCTCACCTTCTAGTCCTCAAAGAGCAGGACTCTTTT
1 CTT-TACCTTTCAAAGTCCA-CATAAGTT-GGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTT
* * * *
859653 TCCTTTTAAAGCCCT-CACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCATGAC-ACTT-TCC
63 TCCTTTTAAAG-CCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCACGACGCCTTCCCC
* *
859715 TTTCAAAGCCCACACAAGTTGGTG
127 TTTTAAAGCCTACACAAGTTGGTG
859739 ACACCTTCTA
Statistics
Matches: 834, Mismatches: 121, Indels: 39
0.84 0.12 0.04
Matches are distributed among these distances:
820 12 0.01
821 139 0.17
822 78 0.09
823 216 0.26
824 280 0.34
825 11 0.01
826 95 0.11
827 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (822 bp):
CTTTACCTTTCAAAGTCCACATAAGTTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
TTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCACGACGCCTTCCCCTTTT
AAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACATTTCCTTTTTAAAG
CCCACACGAATTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAAGCTTTCTCCTTGCAAAGCCCA
CACAAGTTGGTGGCACATTCTAGTCCCCAAAGAGCAGAACGCACTTCTTTCCCTTTCCCTTTGTC
CTCAAAGAGCAAGACGACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACATTTAAT
TTCCTTCTTTTCTTTTGTCCTCGAAGAGCAGGACATACTCATTTTCCTTTGTCCTCAAAGAGCAA
GACGCCCCTTCCTTTTCGTTCCCCTTCTAAAGTCTACACAAGTTGGCAGCACCCATAAAGCCCAC
ACAAGTTGGTAGCAAACCTTTCCAAAGCCTACAATAACCAACACCTATATAAAGAGGACAAGCCT
TAGAAAATCTCAAAACCTAAGAGGAAAGATCACACAAAAAAAAACCGAATGTCATCCCTTTACAT
AAATCTAGCTAAGCATTTTTCTGCCGCAGACAAAATGGTGTCTTTTGTCTTTGTCCCATTCTAGA
TACTCAGGAACAGCCAAAGAGGGGCAGCTGTAGACATCTAAATTTGTCCGAGCCAATTTTTTCAG
CAACACAAGATGGTAGCACTTCAAGGCATCAAAGAGCATGAC
Found at i:859700 original size:61 final size:59
Alignment explanation
Indices: 859620--859766 Score: 190
Period size: 59 Copynumber: 2.5 Consensus size: 59
859610 ATGTTTTCCT
* * * *
859620 CACCTTCTAGTCCTCAAAGAGCAGGACTCTTTTTCCTTTTAAAGCCCTCACAAGTTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGACAC--TTTCCTTTCAAAGCCCACACAAGTTGGTGA
* *
859681 CACCTT-TCAGTCCTTAAAGAGCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGA
1 CACCTTCT-AGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGA
859740 CACCTTCTAGT-CTCCAAAGAGCAGGAC
1 CACCTTCTAGTCCT-CAAAGAGCAGGAC
859767 GTGCTTCCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
58 2 0.03
59 47 0.63
60 2 0.03
61 24 0.32
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (59 bp):
CACCTTCTAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGA
Found at i:860393 original size:61 final size:61
Alignment explanation
Indices: 860316--860430 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
860306 AGGATGACGC
*
860316 TTTCCTTTCAAAGCCTACACAAGTTAATGGCACCTTCTAGTCCTCAAAGAGCAGAACTCCT
1 TTTCCTTTCAAAGCCTACACAAGTTAATGGCACCTTCCAGTCCTCAAAGAGCAGAACTCCT
* * ** *
860377 TTTCCTTTTAAAGCCTACACCAGTTGGTGGCACCTTCCAGTCCTTAAAGAGCAG
1 TTTCCTTTCAAAGCCTACACAAGTTAATGGCACCTTCCAGTCCTCAAAGAGCAG
860431 GATACTATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (61 bp):
TTTCCTTTCAAAGCCTACACAAGTTAATGGCACCTTCCAGTCCTCAAAGAGCAGAACTCCT
Found at i:862148 original size:21 final size:21
Alignment explanation
Indices: 862119--862158 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
862109 AATAGTAAAA
862119 ATTTGTAAAAAAATTGTTTAGT
1 ATTTGTAAAAAAATT-TTTAGT
*
862141 ATTT-TAAAATAATTTTTA
1 ATTTGTAAAAAAATTTTTA
862159 AACATGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTGTAAAAAAATTTTTAGT
Found at i:863723 original size:13 final size:13
Alignment explanation
Indices: 863705--863788 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
863695 AGCTTCGTAG
863705 CGATACATTGTAT
1 CGATACATTGTAT
863718 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
863737 CGATACATTGTAT
1 CGATACATTGTAT
863750 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
*
863769 CGATATATTGTAT
1 CGATACATTGTAT
863782 CGATACA
1 CGATACA
863789 ACACTTATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 27 0.47
14 1 0.02
15 2 0.04
16 4 0.07
17 2 0.04
18 1 0.02
19 20 0.35
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:863737 original size:19 final size:19
Alignment explanation
Indices: 863713--863807 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
863703 AGCGATACAT
863713 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
863732 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
863745 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
863764 TGTATCGAT---ATA--T-
1 TGTATCGATACAAAACTTA
*
863777 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
863796 TGTATCGATACA
1 TGTATCGATACA
863808 GTTACGGTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 20 0.32
14 2 0.03
16 6 0.10
18 2 0.03
19 32 0.52
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:863746 original size:32 final size:32
Alignment explanation
Indices: 863705--863807 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
863695 AGCTTCGTAG
863705 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
863737 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
863769 CGATATATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
863801 CGATACA
1 CGATACA
863808 GTTACGGTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:864241 original size:61 final size:61
Alignment explanation
Indices: 864145--864346 Score: 233
Period size: 61 Copynumber: 3.3 Consensus size: 61
864135 AGCACATTCT
* * * * **
864145 AGTCCTCAAAGAGCAAGATACCTTTTCCTTCTAAAGCCTACACAAATTGGTGGTACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCTACACAAATTGGTGACACCTTTC
* * *
864206 AGTCCTCAAAGAGCAGGACACCTTCCCCTTTTAAAGCCTATACAAGTTGGTGACACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCTACACAAATTGGTGACACCTTTC
* * ** * * * * *
864267 AGTCCTCAAAAAGTAGGACGTCTTTCCTTTTTAAAGCCCACACGAACTGGTGACACCTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCTACACAAATTGGTGACACCTTTC
*
864328 AGTCCTCAAAGAGTAGGAC
1 AGTCCTCAAAGAGCAGGAC
864347 GCTTTCTCCT
Statistics
Matches: 119, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 119 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCTACACAAATTGGTGACACCTTTC
Found at i:864367 original size:61 final size:60
Alignment explanation
Indices: 864166--864408 Score: 231
Period size: 61 Copynumber: 4.0 Consensus size: 60
864156 AGCAAGATAC
* * * * * ** * *
864166 CTTTTCCTTCTAAAGCCTACACAAATTGGTGGTACCTTTCAGTCCTCAAAGAGCAGGACAC
1 CTTTCCCTTTTAAAGCCCATACAAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAGGAC-G
* * *
864227 CTTCCCCTTTTAAAGCCTATACAAGTTGGTGACACCTTTCAGTCCTCAAAAAGTAGGACG
1 CTTTCCCTTTTAAAGCCCATACAAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAGGACG
* * * *
864287 TCTTTCCTTTTTAAAGCCCACACGAA-CTGGTGACACCTTTTAGTCCTCAAAGAGTAGGACG
1 -CTTTCCCTTTTAAAGCCCATAC-AAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAGGACG
* * * *
864348 CTTTCTCCTTGTAATGCCCATACAAGTTAGTGGCACC-TTCTAGT-CTCCAAAGAGTAGGACG
1 CTTTC-CCTTTTAAAGCCCATACAAGTTGGTGACACCTTTC-AGTCCT-CAAAGAGTAGGACG
864409 AGCTTCCTTC
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
60 11 0.07
61 138 0.91
62 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (60 bp):
CTTTCCCTTTTAAAGCCCATACAAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAGGACG
Found at i:864371 original size:122 final size:121
Alignment explanation
Indices: 864168--864408 Score: 288
Period size: 122 Copynumber: 2.0 Consensus size: 121
864158 CAAGATACCT
* * **
864168 TTTCCTTCTAAAGCCTACACAAATTGGTGGTACCTTTCAGTCCTCAAAGAGCAGGACACCTTCCC
1 TTTCCTTCTAAAGCCCACACAAACTGGTGACACCTTTCAGTCCTCAAAGAGCAGGACACCTTCCC
* * *
864233 CTTTTAAAGCCTATACAAGTTGGTGACACCTT-TCAGTC-CTCAAAAAGTAGGACGTC
66 CTTGTAAAGCCCATACAAGTTAGTGACACCTTCT-AGTCTC-CAAAAAGTAGGACGTC
* * * * * * *
864289 TTTCCTTTTTAAAGCCCACACGAACTGGTGACACCTTTTAGTCCTCAAAGAGTAGGACGCTTTCT
1 TTTCC-TTCTAAAGCCCACACAAACTGGTGACACCTTTCAGTCCTCAAAGAGCAGGACACCTTCC
* * *
864354 CCTTGTAATGCCCATACAAGTTAGTGGCACCTTCTAGTCTCCAAAGAGTAGGACG
65 CCTTGTAAAGCCCATACAAGTTAGTGACACCTTCTAGTCTCCAAAAAGTAGGACG
864409 AGCTTCCTTC
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
121 5 0.05
122 93 0.93
123 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (121 bp):
TTTCCTTCTAAAGCCCACACAAACTGGTGACACCTTTCAGTCCTCAAAGAGCAGGACACCTTCCC
CTTGTAAAGCCCATACAAGTTAGTGACACCTTCTAGTCTCCAAAAAGTAGGACGTC
Found at i:864470 original size:35 final size:35
Alignment explanation
Indices: 864421--864497 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
864411 CTTCCTTCCT
* * * * *
864421 TTTCCCTTTGTCCTCAAAGAGTAAGACGCATTTTA
1 TTTCCTTTTCTCCTCAAAGAGCAAGACACATTTAA
*
864456 TTTCCTTTTCTCCTCAAAGAGCAGGACACATTTAA
1 TTTCCTTTTCTCCTCAAAGAGCAAGACACATTTAA
864491 TTTCCTT
1 TTTCCTT
864498 CTTTTCTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.39
Consensus pattern (35 bp):
TTTCCTTTTCTCCTCAAAGAGCAAGACACATTTAA
Found at i:864573 original size:35 final size:33
Alignment explanation
Indices: 864499--864576 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 33
864489 AATTTCCTTC
*
864499 TTTTCTTTTGTCCTCGAAGAGCAGGACGTACTCCT
1 TTTTC-TTTGTCCTCAAAGAGCAGGACG-ACTCCT
*
864534 TTTTCTTTGTCTTCAAAGAGCAGGAC-ACCTCCT
1 TTTTCTTTGTCCTCAAAGAGCAGGACGA-CTCCT
864567 CATTTTCTTT
1 --TTTTCTTT
864577 CCCCTTCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 1 0.03
33 5 0.13
34 19 0.50
35 13 0.34
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (33 bp):
TTTTCTTTGTCCTCAAAGAGCAGGACGACTCCT
Found at i:865034 original size:61 final size:61
Alignment explanation
Indices: 864918--865366 Score: 416
Period size: 61 Copynumber: 7.4 Consensus size: 61
864908 TCGAAAGGTA
* * * * **
864918 TGGCGACCTTCCAGTTCTCAAAGAGCATGAC-GC-TTTCCTTTCAAAGCCCTTACAAGTTGG
1 TGGC-ACCTTCTAGTCCTCAAAGAGCATGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
*
864978 TGGCACCTTCTAGTCCTCAAAGAGCAAGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
1 TGGCACCTTCTAGTCCTCAAAGAGCATGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
* * * * * *
865039 TGGCACCTTCCAGTCCTTAAAAAGCATGAC-AC-TTTCCTTTCAAAGCCCACACAAGTTTG
1 TGGCACCTTCTAGTCCTCAAAGAGCATGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
* *
865098 TGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGG
1 TGGCACCTTCTAGTCCTCAAAGAGCATGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
* * * ** *
865159 AGGCACCTT-TCAGTCCTCAAAAAGCAGGA-TGCCTTCCCCTTTTAAAGCCCACACAAGTTAG
1 TGGCACCTTCT-AGTCCTCAAAGAGCATGACT-CCTTTTCCTTTTAAAGCCCACACAAGTTGG
* * * * * * * *
865220 TGGTA-CTTTTCAGTCTTTAAAGAGTATGACACCTTTT-TTTTTAAAGCCCACACGAA-CTGG
1 TGGCACCTTCT-AGTCCTCAAAGAGCATGACTCCTTTTCCTTTTAAAGCCCACAC-AAGTTGG
* * ** *
865280 TGGCACCTTTTAATCCTCAAAGAGCATGACGT--TTTCTCCTTACAAAGCCCATACAAGTTGG
1 TGGCACCTTCTAGTCCTCAAAGAGCATGAC-TCCTTT-TCCTTTTAAAGCCCACACAAGTTGG
* * * *
865341 TGTCCCCTTCTAGTCCCCAAAAAGCA
1 TGGCACCTTCTAGTCCTCAAAGAGCA
865367 AGACGCACTT
Statistics
Matches: 318, Mismatches: 57, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
59 77 0.24
60 50 0.16
61 191 0.60
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (61 bp):
TGGCACCTTCTAGTCCTCAAAGAGCATGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
Found at i:865136 original size:120 final size:120
Alignment explanation
Indices: 864918--865370 Score: 493
Period size: 120 Copynumber: 3.7 Consensus size: 120
864908 TCGAAAGGTA
* * **
864918 TGGCGACCTTCCAGTTCTCAAAGAGCATGACGCTT-TCCTTTCAAAGCCCTTACAAGTTGGTGGC
1 TGGC-ACCTTCCAGTCCTCAAAAAGCATGAC-CTTCTCCTTTCAAAGCCCACACAAGTTGGTGGC
*
864982 ACCTTCTAGTCCTCAAAGAGCAAGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGG
64 ACCTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGG
* *
865039 TGGCACCTTCCAGTCCTTAAAAAGCATGACACTT-TCCTTTCAAAGCCCACACAAGTTTGTGGCA
1 TGGCACCTTCCAGTCCTCAAAAAGCATGAC-CTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
865103 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGG
65 CCTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGG
* * * * * * *
865159 AGGCACCTTTCAGTCCTCAAAAAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGTTAGTGGT
1 TGGCACCTTCCAGTCCTCAAAAAGCATGA--CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * * * *
865224 A-CTTTTCAGTCTTTAAAGAGTATGACACCTTTT-TTTTTAAAGCCCACACGAA-CTGG
64 ACCTTCT-AGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACAC-AAGTTGG
** * * * * * *
865280 TGGCACCTTTTAATCCTCAAAGAGCATGACGTTTTCTCCTTACAAAGCCCATACAAGTTGGTGTC
1 TGGCACCTTCCAGTCCTCAAAAAGCATGAC--CTTCTCCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
865345 CCCTTCTAGTCCCCAAAAAGCAAGAC
64 ACCTTCTAGTCCTCAAAGAGCAAGAC
865371 GCACTTTATT
Statistics
Matches: 279, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
119 1 0.00
120 132 0.47
121 91 0.33
122 55 0.20
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (120 bp):
TGGCACCTTCCAGTCCTCAAAAAGCATGACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
CTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGG
Found at i:868296 original size:79 final size:79
Alignment explanation
Indices: 868171--868955 Score: 870
Period size: 79 Copynumber: 10.0 Consensus size: 79
868161 ATTCATATTT
* *
868171 TTATTTTCGAGGGGATACTCCAACC-CAGTTTTATTTTCAAAACACCAATTTTTCACAATCGAGG
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
*
868235 ATACTCCAACCCTG
66 ATACTCCAACCCTA
** * **
868249 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCCAAAACACCAATTTTTCATAATCAAGG
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
868314 ATACTCCAACCCTA
66 ATACTCCAACCCTA
** * * ** *
868328 TTATTTTCGAAAGGATACTCCAACCCCGG-TTTATTTTCAAGACATTAATTTTTCACAATCGGGA
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
*
868392 ATACTCCAACTC-A
66 ATACTCCAACCCTA
* ** ** * ** *
868405 TTATTTCCGAGGGGATACTTTAACCTCAATTTTATTTTCAAAATATTAATTTTTTACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
868470 ATACTCCAACCCTA
66 ATACTCCAACCCTA
* * * * *
868484 TTATTTTCTAGGGGATACTCTAACCCCGGCTTTATTTTTAAAACACCAATTTTTCACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
* *
868549 ATACTCTAATCCC-G
66 ATACTCCAA-CCCTA
* * * * *
868563 TTATTTTCGAAGAGATACTCCAACCCCAGTTTTATTTTCGAAACACCAATTTTTCACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
*
868628 ATATTCCAATCCC-A
66 ATACTCCAA-CCCTA
*
868642 TTATTTTCGAGGGGATACTCCAACCGT-GGTTTTATTTTCAAAACATCAATTTTTCACAATCGGG
1 TTATTTTCGAGGGGATACTCCAACC-TCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGG
* * *
868706 GATACTCTAACCTTG
65 GATACTCCAACCCTA
* * * * * **
868721 TTATTTCCAAGGGGATACTCCAACCTTGGTTTTATTTCCAAAACACTAATTTTTCACAATCGATG
1 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
* *
868786 ATACTCCAATCCTG
66 ATACTCCAACCCTA
* * * * *
868800 TTA-TTTCTAAGGGGATACTCTAACC-CTGGTTTTATTTTCAAAATACCAATTTTCCATAATCGG
1 TTATTTTC-GAGGGGATACTCCAACCTC-GGTTTTATTTTCAAAACACCAATTTTTCACAATCGG
* *
868863 GGATACTCTAACCCCA
64 GGATACTCCAACCCTA
* * * *
868879 TTA-TTTCTGAGGGGATACTCCAA-CTCTGATTTTATTTTCAAAACATCAATTTTTCACCATTGG
1 TTATTTTC-GAGGGGATACTCCAACCTC-GGTTTTATTTTCAAAACACCAATTTTTCACAATCGG
*
868942 GGATACTCAAACCC
64 GGATACTCCAACCC
868956 CGTTATTTCT
Statistics
Matches: 596, Mismatches: 101, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
77 22 0.04
78 111 0.19
79 460 0.77
80 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCTA
Found at i:870312 original size:10 final size:10
Alignment explanation
Indices: 870297--870347 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
870287 AATTATACTT
870297 ATATTAAATA
1 ATATTAAATA
* *
870307 ATATTATATTT
1 ATATTA-AATA
870318 ATATTAAATA
1 ATATTAAATA
870328 ATAATTAAA-A
1 AT-ATTAAATA
870338 ATTATTAAAT
1 A-TATTAAAT
870348 TATTTATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 18 0.55
11 15 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATTAAATA
Found at i:870312 original size:21 final size:21
Alignment explanation
Indices: 870288--870330 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
870278 AATTATTAAA
870288 ATTATACTTATATTAAATAAT
1 ATTATACTTATATTAAATAAT
*
870309 ATTATATTTATATTAAATAAT
1 ATTATACTTATATTAAATAAT
870330 A
1 A
870331 ATTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATACTTATATTAAATAAT
Found at i:870315 original size:56 final size:55
Alignment explanation
Indices: 870250--870364 Score: 155
Period size: 56 Copynumber: 2.1 Consensus size: 55
870240 GAGTGTACAT
870250 ATATATATATATATATT-A-AATAATTAAAAATTATTAAAATTATACTTATATTAAATA
1 ATATATATATATATATTAATAATAATTAAAAATTATT-AAATTAT--TTATATTAAA-A
*
870307 ATAT-TATATTTATATTAAATAATAATTAAAAATTATTAAATTATTTATATTAAAA
1 ATATATATATATATATT-AATAATAATTAAAAATTATTAAATTATTTATATTAAAA
870362 ATA
1 ATA
870365 AATTATTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
55 4 0.07
56 21 0.39
57 4 0.07
58 8 0.15
59 17 0.31
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (55 bp):
ATATATATATATATATTAATAATAATTAAAAATTATTAAATTATTTATATTAAAA
Done.