Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold63
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: 2211945
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 524 characters in sequence are not A, C, G, or T
File 6 of 16
Found at i:885953 original size:78 final size:78
Alignment explanation
Indices: 885824--885978 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
885814 GCTAATTAAG
885824 TTGATACGGATTAAACTTTAAATAAAAATTTTAATAATTTATAGTAATTAAATTAAATTAAAATT
1 TTGATACGGATTAAACTTTAAATAAAAATTTTAATAATTTATAGTAATTAAATTAAATTAAAATT
885889 ATTATTTAATAAA
66 ATTATTTAATAAA
* * *
885902 TTGATACGGATTAAATTTTAGATAAAATTTTTAATAATTTATAGTAATTAAATTAAATTAAAATT
1 TTGATACGGATTAAACTTTAAATAAAAATTTTAATAATTTATAGTAATTAAATTAAATTAAAATT
885967 ATTATTTAATAA
66 ATTATTTAATAA
885979 TAATTTATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (78 bp):
TTGATACGGATTAAACTTTAAATAAAAATTTTAATAATTTATAGTAATTAAATTAAATTAAAATT
ATTATTTAATAAA
Found at i:885955 original size:37 final size:36
Alignment explanation
Indices: 885833--885955 Score: 106
Period size: 37 Copynumber: 3.2 Consensus size: 36
885823 GTTGATACGG
* *
885833 ATTAAACTTTAAATAAAAATTTTAATAATTTATAGTA
1 ATTAAA-TTTTAATAAAATTTTTAATAATTTATAGTA
* * *
885870 ATTAAATTAAATTAA-AATTATTATTTAATAAATTGATACG-G
1 ATTAAATT---TTAATAA-AATT-TTTAAT-AATTTATA-GTA
885911 ATTAAATTTTAGATAAAATTTTTAATAATTTATAGTA
1 ATTAAATTTTA-ATAAAATTTTTAATAATTTATAGTA
885948 ATTAAATT
1 ATTAAATT
885956 AAATTAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
36 3 0.04
37 21 0.31
38 11 0.16
39 9 0.13
40 8 0.12
41 15 0.22
42 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (36 bp):
ATTAAATTTTAATAAAATTTTTAATAATTTATAGTA
Found at i:885992 original size:15 final size:15
Alignment explanation
Indices: 885968--886000 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
885958 ATTAAAATTA
*
885968 TTATTTAATAATAAT
1 TTATTAAATAATAAT
885983 TTATTAAATAATAAT
1 TTATTAAATAATAAT
885998 TTA
1 TTA
886001 ATTTAAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTAAATAATAAT
Found at i:886246 original size:22 final size:22
Alignment explanation
Indices: 886221--886293 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
886211 ATAAATTACT
886221 ATTTAATAATAAAAATATTTAA
1 ATTTAATAATAAAAATATTTAA
*
886243 ATTTAATTATAAAAATA--TAA
1 ATTTAATAATAAAAATATTTAA
* * *
886263 AATTAAT-ATAAAATTTTTTAA
1 ATTTAATAATAAAAATATTTAA
886284 TATTTTAATA
1 -A-TTTAATA
886294 TTATTTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 7 0.17
20 9 0.22
21 3 0.07
22 17 0.41
23 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAATAATAAAAATATTTAA
Found at i:886884 original size:14 final size:16
Alignment explanation
Indices: 886847--886891 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
886837 CGAAAGTAAT
886847 ATATATAATTTTAAAAA
1 ATATAT-ATTTTAAAAA
886864 ATATATATTTTAAAAA
1 ATATATATTTTAAAAA
* *
886880 TTATATTTTTTA
1 ATATATATTTTA
886892 TTTATATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATATTTTAAAAA
Found at i:888061 original size:14 final size:14
Alignment explanation
Indices: 888023--888061 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
888013 AATTTAATTA
*
888023 ATTTATAAAATAAT
1 ATTTAAAAAATAAT
*
888037 TTTTAAAAAATAAT
1 ATTTAAAAAATAAT
*
888051 ATTTAATAAAT
1 ATTTAAAAAAT
888062 TTAATATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTAAAAAATAAT
Found at i:888526 original size:49 final size:48
Alignment explanation
Indices: 888463--888556 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 48
888453 TCACGTGTTC
* *
888463 ATATCATATTTATAT-ATTTTATAATATAATAATTATATTTTAATATAAAA
1 ATATCATAATTATATAAATTT-TAATATAATAA-TA-ATTTTAATATAAAA
* *
888513 ATAT-ATAATTATATAAATTTTAATATGATAATAATTTTATTATA
1 ATATCATAATTATATAAATTTTAATATAATAATAATTTTAATATA
888557 TAATTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
47 10 0.26
48 2 0.05
49 19 0.49
50 8 0.21
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (48 bp):
ATATCATAATTATATAAATTTTAATATAATAATAATTTTAATATAAAA
Found at i:888550 original size:17 final size:16
Alignment explanation
Indices: 888484--888560 Score: 54
Period size: 17 Copynumber: 4.7 Consensus size: 16
888474 ATATATTTTA
888484 TAATATAATAATTATATTT
1 TAATAT-ATAA-TA-ATTT
*
888503 TAATATA-AA-AATATA
1 TAATATATAATAAT-TT
888518 TAAT-TAT-ATAAATTT
1 TAATATATAAT-AATTT
888533 TAATATGATAATAATTT
1 TAATAT-ATAATAATTT
*
888550 TATTATATAAT
1 TAATATATAAT
888561 TTTTTTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
14 5 0.10
15 11 0.23
16 9 0.19
17 14 0.29
18 3 0.06
19 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (16 bp):
TAATATATAATAATTT
Found at i:890326 original size:12 final size:12
Alignment explanation
Indices: 890309--890333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
890299 TATCTAAAGC
890309 TTTTTCTTTTTT
1 TTTTTCTTTTTT
890321 TTTTTCTTTTTT
1 TTTTTCTTTTTT
890333 T
1 T
890334 GTTAACGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:891223 original size:22 final size:22
Alignment explanation
Indices: 891183--891229 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
891173 CGATAAATAT
* *
891183 TATTTTTATGTTAATATTTATA
1 TATTTTTATATTAATATTTAAA
891205 TATTTTTATAATTAA-ATTTAAA
1 TATTTTTAT-ATTAATATTTAAA
891227 TAT
1 TAT
891230 AAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTTTTATATTAATATTTAAA
Found at i:891260 original size:28 final size:28
Alignment explanation
Indices: 891194--891260 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
891184 ATTTTTATGT
*
891194 TAAT-ATTTATATATTTTTATAATTAAA
1 TAATAATTTAAATATTTTTATAATTAAA
* * *
891221 T-TTAAATATAAATATTTTTATTATTAAA
1 TAAT-AATTTAAATATTTTTATAATTAAA
891249 TAATAATTTAAA
1 TAATAATTTAAA
891261 AATTAAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 28 0.90
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TAATAATTTAAATATTTTTATAATTAAA
Found at i:892026 original size:22 final size:21
Alignment explanation
Indices: 891985--892026 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
891975 TAAATCGATT
*
891985 TATTATTTAAAAATTTAAAAA
1 TATTATTTAAAAATTAAAAAA
892006 TATTAATTTAAATAA-TAAAAA
1 TATT-ATTTAAA-AATTAAAAA
892027 TTAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTATTTAAAAATTAAAAAA
Found at i:892256 original size:5 final size:5
Alignment explanation
Indices: 892240--892298 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
892230 CATTAGTTGG
* * * *
892240 ATTTA ATCTA ATTTA A--TA ATTTA AATTA ATTAA ATTTA ATTTA AATTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
*
892288 TTATTA ATTTA
1 AT-TTA ATTTA
892299 TTAAAATAGT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
3 3 0.07
5 34 0.83
6 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (5 bp):
ATTTA
Found at i:892887 original size:19 final size:19
Alignment explanation
Indices: 892839--892878 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
892829 AACCGTCAAT
*
892839 TATTA-TATTTAA-TATGA
1 TATTATTATTAAATTATGA
892856 TATTATTATTAAATTATG-
1 TATTATTATTAAATTATGA
892874 TATTA
1 TATTA
892879 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TATTATTATTAAATTATGA
Found at i:893023 original size:19 final size:18
Alignment explanation
Indices: 892999--893040 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
892989 TAATTATGTT
892999 TAATTTTTAA-ATATTTATA
1 TAATTTTTAATATA-TTA-A
893018 TAA-TTTTAATATATTAA
1 TAATTTTTAATATATTAA
893035 TAATTT
1 TAATTT
893041 ATATTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTTTAATATATTAA
Found at i:893037 original size:17 final size:18
Alignment explanation
Indices: 893003--893040 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
892993 TATGTTTAAT
893003 TTTTAAATATTTATATAA
1 TTTTAAATATTTATATAA
893021 TTTT-AATATATTA-ATAA
1 TTTTAAATAT-TTATATAA
893038 TTT
1 TTT
893041 ATATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAAATATTTATATAA
Found at i:893076 original size:44 final size:45
Alignment explanation
Indices: 893027--893111 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 45
893017 ATAATTTTAA
*
893027 TATATTA-ATAATTTATATTATATAAATTTTAATT-TTTTTACTTT
1 TATATTATAT-ATTTATATAATATAAATTTTAATTATTTTTACTTT
* * *
893071 TATATTATATTTTTATATAATATTATTTTTAATTATTTTTA
1 TATATTATATATTTATATAATATAAATTTTAATTATTTTTA
893112 TATGATGTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 27 0.77
45 8 0.23
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (45 bp):
TATATTATATATTTATATAATATAAATTTTAATTATTTTTACTTT
Found at i:893086 original size:13 final size:13
Alignment explanation
Indices: 893068--893114 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
893058 ATTTTTTTAC
893068 TTTTATATTATAT
1 TTTTATATTATAT
*
893081 TTTTATATAATAT
1 TTTTATATTATAT
* *
893094 TATTTTTAAT-TAT
1 T-TTTATATTATAT
893107 TTTTATAT
1 TTTTATAT
893115 GATGTTCAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATATTATAT
Found at i:893393 original size:27 final size:27
Alignment explanation
Indices: 893363--893423 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
893353 ATTTAAATTT
*
893363 AAATATAAATAT-ATAATTTTTTTATAA
1 AAATA-AAATATAATAATTTTTTAATAA
** *
893390 AAATAATTTTTAATAATTTTTTAATAA
1 AAATAAAATATAATAATTTTTTAATAA
893417 AAATAAA
1 AAATAAA
893424 TAATTATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AAATAAAATATAATAATTTTTTAATAA
Found at i:895262 original size:18 final size:18
Alignment explanation
Indices: 895239--895276 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
895229 ATTAAAAATA
*
895239 TAAATATAATTTTATTAT
1 TAAATATAATTTAATTAT
*
895257 TAAATATTATTTAATTAT
1 TAAATATAATTTAATTAT
895275 TA
1 TA
895277 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATATAATTTAATTAT
Found at i:897397 original size:17 final size:17
Alignment explanation
Indices: 897368--897401 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
897358 GAAGTGAAGC
897368 AATTCTGAAAAATTTTG
1 AATTCTGAAAAATTTTG
897385 AATT-TGAATAAATTTTG
1 AATTCTGAA-AAATTTTG
897402 TTAGTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (17 bp):
AATTCTGAAAAATTTTG
Found at i:898416 original size:323 final size:323
Alignment explanation
Indices: 897828--898474 Score: 1267
Period size: 323 Copynumber: 2.0 Consensus size: 323
897818 ATAATAATTC
897828 TTCAATTGCACGCCAGTTAAGATTAGTTCTGGAAAGTTGAGTAATTTTCTTTTCTTGTGTAATAT
1 TTCAATTGCACGCCAGTTAAGATTAGTTCTGGAAAGTTGAGTAATTTTCTTTTCTTGTGTAATAT
897893 ATCCTCAGATAAGAACTTCCAATTGCATTCCCAAAACTGAAGAGGGTCATTGACTTCACAGTGAA
66 ATCCTCAGATAAGAACTTCCAATTGCATTCCCAAAACTGAAGAGGGTCATTGACTTCACAGTGAA
*
897958 TAAGTATTGTGACAAATAAATGCCTTAACTGTGGTTCAAGAGCCTATAATCTTGCTTCATTTATA
131 TAAGTATTGTGACAAATAAATGCCTTAACTGTGGTTCAAGAGCCCATAATCTTGCTTCATTTATA
898023 GCATCATTCCACTCCTTATCATCATTAATTAATCCCATTGCATAACATGCTTGCTTGAATGTTGG
196 GCATCATTCCACTCCTTATCATCATTAATTAATCCCATTGCATAACATGCTTGCTTGAATGTTGG
*
898088 GTACTCAACTCCGTCAACTGTTTTTAACTGAGCATAACTTGTAGGCCCTTTAATGATATTAAG
261 GTACTCAACTCCATCAACTGTTTTTAACTGAGCATAACTTGTAGGCCCTTTAATGATATTAAG
898151 TTCAATTGCACGCCAGTTAAGATTAGTTCTGGAAAGTTGAGTAATTTTCTTTTCTTGTGTAATAT
1 TTCAATTGCACGCCAGTTAAGATTAGTTCTGGAAAGTTGAGTAATTTTCTTTTCTTGTGTAATAT
898216 ATCCTCAGATAAGAACTTCCAATTGCATTCCCAAAACTGAAGAGGGTCATTGACTTCACAGTGAA
66 ATCCTCAGATAAGAACTTCCAATTGCATTCCCAAAACTGAAGAGGGTCATTGACTTCACAGTGAA
898281 TAAGTATTGTGACAAATAAATGCCTTAACTGTGGTTCAAGAGCCCATAATCTTGCTTCATTTATA
131 TAAGTATTGTGACAAATAAATGCCTTAACTGTGGTTCAAGAGCCCATAATCTTGCTTCATTTATA
898346 GCATCATTCCACTCCTTATCATCATTAATTAATCCCATTGCATAACATGCTTGCTTGAATGTTGG
196 GCATCATTCCACTCCTTATCATCATTAATTAATCCCATTGCATAACATGCTTGCTTGAATGTTGG
*
898411 GTACTCAACTCCATCAATTGTTTTTAACTGAGCATAACTTGTAGGCCCTTTAATGATATTAAG
261 GTACTCAACTCCATCAACTGTTTTTAACTGAGCATAACTTGTAGGCCCTTTAATGATATTAAG
898474 T
1 T
898475 AAAATCTTAA
Statistics
Matches: 321, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
323 321 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (323 bp):
TTCAATTGCACGCCAGTTAAGATTAGTTCTGGAAAGTTGAGTAATTTTCTTTTCTTGTGTAATAT
ATCCTCAGATAAGAACTTCCAATTGCATTCCCAAAACTGAAGAGGGTCATTGACTTCACAGTGAA
TAAGTATTGTGACAAATAAATGCCTTAACTGTGGTTCAAGAGCCCATAATCTTGCTTCATTTATA
GCATCATTCCACTCCTTATCATCATTAATTAATCCCATTGCATAACATGCTTGCTTGAATGTTGG
GTACTCAACTCCATCAACTGTTTTTAACTGAGCATAACTTGTAGGCCCTTTAATGATATTAAG
Found at i:899903 original size:20 final size:20
Alignment explanation
Indices: 899856--899904 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
899846 TATTTATGCT
*
899856 ATATATCATGAAAAATATTA
1 ATATATAATGAAAAATATTA
* *
899876 GTAAATAATGAAGAAATA-TA
1 ATATATAATGAA-AAATATTA
899896 ATATATAAT
1 ATATATAAT
899905 TATACATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (20 bp):
ATATATAATGAAAAATATTA
Found at i:900722 original size:35 final size:34
Alignment explanation
Indices: 900683--900802 Score: 107
Period size: 35 Copynumber: 3.3 Consensus size: 34
900673 TCTATATAGC
900683 TATATATCTATTAATTAATTTAAAATCAATGAATA
1 TATATATCTATTAATTAATTTAAAATCAAT-AATA
* * * *
900718 TATATCTCTA-TACATCTATTCTTAATGAATCTATATATC
1 TATATATCTATTA-AT-TAAT-TTAA--AATCAATA-ATA
*
900757 TATGTATCTATTAATTAATTTAAAATCAATTAATA
1 TATATATCTATTAATTAATTTAAAATCAA-TAATA
*
900792 TATATCTCTAT
1 TATATATCTAT
900803 ACATCTATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
34 2 0.03
35 27 0.41
36 5 0.08
37 8 0.12
38 4 0.06
39 18 0.27
40 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (34 bp):
TATATATCTATTAATTAATTTAAAATCAATAATA
Found at i:900745 original size:31 final size:31
Alignment explanation
Indices: 900710--900768 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
900700 ATTTAAAATC
*
900710 AATGAATATATATCTCTATACATCTATTCTT
1 AATGAATATATATATCTATACATCTATTCTT
* **
900741 AATGAATCTATATATCTATGTATCTATT
1 AATGAATATATATATCTATACATCTATT
900769 AATTAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.46
Consensus pattern (31 bp):
AATGAATATATATATCTATACATCTATTCTT
Found at i:900765 original size:74 final size:74
Alignment explanation
Indices: 900664--900811 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
900654 TTAATTAATA
*
900664 CTTATTGAATCTATATAGCTATATATCTATTAATTAATTTAAAATCAATGAATATATATCTCTAT
1 CTTAATGAATCTATATAGCTATATATCTATTAATTAATTTAAAATCAATGAATATATATCTCTAT
900729 ACATCTATT
66 ACATCTATT
* * *
900738 CTTAATGAATCTATATATCTATGTATCTATTAATTAATTTAAAATCAATTAATATATATCTCTAT
1 CTTAATGAATCTATATAGCTATATATCTATTAATTAATTTAAAATCAATGAATATATATCTCTAT
900803 ACATCTATT
66 ACATCTATT
900812 AATTAATTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (74 bp):
CTTAATGAATCTATATAGCTATATATCTATTAATTAATTTAAAATCAATGAATATATATCTCTAT
ACATCTATT
Found at i:900966 original size:63 final size:63
Alignment explanation
Indices: 900898--901212 Score: 228
Period size: 63 Copynumber: 5.0 Consensus size: 63
900888 TAATTAATTT
900898 AAAATTAATGAATATATATCTCTATAAAAAAAACTCATAATAAATATTAACATTTATGTCAAA
1 AAAATTAATGAATATATATCTCTATAAAAAAAACTCATAATAAATATTAACATTTATGTCAAA
* ** * * *
900961 AAAATTGTAT-TTTATATAT-TCTCTAAAAAAAATTCATAATAAATATTAATATTTAAT-T---A
1 AAAATT-AATGAATATATATCTCTATAAAAAAAACTCATAATAAATATTAACATTT-ATGTCAAA
* * * * * * *
901020 ATACTTAATGAATCTATATATCTATTAATTAATTAAAA-T--TAATGAATA-TATCTATTAAT-T
1 AAAATTAATGAATATATATCTCTA-TAA--AA--AAAACTCATAATAAATATTAAC-ATTTATGT
*
901080 -AATTT
60 CAA--A
901085 AAAATTAATGAATATATATCTCTAT-AAAAAAACTCATAATAAATATTAACATTTATGTCAAA
1 AAAATTAATGAATATATATCTCTATAAAAAAAACTCATAATAAATATTAACATTTATGTCAAA
* ** * * * *
901147 AAAACTGTATTTTATATAT-TTTCTAT-AAAAAACCTCATAATAAATAGTAATATTTATGTCAAA
1 AAAA-T-TAATGAATATATATCTCTATAAAAAAAACTCATAATAAATATTAACATTTATGTCAAA
901210 AAA
1 AAA
901213 TTTATATTTT
Statistics
Matches: 197, Mismatches: 33, Indels: 44
0.72 0.12 0.16
Matches are distributed among these distances:
58 2 0.01
59 15 0.08
60 4 0.02
61 10 0.05
62 61 0.31
63 66 0.34
64 15 0.08
65 24 0.12
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (63 bp):
AAAATTAATGAATATATATCTCTATAAAAAAAACTCATAATAAATATTAACATTTATGTCAAA
Found at i:901051 original size:31 final size:31
Alignment explanation
Indices: 901013--901109 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 31
901003 ATATTAATAT
* *
901013 TTAATTAATACTTAATGAATCTATATATCTA
1 TTAATTAATAATTAATGAATATATATATCTA
*
901044 TTAATTAATTAAAATTAATGAATATATCTAT-TAA
1 TTAATTAA-T--AATTAATGAATATATATATCT-A
*
901078 TTAATTTAA-AATTAATGAATATATATCTCTA
1 TTAA-TTAATAATTAATGAATATATATATCTA
901109 T
1 T
901110 AAAAAAACTC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
31 27 0.49
32 2 0.04
33 1 0.02
34 21 0.38
35 4 0.07
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (31 bp):
TTAATTAATAATTAATGAATATATATATCTA
Found at i:901071 original size:30 final size:31
Alignment explanation
Indices: 901035--901101 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
901025 TAATGAATCT
901035 ATATATCTATTAATTAA-TTAAAATTAATGA
1 ATATATCTATTAATTAATTTAAAATTAATGA
901065 ATATATCTATTAATTAATTTAAAATTAATGA
1 ATATATCTATTAATTAATTTAAAATTAATGA
901096 ATATAT
1 ATATAT
901102 ATCTCTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 17 0.47
31 19 0.53
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (31 bp):
ATATATCTATTAATTAATTTAAAATTAATGA
Found at i:901148 original size:157 final size:155
Alignment explanation
Indices: 900761--901152 Score: 353
Period size: 157 Copynumber: 2.5 Consensus size: 155
900751 TATATCTATG
* * * * *
900761 TATCTATTAATTAATTTAAAATCAATTAATATATATCTCTAT---ACATCTATTAATTAAT-TTA
1 TATCTATTAATTAATTTAAAATTAATAAATATATATCTCTATAAAAAAACTA-TAATAAATATTA
*
900822 -A-TATGATAAAAAAACTCATAATAAATATTTATATTTAATTAATACTTAATCAATCTATATATC
65 CATTATG-TAAAAAAACTCATAATAAATATTAATATTTAATTAATACTTAATCAATCTATATATC
900885 TATTAATTAATTTAAAATTAATGAATA
129 TATTAATTAATTTAAAATTAATGAATA
* * ** * * * *
900912 TATATCTCT-A-TAA-AAAAAACTCATAATAAATAT-TAACATTTATGTCAAAAAAATTGT-AT-
1 TATCTAT-TAATTAATTTAAAA-T--TAATAAATATATATC-TCTA--T-AAAAAAACTATAATA
** * * * * *
900971 TTTA-TATATTCTCTAAAAAAAATTCATAATAAATATTAATATTTAATTAATACTTAATGAATCT
58 AATATTACATTATGT-AAAAAAACTCATAATAAATATTAATATTTAATTAATACTTAATCAATCT
901035 ATATATCTATTAATTAA-TTAAAATTAATGAATA
122 ATATATCTATTAATTAATTTAAAATTAATGAATA
*
901068 TATCTATTAATTAATTTAAAATTAATGAATATATATCTCTATAAAAAAACTCATAATAAATATTA
1 TATCTATTAATTAATTTAAAATTAATAAATATATATCTCTATAAAAAAACT-ATAATAAATATT-
901133 ACATTTATGTCAAAAAAACT
64 ACA-TTATGT-AAAAAAACT
901153 GTATTTTATA
Statistics
Matches: 181, Mismatches: 35, Indels: 43
0.70 0.14 0.17
Matches are distributed among these distances:
149 4 0.02
150 4 0.02
151 9 0.05
152 20 0.11
153 2 0.01
154 3 0.02
155 18 0.10
156 30 0.17
157 72 0.40
158 19 0.10
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (155 bp):
TATCTATTAATTAATTTAAAATTAATAAATATATATCTCTATAAAAAAACTATAATAAATATTAC
ATTATGTAAAAAAACTCATAATAAATATTAATATTTAATTAATACTTAATCAATCTATATATCTA
TTAATTAATTTAAAATTAATGAATA
Found at i:901211 original size:34 final size:33
Alignment explanation
Indices: 901110--901212 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 33
901100 ATATCTCTAT
*
901110 AAAAAAACTCATAATAAATATTAACATTTATGTC
1 AAAAAAACTCATAATAAATA-TAATATTTATGTC
* * ** * *
901144 AAAAAAACT-GTATTTTATAT-AT-TTTCTAT-
1 AAAAAAACTCATAATAAATATAATATTTATGTC
*
901173 AAAAAACCTCATAATAAATAGTAATATTTATGTC
1 AAAAAAACTCATAATAAATA-TAATATTTATGTC
901207 AAAAAA
1 AAAAAA
901213 TTTATATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 10
0.68 0.19 0.14
Matches are distributed among these distances:
29 8 0.16
30 11 0.22
31 2 0.04
32 3 0.06
33 11 0.22
34 15 0.30
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (33 bp):
AAAAAAACTCATAATAAATATAATATTTATGTC
Found at i:901221 original size:63 final size:64
Alignment explanation
Indices: 901096--901227 Score: 194
Period size: 63 Copynumber: 2.1 Consensus size: 64
901086 AAATTAATGA
* *
901096 ATATATATCTCTATAAAAAAACTCATAATAAATATTAACATTTATGTCAAAAAAACTGTATTTT
1 ATATATATCTCTATAAAAAAACTCATAATAAATAGTAACATTTATGTCAAAAAAACTATATTTT
* * * **
901160 ATATAT-TTTCTATAAAAAACCTCATAATAAATAGTAATATTTATGTCAAAAAATTTATATTTT
1 ATATATATCTCTATAAAAAAACTCATAATAAATAGTAACATTTATGTCAAAAAAACTATATTTT
901223 ATATA
1 ATATA
901228 GATTATATCG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
63 55 0.90
64 6 0.10
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (64 bp):
ATATATATCTCTATAAAAAAACTCATAATAAATAGTAACATTTATGTCAAAAAAACTATATTTT
Found at i:901267 original size:10 final size:10
Alignment explanation
Indices: 901249--901278 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
901239 TATAAAATTA
901249 TTATTTAAAT
1 TTATTTAAAT
*
901259 TTATATAAAT
1 TTATTTAAAT
901269 TTATTTAAAT
1 TTATTTAAAT
901279 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTATTTAAAT
Found at i:901288 original size:20 final size:20
Alignment explanation
Indices: 901249--901288 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
901239 TATAAAATTA
** *
901249 TTATTTAAATTTATATAAAT
1 TTATTTAAATAAATAAAAAT
901269 TTATTTAAATAAATAAAAAT
1 TTATTTAAATAAATAAAAAT
901289 AAATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATTTAAATAAATAAAAAT
Found at i:901616 original size:18 final size:19
Alignment explanation
Indices: 901595--901638 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
901585 ATATAATTTA
901595 ATTATATTTAT-TTTAAAT
1 ATTATATTTATATTTAAAT
901613 ATTATA-TTATATTTAAAT
1 ATTATATTTATATTTAAAT
901631 A-TATATTT
1 ATTATATTT
901639 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATATTTATATTTAAAT
Found at i:901617 original size:31 final size:33
Alignment explanation
Indices: 901580--901642 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
901570 TTAATAATTG
*
901580 ATATTATA-TA-ATTTAATTATAT-TTATTTTAA
1 ATATTATATTATATTTAAATATATATT-TTTTAA
901611 ATATTATATTATATTTAAATATATATTTTTTA
1 ATATTATATTATATTTAAATATATATTTTTTA
901643 TTTTAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 8 0.29
32 2 0.07
33 16 0.57
34 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTATATTATATTTAAATATATATTTTTTAA
Found at i:901642 original size:15 final size:16
Alignment explanation
Indices: 901591--901642 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
901581 TATTATATAA
*
901591 TTTAATTATAT-TTAT
1 TTTAAATATATATTAT
901606 TTTAAATATTATATTAT
1 TTTAAATA-TATATTAT
901623 ATTTAAATATATATT-T
1 -TTTAAATATATATTAT
901639 TTTA
1 TTTA
901643 TTTTAATAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.33
16 4 0.12
17 10 0.30
18 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAATATATATTAT
Found at i:901644 original size:19 final size:18
Alignment explanation
Indices: 901595--901650 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
901585 ATATAATTTA
901595 ATTATA-TTTATTTTAAAT
1 ATTATATTTTA-TTTAAAT
*
901613 ATTATATTATATTTAAAT
1 ATTATATTTTATTTAAAT
* *
901631 ATATATTTTTTATTTTAAT
1 AT-TATATTTTATTTAAAT
901650 A
1 A
901651 GTGTTTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTATATTTTATTTAAAT
Found at i:912255 original size:20 final size:20
Alignment explanation
Indices: 912223--912260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
912213 ATTTAAATAT
912223 TATTTTATATTAATATTTATA
1 TATTTTATATTAA-ATTTATA
912244 TATTTT-TATTAAATTTA
1 TATTTTATATTAAATTTA
912261 AATAAGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTTATATTAAATTTATA
Found at i:917345 original size:22 final size:22
Alignment explanation
Indices: 917311--917381 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 22
917301 TCAAAATTTT
*
917311 AATTTA-ATTTTTTTA-ATTTA
1 AATTTATATTTTTTTATAATTA
917331 ATATTTATATTTTTTTATAATTA
1 A-ATTTATATTTTTTTATAATTA
917354 AATTTAAATATTTTTTTATTAATTA
1 AATTT--ATATTTTTTTA-TAATTA
917379 AAT
1 AAT
917382 AAAATTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
20 1 0.02
21 5 0.11
22 13 0.30
23 5 0.11
24 11 0.25
25 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTTATATTTTTTTATAATTA
Found at i:917351 original size:24 final size:25
Alignment explanation
Indices: 917318--917382 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
917308 TTTAATTTAA
917318 TTTTTT-TAATTTAATATTT-ATAT
1 TTTTTTATAATTTAATATTTAATAT
917341 TTTTTTATAA-TTAA-ATTTAAATAT
1 TTTTTTATAATTTAATATTT-AATAT
*
917365 TTTTTTATTAATTAAATA
1 TTTTTTA-TAATTTAATA
917383 AAATTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 4 0.11
23 10 0.29
24 14 0.40
25 3 0.09
26 3 0.09
27 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTATAATTTAATATTTAATAT
Found at i:917389 original size:21 final size:22
Alignment explanation
Indices: 917339--917389 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 22
917329 TAATATTTAT
917339 ATTTTTTTA-TAATTAAATTTAAA
1 ATTTTTTTATTAATTAAA--TAAA
917362 TATTTTTTTATTAATTAAATAAA
1 -ATTTTTTTATTAATTAAATAAA
917385 ATTTT
1 ATTTT
917390 AAATTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 4 0.15
24 9 0.35
25 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTTTTATTAATTAAATAAA
Found at i:917456 original size:14 final size:15
Alignment explanation
Indices: 917439--917468 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
917429 GTAATATAAA
917439 TAATTTT-AATAATT
1 TAATTTTAAATAATT
917453 TAATTTTAAATAATT
1 TAATTTTAAATAATT
917468 T
1 T
917469 TTATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTTTAAATAATT
Found at i:921060 original size:17 final size:17
Alignment explanation
Indices: 921038--921092 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
921028 ATTTTTTTAA
*
921038 TATTTTTGAGTTTAATT
1 TATTTTTGATTTTAATT
921055 TA-TTTTGATTTTTAA-T
1 TATTTTTGA-TTTTAATT
*
921071 TATTTTAGATTTTAATT
1 TATTTTTGATTTTAATT
*
921088 AATTT
1 TATTT
921093 AATTTAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.65
Consensus pattern (17 bp):
TATTTTTGATTTTAATT
Found at i:921062 original size:16 final size:16
Alignment explanation
Indices: 921032--921092 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
921022 TTTAAAATTT
*
921032 TTTTAATAT-TTTTGA
1 TTTTAATTTATTTTGA
*
921047 GTTTAATTTATTTTGA
1 TTTTAATTTATTTTGA
921063 TTTTTAA-TTATTTTAGA
1 -TTTTAATTTATTTT-GA
*
921080 TTTTAATTAATTT
1 TTTTAATTTATTT
921093 AATTTAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 7 0.18
16 19 0.50
17 12 0.32
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (16 bp):
TTTTAATTTATTTTGA
Found at i:921067 original size:33 final size:33
Alignment explanation
Indices: 921031--921092 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
921021 TTTTAAAATT
* *
921031 TTTTTAA-TATTTTTGAGTTTAATTTATTTTGA
1 TTTTTAATTATTTTAGAGTTTAATTAATTTTGA
*
921063 TTTTTAATTATTTTAGATTTTAATTAATTT
1 TTTTTAATTATTTTAGAGTTTAATTAATTT
921093 AATTTAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.66
Consensus pattern (33 bp):
TTTTTAATTATTTTAGAGTTTAATTAATTTTGA
Found at i:921379 original size:32 final size:31
Alignment explanation
Indices: 921323--921391 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
921313 ATATTTTTTA
921323 TATTTT-TATAAATTATAATAATATTAATAATT
1 TATTTTATATAAATTATAATAATATTAAT-A-T
* *
921355 TATTTTATATAAATTAT-ATTATATTCATAT
1 TATTTTATATAAATTATAATAATATTAATAT
921385 TATTTTA
1 TATTTTA
921392 AAAATATTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 8 0.24
31 1 0.03
32 15 0.44
33 10 0.29
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TATTTTATATAAATTATAATAATATTAATAT
Found at i:925318 original size:35 final size:35
Alignment explanation
Indices: 925269--925342 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
925259 TGATATATTT
*
925269 ATATATTATATTAT-ATTCATATTATTTTTTATGTC
1 ATATATTATATTATAATTCA-ATTATTTTTTATATC
* * *
925304 ATATTTTATATTATAATTTAATTATTTTTTGTATC
1 ATATATTATATTATAATTCAATTATTTTTTATATC
925339 ATAT
1 ATAT
925343 CCAAAGCCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 30 0.88
36 4 0.12
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (35 bp):
ATATATTATATTATAATTCAATTATTTTTTATATC
Found at i:926619 original size:17 final size:17
Alignment explanation
Indices: 926594--926629 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
926584 TTAACATTAA
*
926594 ATTTATTAAATATTATT
1 ATTTATTAAAAATTATT
*
926611 ATTTTTTAAAAATTATT
1 ATTTATTAAAAATTATT
926628 AT
1 AT
926630 ATAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTATTAAAAATTATT
Found at i:927326 original size:7 final size:7
Alignment explanation
Indices: 927295--927328 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
927285 AAAAAATTAA
927295 TAAATTT
1 TAAATTT
*
927302 TAAGTTT
1 TAAATTT
*
927309 TAAGTTT
1 TAAATTT
927316 TAAATTT
1 TAAATTT
927323 TAAATT
1 TAAATT
927329 CGTTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:927438 original size:64 final size:64
Alignment explanation
Indices: 927370--927498 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
927360 TAAACTAAAT
* * *
927370 AAATTATATTTTAAATTTAAATATCTAACATTTTTACTCATTGGGTAATTCTTTAAGTCGAAAA
1 AAATTAGATTCTAAATTTAAATATCTAACATTTTTACCCATTGGGTAATTCTTTAAGTCGAAAA
* *
927434 AAATTAGATTCTGAATTTGAATATCTAACATTTTTACCCATTGGGTAATTCTTTAAGTCGAAAA
1 AAATTAGATTCTAAATTTAAATATCTAACATTTTTACCCATTGGGTAATTCTTTAAGTCGAAAA
927498 A
1 A
927499 GCAGCCTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (64 bp):
AAATTAGATTCTAAATTTAAATATCTAACATTTTTACCCATTGGGTAATTCTTTAAGTCGAAAA
Found at i:927878 original size:18 final size:17
Alignment explanation
Indices: 927855--927922 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 17
927845 TTATATTATA
927855 ATTATATTTAAAATATTT
1 ATTATATTT-AAATATTT
927873 ATTATA-TT-AATAATTT
1 ATTATATTTAAAT-ATTT
* *
927889 ATTTTATATAAAT-TTT
1 ATTATATTTAAATATTT
*
927905 A-AATATTTAAATATTT
1 ATTATATTTAAATATTT
927921 AT
1 AT
927923 ATTTTTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 11 0.28
16 17 0.43
17 3 0.08
18 9 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATATTTAAATATTT
Found at i:934602 original size:16 final size:16
Alignment explanation
Indices: 934581--934614 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
934571 TAGATCCAAC
934581 AGGACAGTTCCCTGAA
1 AGGACAGTTCCCTGAA
934597 AGGACAGTTCCCTGAA
1 AGGACAGTTCCCTGAA
934613 AG
1 AG
934615 TTTGATCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (16 bp):
AGGACAGTTCCCTGAA
Found at i:935554 original size:25 final size:25
Alignment explanation
Indices: 935520--935569 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
935510 CACAGGGGAA
935520 GGGTTGGCTGCAGCATTATTATTAC
1 GGGTTGGCTGCAGCATTATTATTAC
935545 GGGTTGGCTGCAGCATTATTATTAC
1 GGGTTGGCTGCAGCATTATTATTAC
935570 TAACACTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (25 bp):
GGGTTGGCTGCAGCATTATTATTAC
Found at i:936737 original size:20 final size:20
Alignment explanation
Indices: 936703--936742 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
936693 ATACTTTAAA
* *
936703 ATTTTTTTTTTTTTTGATAT
1 ATTTTTTTATATTTTGATAT
*
936723 ATTTTTTTATATTTTTATAT
1 ATTTTTTTATATTTTGATAT
936743 GCATATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (20 bp):
ATTTTTTTATATTTTGATAT
Found at i:936864 original size:42 final size:42
Alignment explanation
Indices: 936810--936890 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
936800 TTATTATATG
936810 TAAACATATATACTTAAAATTATATCTAAATATATCTTATAA
1 TAAACATATATACTTAAAATTATATCTAAATATATCTTATAA
936852 TAAACATATATACTTAAAATTATATCTAAATATATCTTA
1 TAAACATATATACTTAAAATTATATCTAAATATATCTTA
936891 ATATTATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (42 bp):
TAAACATATATACTTAAAATTATATCTAAATATATCTTATAA
Found at i:936909 original size:23 final size:24
Alignment explanation
Indices: 936815--936899 Score: 94
Period size: 23 Copynumber: 3.8 Consensus size: 24
936805 ATATGTAAAC
936815 ATATATACTTAAAATTATATCTAA
1 ATATATACTTAAAATTATATCTAA
* *
936839 ATATAT-CTTATAA-TA-A---AC
1 ATATATACTTAAAATTATATCTAA
936857 ATATATACTTAAAATTATATCTAA
1 ATATATACTTAAAATTATATCTAA
*
936881 ATATAT-CTTAATATTATAT
1 ATATATACTTAAAATTATAT
936900 GTACGTATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
18 7 0.14
19 6 0.12
20 2 0.04
21 2 0.04
22 2 0.04
23 18 0.36
24 13 0.26
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATATACTTAAAATTATATCTAA
Found at i:939779 original size:28 final size:30
Alignment explanation
Indices: 939747--939847 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 30
939737 AATTATTACG
939747 TTATATTA-TAATAATTAT-TTAATAATTT-
1 TTATATTATTAATAATTATATTAAT-ATTTA
*
939775 TTATATTATTAATATTTATAATTAATATTTA
1 TTATATTATTAATAATTAT-ATTAATATTTA
**
939806 TTATA--A-T--TAATTATAAAAATATTTA
1 TTATATTATTAATAATTATATTAATATTTA
939831 TTATA--ATTAA-AATTATA
1 TTATATTATTAATAATTATA
939848 AAAAATAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
25 15 0.24
26 7 0.11
27 7 0.11
28 9 0.15
29 10 0.16
30 4 0.06
31 10 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATATTATTAATAATTATATTAATATTTA
Found at i:939809 original size:16 final size:16
Alignment explanation
Indices: 939755--939816 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 16
939745 CGTTATATTA
*
939755 TAATAATTATT-TAA-
1 TAATATTTATTATAAT
* *
939769 TAATTTTTA-TATTAT
1 TAATATTTATTATAAT
939784 TAATA--T-TTATAAT
1 TAATATTTATTATAAT
939797 TAATATTTATTATAAT
1 TAATATTTATTATAAT
939813 TAAT
1 TAAT
939817 TATAAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
13 12 0.32
14 9 0.24
15 5 0.14
16 11 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTTATTATAAT
Found at i:939826 original size:25 final size:26
Alignment explanation
Indices: 939798--939851 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
939788 ATTTATAATT
939798 AATATTTATTATAATT-AATTATAAA
1 AATATTTATTATAATTAAATTATAAA
939823 AATATTTATTATAATTAAAATTATAAA
1 AATATTTATTATAATT-AAATTATAAA
939850 AA
1 AA
939852 ATAATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 16 0.59
27 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATATTTATTATAATTAAATTATAAA
Found at i:941295 original size:14 final size:14
Alignment explanation
Indices: 941267--941309 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
941257 GGAGATAGAT
941267 ATAATATAAAA-ATA
1 ATAAT-TAAAATATA
941281 ATAATTAAAATATA
1 ATAATTAAAATATA
*
941295 ATATAATAAAATATA
1 ATA-ATTAAAATATA
941310 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 11 0.42
15 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTAAAATATA
Found at i:941555 original size:22 final size:21
Alignment explanation
Indices: 941499--941560 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 21
941489 TTATATTTTT
*
941499 ATAATTAAAATTAAA-TAAAA
1 ATAATTTAAATTAAATTAAAA
**
941519 AT-ATTTGTATT--ATTAAATA
1 ATAATTTAAATTAAATTAAA-A
941538 ATAATTTAAATTAAATTAAAA
1 ATAATTTAAATTAAATTAAAA
941559 AT
1 AT
941561 TATATATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
17 1 0.03
18 4 0.12
19 9 0.28
20 9 0.28
21 3 0.09
22 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAATTTAAATTAAATTAAAA
Found at i:943642 original size:128 final size:128
Alignment explanation
Indices: 943414--943667 Score: 377
Period size: 128 Copynumber: 2.0 Consensus size: 128
943404 ACATAAAAAG
* * * * * *
943414 CTCTTTTCTTTCAGATCATCTTTTGGATCAGAATCTTCTCTGTATATTTAAGCATTTTGTGTCCT
1 CTCTTTACCTTCAGATCATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
*
943479 GTAAATTTTACATTTCTTAACTAGTGGTAGTTTTTCAGACTTTTGACTAAATTATGATAATTA
66 GTAAATTTTACATTTCTTAACTAGTAGTAGTTTTTCAGACTTTTGACTAAATTATGATAATTA
*
943542 CTCTTTACCTTCAGATTATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
1 CTCTTTACCTTCAGATCATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
* * *
943607 GTAAATTTTAC-TTAT-TTGAACTGGTAGTAGTTTTTCAGAGTTTTGACTAAGTTATGATAAT
66 GTAAATTTTACATT-TCTT-AACTAGTAGTAGTTTTTCAGACTTTTGACTAAATTATGATAAT
943668 ATTTATAATG
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
127 4 0.04
128 109 0.96
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (128 bp):
CTCTTTACCTTCAGATCATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
GTAAATTTTACATTTCTTAACTAGTAGTAGTTTTTCAGACTTTTGACTAAATTATGATAATTA
Found at i:947131 original size:25 final size:26
Alignment explanation
Indices: 947074--947131 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
947064 GTTTTATTTT
*
947074 TCTATCACCATGCTTTTATGTACTTC
1 TCTATCACCATGCTCTTATGTACTTC
947100 TCTATCACCATGCTCTTATGTA-TTC
1 TCTATCACCATGCTCTTATGTACTTC
*
947125 TTTATCA
1 TCTATCA
947132 ATTCAATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.47
Consensus pattern (26 bp):
TCTATCACCATGCTCTTATGTACTTC
Found at i:948385 original size:2 final size:2
Alignment explanation
Indices: 948378--948421 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
948368 TTTTGGAAGA
* *
948378 CT CT CT CT AT CT CT AT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
948420 CT
1 CT
948422 AGTGGGGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:961876 original size:2 final size:2
Alignment explanation
Indices: 961869--961911 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
961859 TTTTGGAAGA
* *
961869 CT CT CT CT AT CT CT ACA CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT -CT CT CT CT CT CT CT CT CT CT CT CT CT CT
961912 AGTGGGGGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 35 0.97
3 1 0.03
ACGTcount: A:0.07, C:0.47, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:970575 original size:128 final size:128
Alignment explanation
Indices: 970347--970600 Score: 377
Period size: 128 Copynumber: 2.0 Consensus size: 128
970337 ACATAAAAAG
* * * * * *
970347 CTCTTTTCTTTCAGATCATCTTTTGGATCAGAATCTTCTCTGTATATTTAAGCATTTTGTGTCCT
1 CTCTTTACCTTCAGATCATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
*
970412 GTAAATTTTACATTTCTTAACTAGTGGTAGTTTTTCAGACTTTTGACTAAATTATGATAATTA
66 GTAAATTTTACATTTCTTAACTAGTAGTAGTTTTTCAGACTTTTGACTAAATTATGATAATTA
*
970475 CTCTTTACCTTCAGATTATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
1 CTCTTTACCTTCAGATCATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
* * *
970540 GTAAATTTTAC-TTAT-TTGAACTGGTAGTAGTTTTTCAGAGTTTTGACTAAGTTATGATAAT
66 GTAAATTTTACATT-TCTT-AACTAGTAGTAGTTTTTCAGACTTTTGACTAAATTATGATAAT
970601 ATTTATAATG
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
127 4 0.04
128 109 0.96
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (128 bp):
CTCTTTACCTTCAGATCATCTTTGGGATCAGAATATTCTCCGTATATTTAAGCATTTTGTGTACT
GTAAATTTTACATTTCTTAACTAGTAGTAGTTTTTCAGACTTTTGACTAAATTATGATAATTA
Found at i:974063 original size:25 final size:26
Alignment explanation
Indices: 974006--974063 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
973996 GTTTTATTTT
*
974006 TCTATCACCATGCTTTTATGTACTTC
1 TCTATCACCATGCTCTTATGTACTTC
974032 TCTATCACCATGCTCTTATGTA-TTC
1 TCTATCACCATGCTCTTATGTACTTC
*
974057 TTTATCA
1 TCTATCA
974064 ATTCAATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.47
Consensus pattern (26 bp):
TCTATCACCATGCTCTTATGTACTTC
Found at i:975317 original size:2 final size:2
Alignment explanation
Indices: 975310--975353 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
975300 TTTTGGAAGA
* *
975310 CT CT CT CT AT CT CT AT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
975352 CT
1 CT
975354 AGTGGGGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:985376 original size:9 final size:9
Alignment explanation
Indices: 985362--985386 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
985352 TAAAGAACTA
985362 TAAAATTTT
1 TAAAATTTT
985371 TAAAATTTT
1 TAAAATTTT
985380 TAAAATT
1 TAAAATT
985387 ATGATTCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAAAATTTT
Found at i:986001 original size:3 final size:3
Alignment explanation
Indices: 985993--986020 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
985983 AAACTTTAAT
985993 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
986021 TAGTAATTTT
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:986347 original size:17 final size:19
Alignment explanation
Indices: 986324--986371 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
986314 TTACATTTAT
986324 ATAAATTTTTATAAAT-TA
1 ATAAATTTTTATAAATCTA
* *
986342 AT-AATTTATAT-TATCTA
1 ATAAATTTTTATAAATCTA
986359 ATAAATTTTTATA
1 ATAAATTTTTATA
986372 CATTTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.08
17 12 0.50
18 10 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAAATTTTTATAAATCTA
Found at i:986427 original size:72 final size:69
Alignment explanation
Indices: 986349--986495 Score: 170
Period size: 72 Copynumber: 2.1 Consensus size: 69
986339 TTAATAATTT
* * * * *
986349 ATATTATCTAATAAATTTTTATACATTTATGTATTCATTTTGCATTCA-AATTATTTTTTTTCAT
1 ATATTATATAATAAATTTTGACACATTTAAGTATTCA-TTT-CATACACAATTA--TTTTTTCAT
986413 ATTGTAAG
62 ATTGTAAG
**
986421 ATATTATATAATAAATTTTGACGTATTTAAGTATTCATTTCATACACCAATTATTTTTTCATATT
1 ATATTATATAATAAATTTTGACACATTTAAGTATTCATTTCATACA-CAATTATTTTTTCATATT
*
986486 GTATG
65 GTAAG
986491 ATATT
1 ATATT
986496 TTATTTTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
70 26 0.40
71 3 0.05
72 36 0.55
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (69 bp):
ATATTATATAATAAATTTTGACACATTTAAGTATTCATTTCATACACAATTATTTTTTCATATTG
TAAG
Found at i:988368 original size:135 final size:136
Alignment explanation
Indices: 988078--988485 Score: 651
Period size: 135 Copynumber: 3.0 Consensus size: 136
988068 CCTGGTAGCC
*
988078 ATGCTAGTGAAGAAAGTCCTTTGGTGATTGTGGTTGTTTCAAAAAGTTGGATGCTTACTGGAGTT
1 ATGCTAGTAAAGAAAGTCCTTTGGTGATTGTGGTTGTTTCAAAAAGTTGGATGCTTACTGGAGTT
*
988143 ATTTAGATTCTTTAAGCAAAATACGCCATGTGTTAAAATCACAGAATACATTTATTGCATATAAC
66 ATTTAGATTCTTTAAGAAAAATACGCCATGTGTTAAAATCACAGAATACATTTATTGCATATAAC
988208 AAGCTT
131 AAGCTT
*
988214 ATACTAGTAAAGAAAGTCCTTTGGTGATTGTGGTTGTTTCAAAAAGTTGGATGCTTACTGGAG-T
1 ATGCTAGTAAAGAAAGTCCTTTGGTGATTGTGGTTGTTTCAAAAAGTTGGATGCTTACTGGAGTT
*
988278 ATTTAGATTCTTTAATGAAAAATACGCCATGTGCT-AAATCACAGAATACATTTATTGCATATAA
66 ATTTAGATTCTTTAA-GAAAAATACGCCATGTGTTAAAATCACAGAATACATTTATTGCATATAA
*
988342 AAAGCTT
130 CAAGCTT
* * *
988349 ATGCTAGTAAAGAAAGTCCTTTGGCGATTCTGGTTGTTCCAAAAAGTTGGATGCTTACTGGAGTT
1 ATGCTAGTAAAGAAAGTCCTTTGGTGATTGTGGTTGTTTCAAAAAGTTGGATGCTTACTGGAGTT
* ** * *
988414 CTTTAGATTCCGTAAGAAAAAATACGCCATGTGTTAAAATCAC-GAAATGCATTTATTGCAAATA
66 ATTTAGATTCTTTAAG-AAAAATACGCCATGTGTTAAAATCACAG-AATACATTTATTGCATATA
988478 ACAAGCTT
129 ACAAGCTT
988486 TGGCTTCCCC
Statistics
Matches: 251, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
135 111 0.44
136 109 0.43
137 31 0.12
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (136 bp):
ATGCTAGTAAAGAAAGTCCTTTGGTGATTGTGGTTGTTTCAAAAAGTTGGATGCTTACTGGAGTT
ATTTAGATTCTTTAAGAAAAATACGCCATGTGTTAAAATCACAGAATACATTTATTGCATATAAC
AAGCTT
Found at i:992663 original size:21 final size:21
Alignment explanation
Indices: 992639--992678 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
992629 TCAAATGCAT
992639 TCTTCTTGTATCTGATATTTC
1 TCTTCTTGTATCTGATATTTC
*
992660 TCTTCTTTTATCTGATATT
1 TCTTCTTGTATCTGATATT
992679 CATTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.60
Consensus pattern (21 bp):
TCTTCTTGTATCTGATATTTC
Found at i:994229 original size:17 final size:17
Alignment explanation
Indices: 994203--994241 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
994193 TCTAATCCAA
994203 AAATAAATATTTAATAT
1 AAATAAATATTTAATAT
*
994220 AAATATATATTTAATAT
1 AAATAAATATTTAATAT
994237 AAATA
1 AAATA
994242 CCGATAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAAATATTTAATAT
Found at i:994776 original size:26 final size:25
Alignment explanation
Indices: 994747--994808 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
994737 AATTGTAAAA
*
994747 AAATTATATATTTTTTATTAATTTTT
1 AAATTATATATTTTTT-TTAATATTT
994773 AAA-TATA-ATTTTTTTTAATATTT
1 AAATTATATATTTTTTTTAATATTT
*
994796 ATATTATAATATT
1 AAATTAT-ATATT
994809 ATGTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 10 0.32
24 10 0.32
25 5 0.16
26 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
AAATTATATATTTTTTTTAATATTT
Found at i:994803 original size:24 final size:24
Alignment explanation
Indices: 994748--994805 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
994738 ATTGTAAAAA
*
994748 AATTATATATTTTTTATTAATTTTT
1 AATTATA-ATTTTTTATTAATATTT
*
994773 AAATATAATTTTTT-TTAATATTT
1 AATTATAATTTTTTATTAATATTT
994796 ATATTATAAT
1 A-ATTATAAT
994806 ATTATGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.31
24 14 0.48
25 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AATTATAATTTTTTATTAATATTT
Found at i:999355 original size:17 final size:17
Alignment explanation
Indices: 999335--999383 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
999325 TTAATTTATA
999335 TTAAATAATTTTTTAAT
1 TTAAATAATTTTTTAAT
*
999352 TTAAATTATTATTTATTAAT
1 TTAAA-TA--ATTTTTTAAT
*
999372 TAAAATAATTTT
1 TTAAATAATTTT
999384 ATTTAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 9 0.35
18 2 0.08
19 2 0.08
20 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATAATTTTTTAAT
Found at i:999469 original size:16 final size:17
Alignment explanation
Indices: 999414--999487 Score: 50
Period size: 17 Copynumber: 4.3 Consensus size: 17
999404 AAATATTTTA
999414 ATATTA-TTTTAAATAATT
1 ATATTACTTTT-AAT-ATT
999432 ATA-TACCTTTTTAA-ATT
1 ATATTA-C-TTTTAATATT
999449 GATATTA-TTTTAATATT
1 -ATATTACTTTTAATATT
*
999466 ATA-TACTTTTATATATA
1 ATATTACTTTTA-ATATT
999483 ATATT
1 ATATT
999488 CAGCTTGGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 18
0.71 0.02 0.28
Matches are distributed among these distances:
15 2 0.04
16 14 0.30
17 15 0.33
18 7 0.15
19 4 0.09
20 4 0.09
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (17 bp):
ATATTACTTTTAATATT
Found at i:999761 original size:16 final size:16
Alignment explanation
Indices: 999740--999780 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
999730 AAAAATATTG
* *
999740 TATTTATATTATTTTA
1 TATTTATAATATTATA
*
999756 TATTTAAAATATTATA
1 TATTTATAATATTATA
999772 TATTTATAA
1 TATTTATAA
999781 AAATTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTATAATATTATA
Found at i:999793 original size:18 final size:17
Alignment explanation
Indices: 999750--999814 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
999740 TATTTATATT
*
999750 ATTTTATATTTA-AAAT
1 ATTTTATATTTATAAAA
*
999766 ATTATATATTTATAAAA
1 ATTTTATATTTATAAAA
*
999783 ATTTTATTATTT-TAATA
1 ATTTTA-TATTTATAAAA
*
999800 ATTTTTTATATTATA
1 ATTTTATAT-TTATA
999815 TTTAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 14 0.35
17 19 0.47
18 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATATTTATAAAA
Found at i:999796 original size:19 final size:20
Alignment explanation
Indices: 999741--999800 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
999731 AAAATATTGT
999741 ATTTATATTATTTTATATTTAAA
1 ATTT-TATTATTTTATA--TAAA
*
999764 ATATTA-TATATTTATA-AAA
1 ATTTTATTAT-TTTATATAAA
999783 ATTTTATTATTTTA-ATAA
1 ATTTTATTATTTTATATAA
999801 TTTTTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
20 3 0.09
21 3 0.09
22 8 0.25
23 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTATTATTTTATATAAA
Found at i:999821 original size:22 final size:21
Alignment explanation
Indices: 999787--999838 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 21
999777 ATAAAAATTT
999787 TATTATTTTAATAATTTTTTA
1 TATTATTTTAATAATTTTTTA
999808 TATTATATTTAATAATTTTTTA
1 TATTAT-TTTAATAATTTTTTA
*
999830 AATTATTTT
1 TATTATTTT
999839 TATGTTACGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTTTAATAATTTTTTA
Found at i:1001126 original size:17 final size:17
Alignment explanation
Indices: 1001104--1001153 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
1001094 TGATCATGAT
1001104 ATTTAATATTTAAAATA
1 ATTTAATATTTAAAATA
*
1001121 ATTT-A-ATTTAAATTA
1 ATTTAATATTTAAAATA
* *
1001136 AATTATTATTT-AAATA
1 ATTTAATATTTAAAATA
1001152 AT
1 AT
1001154 AATATATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
15 12 0.46
16 6 0.23
17 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATATTTAAAATA
Found at i:1001171 original size:24 final size:27
Alignment explanation
Indices: 1001137--1001191 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
1001127 TTTAAATTAA
1001137 ATTATTATTT-AAA-T-AATAATATAT
1 ATTATTATTTAAAATTAAATAATATAT
*
1001161 ATTATTTTTTAAAATTAAATAATATAT
1 ATTATTATTTAAAATTAAATAATATAT
1001188 ATTA
1 ATTA
1001192 ATATAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 9 0.33
25 3 0.11
26 1 0.04
27 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTATTATTTAAAATTAAATAATATAT
Found at i:1001213 original size:29 final size:29
Alignment explanation
Indices: 1001181--1001238 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1001171 AAAATTAAAT
1001181 AATATATATT-AAT-ATAAAAATAATATTTA
1 AATATATATTAAATAAT-AAAATAA-ATTTA
*
1001210 AATATTTATTAAATAATAAAATAAATTTA
1 AATATATATTAAATAATAAAATAAATTTA
1001239 TAAATCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 14 0.54
30 10 0.38
31 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATATATATTAAATAATAAAATAAATTTA
Found at i:1004257 original size:18 final size:18
Alignment explanation
Indices: 1004234--1004270 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1004224 ACAAATATTT
*
1004234 TTTTTTGATATATTTAAA
1 TTTTTTCATATATTTAAA
1004252 TTTTTTCATATATTTAAA
1 TTTTTTCATATATTTAAA
1004270 T
1 T
1004271 AATTATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTTCATATATTTAAA
Found at i:1005021 original size:24 final size:24
Alignment explanation
Indices: 1004970--1005021 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1004960 AGTTCAATTT
*
1004970 ATTTTTTAATTATATAAATATATT
1 ATTTTTTAATTATATAAATATATA
* *
1004994 ATTTTTATATTTATAT-ATTATATA
1 ATTTTT-TAATTATATAAATATATA
1005018 ATTT
1 ATTT
1005022 ATATCATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTTAATTATATAAATATATA
Found at i:1005103 original size:38 final size:37
Alignment explanation
Indices: 1005051--1005126 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 37
1005041 GTATATAAAA
* *
1005051 AATAAAAAATATATTAAATTATTTATATTTTAAAATTT
1 AATAAAAAATATATTAAATTA-TTAAATATTAAAATTT
1005089 AATAAATAAA-ATATTAAATTATTAAATATTAAAATTT
1 AATAAA-AAATATATTAAATTATTAAATATTAAAATTT
1005126 A
1 A
1005127 TTTATGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
37 15 0.43
38 17 0.49
39 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (37 bp):
AATAAAAAATATATTAAATTATTAAATATTAAAATTT
Found at i:1007356 original size:19 final size:19
Alignment explanation
Indices: 1007328--1007376 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1007318 TTGAATATAT
* *
1007328 ATTCATATCTTCAATTTTC
1 ATTCAAATCTACAATTTTC
1007347 ATTCAAATCTACAATTTTC
1 ATTCAAATCTACAATTTTC
1007366 ATTCAAATCTA
1 ATTCAAATCTA
1007377 GTAAATCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTCAAATCTACAATTTTC
Found at i:1012126 original size:28 final size:29
Alignment explanation
Indices: 1012084--1012146 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
1012074 AGCTGCTTCG
* *
1012084 TATTTATTTATTTTAATAA-TAATTTTTA
1 TATTTATTAAATTTAATAATTAATTTTTA
* *
1012112 TTTTTATTAAATTTAATAATTTATTTTTA
1 TATTTATTAAATTTAATAATTAATTTTTA
1012141 TATTTA
1 TATTTA
1012147 AATATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TATTTATTAAATTTAATAATTAATTTTTA
Found at i:1012144 original size:25 final size:26
Alignment explanation
Indices: 1012086--1012149 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
1012076 CTGCTTCGTA
1012086 TTTATTTAT-TTT-AA--TAATAATT
1 TTTATTTATATTTAAATTTAATAATT
*
1012108 TTTATTTTTA-TTAAATTTAATAATT
1 TTTATTTATATTTAAATTTAATAATT
1012133 TATT-TTTATATTTAAAT
1 T-TTATTTATATTTAAAT
1012150 ATTATATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 10 0.29
23 2 0.06
25 14 0.41
26 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTATTTATATTTAAATTTAATAATT
Found at i:1012408 original size:21 final size:22
Alignment explanation
Indices: 1012383--1012424 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1012373 ATTATTTTTT
1012383 AATATA-TTTTAAA-T-AATAA
1 AATATATTTTTAAACTCAATAA
1012402 AATATATTTTTAAACTCAATAA
1 AATATATTTTTAAACTCAATAA
1012424 A
1 A
1012425 TTAAACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 1 0.05
22 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATATTTTTAAACTCAATAA
Found at i:1012452 original size:13 final size:12
Alignment explanation
Indices: 1012425--1012450 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1012415 ACTCAATAAA
1012425 TTAAACAAATAT
1 TTAAACAAATAT
1012437 TTAAACAAATAT
1 TTAAACAAATAT
1012449 TT
1 TT
1012451 TATACTATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAACAAATAT
Found at i:1012579 original size:20 final size:18
Alignment explanation
Indices: 1012543--1012582 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
1012533 AATTATAAAT
1012543 AATTAATTTAAATTTTAA
1 AATTAATTTAAATTTTAA
*
1012561 AATTATATTTCAATATTTAA
1 AATTA-ATTTAAAT-TTTAA
1012581 AA
1 AA
1012583 AATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAATTTAAATTTTAA
Found at i:1019357 original size:21 final size:21
Alignment explanation
Indices: 1019328--1019369 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1019318 AAAAAATATT
*
1019328 TTATTTAAAT-TTAATTATAAA
1 TTATATAAATATTAA-TATAAA
1019349 TTATATAAATATTAATATAAA
1 TTATATAAATATTAATATAAA
1019370 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATAAATATTAATATAAA
Found at i:1020184 original size:22 final size:23
Alignment explanation
Indices: 1020151--1020199 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
1020141 AGTCAAGTCG
* *
1020151 TTTATTTATATCGTATTTATATA
1 TTTATTTATATCATAATTATATA
*
1020174 TTTA-TTATATCATAATTATTTA
1 TTTATTTATATCATAATTATATA
1020196 TTTA
1 TTTA
1020200 AAATATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTATTTATATCATAATTATATA
Found at i:1021181 original size:17 final size:18
Alignment explanation
Indices: 1021155--1021193 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1021145 TTTATAATAT
1021155 AAAA-ATAAATAGTAA-A
1 AAAATATAAATAGTAAGA
*
1021171 AAAATATAAATATTAAGA
1 AAAATATAAATAGTAAGA
1021189 AAAAT
1 AAAAT
1021194 TTTTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 10 0.50
18 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAATATAAATAGTAAGA
Found at i:1021641 original size:16 final size:16
Alignment explanation
Indices: 1021620--1021653 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1021610 TGCTTGGTGC
1021620 ATGCATACATATACAT
1 ATGCATACATATACAT
* *
1021636 ATGCATATATATATAT
1 ATGCATACATATACAT
1021652 AT
1 AT
1021654 ATATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ATGCATACATATACAT
Found at i:1021647 original size:2 final size:2
Alignment explanation
Indices: 1021640--1021669 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1021630 ATACATATGC
1021640 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1021670 GTCAAGTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1023293 original size:2 final size:2
Alignment explanation
Indices: 1023288--1023317 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1023278 AGTGTGTGTG
1023288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1023318 AATGTTTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1023676 original size:22 final size:22
Alignment explanation
Indices: 1023651--1023714 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 22
1023641 ATTAAGTTAG
1023651 ATTAAATTATATTATTTATAAT
1 ATTAAATTATATTATTTATAAT
1023673 ATTAAA--ATATTATTT-TAA-
1 ATTAAATTATATTATTTATAAT
1023691 ATTAATATTA-ATATATTTTATAAT
1 ATTAA-ATTATAT-TA-TTTATAAT
1023715 TAAATTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 5 0.14
19 4 0.11
20 11 0.31
21 3 0.09
22 9 0.26
23 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTAAATTATATTATTTATAAT
Found at i:1023697 original size:16 final size:16
Alignment explanation
Indices: 1023652--1023700 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
1023642 TTAAGTTAGA
1023652 TTAAATT-ATATTATT
1 TTAAATTAATATTATT
1023667 TATAATATTAAAATATTATT
1 T-TAA-ATT--AATATTATT
1023687 TTAAATTAATATTA
1 TTAAATTAATATTA
1023701 ATATATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 1 0.03
16 10 0.34
17 3 0.10
18 3 0.10
19 3 0.10
20 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAATTAATATTATT
Found at i:1023715 original size:22 final size:23
Alignment explanation
Indices: 1023669--1023717 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
1023659 ATATTATTTA
1023669 TAATATTAAAATATTATTTTAAAT
1 TAATATT-AAATATTATTTTAAAT
1023693 TAATATT-AATA-TATTTTATAAT
1 TAATATTAAATATTATTTTA-AAT
1023715 TAA
1 TAA
1023718 ATTTCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
24 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATATTAAATATTATTTTAAAT
Found at i:1024867 original size:17 final size:17
Alignment explanation
Indices: 1024842--1024876 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1024832 CCATTGTAAG
* *
1024842 TATCGGATATAAGTATA
1 TATCCGATACAAGTATA
1024859 TATCCGATACAAGTATA
1 TATCCGATACAAGTATA
1024876 T
1 T
1024877 TTAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (17 bp):
TATCCGATACAAGTATA
Found at i:1025773 original size:19 final size:19
Alignment explanation
Indices: 1025749--1025892 Score: 57
Period size: 19 Copynumber: 7.4 Consensus size: 19
1025739 AAATAATTCG
1025749 TATATTTATATTATATTTA
1 TATATTTATATTATATTTA
*
1025768 TATATTTTTA-TATA-TTA
1 TATATTTATATTATATTTA
* **
1025785 TAATCATGTTTTAAAATA-TTA
1 T-AT-AT-TTATATTATATTTA
*
1025806 TATATTTATA-TAAATTT-
1 TATATTTATATTATATTTA
* *
1025823 TAATATATTATATAAATCATATA
1 T-ATAT-TTATAT-TAT-ATTTA
* * *
1025846 AATTAATTT-TAATATATTCA
1 TA-T-ATTTATATTATATTTA
*
1025866 TATATTTATATTATATTAA
1 TATATTTATATTATATTTA
1025885 TATTATTT
1 TA-TATTT
1025893 TTTTCGTATA
Statistics
Matches: 94, Mismatches: 16, Indels: 29
0.68 0.12 0.21
Matches are distributed among these distances:
17 7 0.07
18 20 0.21
19 30 0.32
20 16 0.17
21 10 0.11
22 6 0.06
23 3 0.03
24 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (19 bp):
TATATTTATATTATATTTA
Found at i:1029023 original size:10 final size:11
Alignment explanation
Indices: 1028990--1029031 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 11
1028980 TTAAATTTTA
1028990 ATTAATTTA-T
1 ATTAATTTATT
1029000 ATTAATTTAAATT
1 ATTAATTT--ATT
1029013 ATT-ATTTATT
1 ATTAATTTATT
1029023 ATTAATTTA
1 ATTAATTTA
1029032 AATTTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 14 0.50
11 5 0.18
12 5 0.18
13 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTAATTTATT
Found at i:1029025 original size:23 final size:25
Alignment explanation
Indices: 1028979--1029053 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 25
1028969 AATAAAATTT
1028979 TTTAAATTTTAATTAATTTA-TATTAA
1 TTTAAA-TTTAATT-ATTTATTATTAA
1029005 TTTAAA-TT-ATTATTTATTATTAA
1 TTTAAATTTAATTATTTATTATTAA
*
1029028 TTTAAATTTAATTATTTTATTTTTAA
1 TTTAAATTTAATTA-TTTATTATTAA
1029054 AATAATAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
22 5 0.11
23 15 0.34
24 4 0.09
25 4 0.09
26 16 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTAAATTTAATTATTTATTATTAA
Found at i:1029812 original size:20 final size:21
Alignment explanation
Indices: 1029771--1029818 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1029761 TTAATTTTTT
*
1029771 TTTATATTTGAAATATCCATA
1 TTTATATTTGAAATATACATA
*
1029792 TTTATATTT-AAATATATATA
1 TTTATATTTGAAATATACATA
*
1029812 TATATAT
1 TTTATAT
1029819 ATATATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTATATTTGAAATATACATA
Found at i:1034428 original size:31 final size:32
Alignment explanation
Indices: 1034368--1034433 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1034358 ATAAAATATT
1034368 TTAAAATTTAGATAAGATAAATTATTATTTATA
1 TTAAAATTTAGATAAGATAAATTATTATTTA-A
*
1034401 TTAAAATTTATATAA-ATAAA-TATTATTTAA
1 TTAAAATTTAGATAAGATAAATTATTATTTAA
1034431 TTA
1 TTA
1034434 TGAAACAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 4 0.12
31 9 0.28
32 5 0.16
33 14 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
TTAAAATTTAGATAAGATAAATTATTATTTAA
Found at i:1034825 original size:6 final size:6
Alignment explanation
Indices: 1034814--1034892 Score: 122
Period size: 6 Copynumber: 13.2 Consensus size: 6
1034804 TTACAGGCTT
1034814 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
1034862 TGTATA TATATG TATATG TATATG TATATA T
1 TATATA TATATA TATATA TATATA TATATA T
1034893 GAAAAGAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:1034827 original size:10 final size:10
Alignment explanation
Indices: 1034814--1034892 Score: 122
Period size: 10 Copynumber: 7.9 Consensus size: 10
1034804 TTACAGGCTT
1034814 TATATATATA
1 TATATATATA
1034824 TATATATATA
1 TATATATATA
1034834 TATATATATA
1 TATATATATA
1034844 TATATATATA
1 TATATATATA
*
1034854 TATATATATG
1 TATATATATA
*
1034864 TATATATATG
1 TATATATATA
*
1034874 TATATGTATA
1 TATATATATA
*
1034884 TGTATATAT
1 TATATATAT
1034893 GAAAAGAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 64 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (10 bp):
TATATATATA
Found at i:1038117 original size:18 final size:18
Alignment explanation
Indices: 1038096--1038150 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1038086 CCATTGCTAC
1038096 CGCTCTCACCTTCATCTT
1 CGCTCTCACCTTCATCTT
* **
1038114 CGCTATCGTCTTCATCTT
1 CGCTCTCACCTTCATCTT
1038132 CG-TCTTCATCC-TCATCTT
1 CGCTC-TCA-CCTTCATCTT
1038150 C
1 C
1038151 ATCCTCTGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.11, C:0.40, G:0.07, T:0.42
Consensus pattern (18 bp):
CGCTCTCACCTTCATCTT
Found at i:1038134 original size:12 final size:12
Alignment explanation
Indices: 1038119--1038156 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1038109 ATCTTCGCTA
*
1038119 TCGTCTTCATCT
1 TCGTCTTCATCC
1038131 TCGTCTTCATCC
1 TCGTCTTCATCC
*
1038143 TCATCTTCATCC
1 TCGTCTTCATCC
1038155 TC
1 TC
1038157 TGAGGCTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.11, C:0.39, G:0.05, T:0.45
Consensus pattern (12 bp):
TCGTCTTCATCC
Found at i:1043538 original size:2 final size:2
Alignment explanation
Indices: 1043531--1043565 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1043521 TCTAAGCTTG
1043531 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1043566 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1046790 original size:18 final size:18
Alignment explanation
Indices: 1046767--1046805 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1046757 AAATATATAA
1046767 TATAATA-TATTACATACC
1 TATAATATTA-TACATACC
*
1046785 TATAATATTATATATACC
1 TATAATATTATACATACC
1046803 TAT
1 TAT
1046806 TAACCCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAATATTATACATACC
Found at i:1047861 original size:27 final size:27
Alignment explanation
Indices: 1047821--1047878 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
1047811 AATCTAATTA
* * *
1047821 TTTATCATATTAATCTAATTTAAATTTT
1 TTTATCATAATAATATAA-TTAAATATT
1047849 TTTATCA-AATAATATAATTAAATATT
1 TTTATCATAATAATATAATTAAATATT
1047875 TTTA
1 TTTA
1047879 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 12 0.44
27 8 0.30
28 7 0.26
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTATCATAATAATATAATTAAATATT
Found at i:1047973 original size:12 final size:12
Alignment explanation
Indices: 1047944--1047977 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1047934 GATTAAATAA
*
1047944 ATATAAATAAATT
1 ATATAAAT-AAGT
1047957 ATATAAATAAGT
1 ATATAAATAAGT
1047969 ATATAAATA
1 ATATAAATA
1047978 CGTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
ATATAAATAAGT
Found at i:1050164 original size:2 final size:2
Alignment explanation
Indices: 1050117--1050144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1050107 TTATGTAGGC
1050117 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
1050145 TAAAAGGAAT
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
Done.