Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 4 of 141
Found at i:696901 original size:9 final size:9
Alignment explanation
Indices: 696887--696911 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
696877 TAGCCAAAGC
696887 CAAACAATG
1 CAAACAATG
696896 CAAACAATG
1 CAAACAATG
696905 CAAACAA
1 CAAACAA
696912 AATCCAAGTC
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:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (9 bp):
CAAACAATG
Found at i:697632 original size:12 final size:12
Alignment explanation
Indices: 697615--697639 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
697605 CTGATTTAAG
697615 AAAAAAAGAAAA
1 AAAAAAAGAAAA
697627 AAAAAAAGAAAA
1 AAAAAAAGAAAA
697639 A
1 A
697640 CCTGAAGATC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:698280 original size:29 final size:29
Alignment explanation
Indices: 698217--698273 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
698207 TTTTTTTTTT
698217 AGTCACCGAACTATGAAAAGTTACAAAAC
1 AGTCACCGAACTATGAAAAGTTACAAAAC
* * *
698246 AGTCACCTAATTATGAAAATTTACAAAA
1 AGTCACCGAACTATGAAAAGTTACAAAA
698274 TGATCACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.23
Consensus pattern (29 bp):
AGTCACCGAACTATGAAAAGTTACAAAAC
Found at i:700026 original size:6 final size:6
Alignment explanation
Indices: 700003--700037 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
699993 GGTAGGAGTG
* *
700003 GAGGTA GAGGAA GAGGTA GGGGTA GAGGTA GAGGT
1 GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGGT
700038 GCGCAAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.14
Consensus pattern (6 bp):
GAGGTA
Found at i:704372 original size:18 final size:18
Alignment explanation
Indices: 704349--704386 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
704339 GGTACTAAAC
704349 TATATAGTAAAATAGACA
1 TATATAGTAAAATAGACA
704367 TATATAGTAAAATAGACA
1 TATATAGTAAAATAGACA
704385 TA
1 TA
704387 GAATAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (18 bp):
TATATAGTAAAATAGACA
Found at i:704396 original size:18 final size:18
Alignment explanation
Indices: 704352--704396 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
704342 ACTAAACTAT
*
704352 ATAGTAAAATAGACATAT
1 ATAGTAAAATAGACATAA
704370 ATAGTAAAATAGACATAGA
1 ATAGTAAAATAGACATA-A
704389 ATAG-AAAA
1 ATAGTAAAA
704397 GTGACAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.22
Consensus pattern (18 bp):
ATAGTAAAATAGACATAA
Found at i:710990 original size:11 final size:11
Alignment explanation
Indices: 710955--711035 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 11
710945 CAAAAAATTA
710955 TTTTAAAA-AT
1 TTTTAAAATAT
*
710965 TTTAAAAAGTAT
1 TTTTAAAA-TAT
710977 TTTTAAAATA-
1 TTTTAAAATAT
710987 TTTT-AAA-A-
1 TTTTAAAATAT
*
710995 --TTAAAAAAT
1 TTTTAAAATAT
711004 TTTTAAAAAGTAT
1 TTTT-AAAA-TAT
*
711017 TTTAAAAATA-
1 TTTTAAAATAT
711027 TTTTAAAAT
1 TTTTAAAAT
711036 TAAAAAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
6 2 0.04
7 3 0.05
8 2 0.04
9 3 0.05
10 19 0.33
11 6 0.11
12 17 0.30
13 5 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:711052 original size:40 final size:40
Alignment explanation
Indices: 710959--711052 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
710949 AAATTATTTT
*
710959 AAAAATTTTAAAAAGTATTTTTAAAATATTTTAAAATTAA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
710999 AAAATTTTTAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
711039 AAAAATTTAAAAAA
1 AAAAATTTTAAAAA
711053 TAAATATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (40 bp):
AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:711064 original size:17 final size:17
Alignment explanation
Indices: 711019--711064 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
711009 AAAAGTATTT
* *
711019 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
711036 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
711053 TAAATATATTTA
1 TAAAAATATTTA
711065 TTATATCGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:715066 original size:13 final size:13
Alignment explanation
Indices: 715048--715072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
715038 TCAAGCTTTT
715048 TATTTTTAATATA
1 TATTTTTAATATA
715061 TATTTTTAATAT
1 TATTTTTAATAT
715073 TTTTATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATATA
Found at i:721947 original size:17 final size:17
Alignment explanation
Indices: 721904--721947 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
721894 ATTTCAAGTC
721904 AAAAAATAATTTAAAAAT
1 AAAAAA-AATTTAAAAAT
* * *
721922 TATAGAAATTTAAAAAT
1 AAAAAAAATTTAAAAAT
721939 AAAAAAAAT
1 AAAAAAAAT
721948 CATAATAAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAAAAATTTAAAAAT
Found at i:725557 original size:29 final size:29
Alignment explanation
Indices: 725523--725578 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
725513 ATAAGGATTA
*
725523 GATCAAATTAGTCACTT-TATTATTAAATG
1 GATCAAATTAGTC-CTTATACTATTAAATG
*
725552 GATCAATTTAGTCCTTATACTATTAAA
1 GATCAAATTAGTCCTTATACTATTAAA
725579 AAGAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (29 bp):
GATCAAATTAGTCCTTATACTATTAAATG
Found at i:728359 original size:12 final size:11
Alignment explanation
Indices: 728337--728366 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
728327 TTTTATATTA
728337 AAATATATTTTT
1 AAATA-ATTTTT
728349 AAATAATTTTT
1 AAATAATTTTT
728360 AAATAAT
1 AAATAAT
728367 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:728401 original size:22 final size:21
Alignment explanation
Indices: 728356--728412 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 21
728346 TTTAAATAAT
728356 TTTTAAATA-ATAAAATTTAA
1 TTTTAAATATATAAAATTTAA
* *
728376 -TTTAAATATGTATAATTTATA
1 TTTTAAATATATAAAATTTA-A
*
728397 TTTTAGATAT-TAAAAT
1 TTTTAAATATATAAAAT
728413 AAAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 6 0.20
22 8 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTTAAATATATAAAATTTAA
Found at i:731777 original size:31 final size:31
Alignment explanation
Indices: 731728--731793 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
731718 TTATTACTAT
* *
731728 TTTTCTAATTAGTTAATTTTAGTT-TTTATAC
1 TTTTCGAATTAGTCAATTTTA-TTCTTTATAC
* *
731759 TTTTCGAATTGGTCAATTTTATTCTTTTTAC
1 TTTTCGAATTAGTCAATTTTATTCTTTATAC
731790 TTTT
1 TTTT
731794 TAAATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.62
Consensus pattern (31 bp):
TTTTCGAATTAGTCAATTTTATTCTTTATAC
Found at i:732483 original size:19 final size:22
Alignment explanation
Indices: 732442--732483 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
732432 AAAATTTATT
732442 TTTAATATATTTTTATATAAAA
1 TTTAATATATTTTTATATAAAA
732464 TTTAA-ATA-TTTTAT-TAAAA
1 TTTAATATATTTTTATATAAAA
732483 T
1 T
732484 AATAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 3 0.15
22 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATATATTTTTATATAAAA
Found at i:733851 original size:31 final size:31
Alignment explanation
Indices: 733816--733878 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
733806 GCAACTATAC
733816 AAATAAAACTTGAATTGTGATTC-ATATGTAT
1 AAATAAAACTTGAATTGTGATTCAAT-TGTAT
* *
733847 AAATAAAACTTTAATTTTGATTCAATTGTAT
1 AAATAAAACTTGAATTGTGATTCAATTGTAT
733878 A
1 A
733879 TATTTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (31 bp):
AAATAAAACTTGAATTGTGATTCAATTGTAT
Found at i:734700 original size:5 final size:5
Alignment explanation
Indices: 734690--734728 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
734680 CGTATTAAAA
734690 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTAT
734729 ATAAAAAATT
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:748269 original size:16 final size:17
Alignment explanation
Indices: 748243--748274 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
748233 CAATTTGAAA
748243 ATTTATCAATTTAATTG
1 ATTTATCAATTTAATTG
748260 ATTTAT-AATTTAATT
1 ATTTATCAATTTAATT
748275 ACCAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTATCAATTTAATTG
Found at i:752185 original size:21 final size:20
Alignment explanation
Indices: 752130--752175 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
752120 AAGAAAAAAA
* *
752130 AGAAAGAAAAAAAG-GAA-G
1 AGAAAGAACAAAGGAGAAGG
752148 AGAAAGAACAAAGGAGAAGG
1 AGAAAGAACAAAGGAGAAGG
752168 AGAAAGAA
1 AGAAAGAA
752176 AAGTAGGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
19 3 0.12
20 9 0.38
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (20 bp):
AGAAAGAACAAAGGAGAAGG
Found at i:762529 original size:15 final size:15
Alignment explanation
Indices: 762509--762539 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
762499 GAAACTTGTC
762509 ATTATTCATTTCTTG
1 ATTATTCATTTCTTG
*
762524 ATTATTGATTTCTTG
1 ATTATTCATTTCTTG
762539 A
1 A
762540 AGAGATTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (15 bp):
ATTATTCATTTCTTG
Found at i:764479 original size:3 final size:3
Alignment explanation
Indices: 764471--764499 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
764461 TACTAAACTA
764471 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
764500 GTATATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:764792 original size:11 final size:11
Alignment explanation
Indices: 764776--764810 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
764766 TTTAAAAATA
764776 TTATATATATT
1 TTATATATATT
764787 TTATATATATT
1 TTATATATATT
764798 TT-TATATTATT
1 TTATATA-TATT
764809 TT
1 TT
764811 GAAAGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATATATT
Found at i:764803 original size:19 final size:20
Alignment explanation
Indices: 764748--764805 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
764738 ATATACATAC
*
764748 TTATATATATTCTTTATA-T
1 TTATATATATTATTTATATT
* * *
764767 TTAAAAATATTATATATATT
1 TTATATATATTATTTATATT
764787 TTATATATATT-TTTATATT
1 TTATATATATTATTTATATT
764806 ATTTTGAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATATATATTATTTATATT
Found at i:765372 original size:16 final size:16
Alignment explanation
Indices: 765351--765392 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
765341 AATAATTTGA
*
765351 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
765367 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
765383 TAGTTTTAAT
1 TAATTTTAAT
765393 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:774226 original size:13 final size:14
Alignment explanation
Indices: 774201--774229 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
774191 AAAGGGGAAT
774201 GAAGAACAAAATGG
1 GAAGAACAAAATGG
774215 GAAGAA-AAAATGG
1 GAAGAACAAAATGG
774228 GA
1 GA
774230 GTGAAGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.31, T:0.07
Consensus pattern (14 bp):
GAAGAACAAAATGG
Found at i:784298 original size:52 final size:52
Alignment explanation
Indices: 784225--784329 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
784215 ACTTAAGTTA
784225 AATTACAAAAATGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
1 AATTACAAAAATGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
* **
784277 AATTACAGAAATGCTATACTTAGGCAATTAAAGAGGTGAACTCTTAGAAATT
1 AATTACAAAAATGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
784329 A
1 A
784330 GTGACTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (52 bp):
AATTACAAAAATGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
Found at i:791019 original size:31 final size:28
Alignment explanation
Indices: 790984--791058 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 28
790974 TTTCGCTATT
*
790984 ATATTGTTACTATTTTGTTGTTATTGTTTGG
1 ATATTGTTACTATTTTGTT-TTATTG-TT-A
791015 ATATTG-TA-TAACTTTTGTTTTATTGTTA
1 ATATTGTTACT-A-TTTTGTTTTATTGTTA
*
791043 ATTTTGTTACTATTTT
1 ATATTGTTACTATTTT
791059 AGAGGTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
28 9 0.24
29 6 0.16
30 10 0.26
31 13 0.34
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.63
Consensus pattern (28 bp):
ATATTGTTACTATTTTGTTTTATTGTTA
Found at i:791049 original size:17 final size:19
Alignment explanation
Indices: 791016--791050 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
791006 ATTGTTTGGA
791016 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
791035 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
791051 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:814961 original size:18 final size:21
Alignment explanation
Indices: 814914--814966 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
814904 CAAGAGTAAA
814914 ATATAATTTCAAATTCATGAGT
1 ATATAATTTCAAATTCAT-AGT
814936 ATTATAATTTCAAATTC-T-G-
1 A-TATAATTTCAAATTCATAGT
814955 ATATAATTTCAA
1 ATATAATTTCAA
814967 TTTCGATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 11 0.37
19 1 0.03
20 1 0.03
22 2 0.07
23 15 0.50
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (21 bp):
ATATAATTTCAAATTCATAGT
Found at i:816036 original size:245 final size:245
Alignment explanation
Indices: 815604--816103 Score: 910
Period size: 245 Copynumber: 2.0 Consensus size: 245
815594 AGTAAGCATA
815604 TATTGACTTTTTTTTTAACAATATCATTATAGGTTAAGATCATATTTGTTATTTTTAACATAATA
1 TATTGACTTTTTTTTTAACAATATCATTATAGGTTAAGATCATATTTGTTATTTTTAACATAATA
815669 CTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATGCATTTCAGCACACTCA
66 CTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATGCATTTCAGCACACTCA
*
815734 AACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAAATTAATTTATATGAGAATAGAG
131 AACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAAATTAATTAATATGAGAATAGAG
* * *
815799 TGGGGAGTGAAGGAGTAAGCATAGAGACCGCACCCCAATATTGTCGTGAT
196 TGAGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCAATATTGTCGTAAT
* *
815849 TATTGACTTTTTTTTTTACAATATCATTATAGGTTAAGATCATATTTGTTCTTTTTAACATAATA
1 TATTGACTTTTTTTTTAACAATATCATTATAGGTTAAGATCATATTTGTTATTTTTAACATAATA
*
815914 CTTAGAATTATTCATAGTTCTTCCCTAATTCATAAATAAAAAGATAATGCATTTCAGCACACTCA
66 CTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATGCATTTCAGCACACTCA
*
815979 AACTTACGTATCGTGTATTGACAATAATATTTATACTAATCAAATTAATTAATATGAGAATAGAG
131 AACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAAATTAATTAATATGAGAATAGAG
* *
816044 TGAGGAGTGAAGGAGTAAGCATGGAGACCCCACCCCACTATTGTCGTAAT
196 TGAGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCAATATTGTCGTAAT
816094 TATTGACTTT
1 TATTGACTTT
816104 GCAATTTGCA
Statistics
Matches: 245, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 245 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (245 bp):
TATTGACTTTTTTTTTAACAATATCATTATAGGTTAAGATCATATTTGTTATTTTTAACATAATA
CTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATGCATTTCAGCACACTCA
AACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAAATTAATTAATATGAGAATAGAG
TGAGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCAATATTGTCGTAAT
Found at i:820765 original size:30 final size:30
Alignment explanation
Indices: 820687--820765 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 30
820677 TAAATTTTTG
* * **
820687 GGGGTCTAATTAAAATTTTTAAAAAATCTA
1 GGGGTCTAATGAAAATTTTAAAAAAAAATA
* * * *
820717 GGAGTTTAATG-AGA-TTTAAAAAAAAATT
1 GGGGTCTAATGAAAATTTTAAAAAAAAATA
820745 GGGGTCTAATGAAAATTTTAA
1 GGGGTCTAATGAAAATTTTAA
820766 TTTTTTGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
28 19 0.53
29 4 0.11
30 13 0.36
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (30 bp):
GGGGTCTAATGAAAATTTTAAAAAAAAATA
Found at i:821038 original size:28 final size:28
Alignment explanation
Indices: 821002--821062 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
820992 AATTACTAGT
*
821002 GTCTCGATCCCAATTTTCTACTGAAACG
1 GTCTTGATCCCAATTTTCTACTGAAACG
*
821030 GTCTTGATCTCAATTTTCTACTGAAACG
1 GTCTTGATCCCAATTTTCTACTGAAACG
*
821058 ATCTT
1 GTCTT
821063 AAAAGTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (28 bp):
GTCTTGATCCCAATTTTCTACTGAAACG
Found at i:824009 original size:8 final size:8
Alignment explanation
Indices: 823996--824022 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
823986 TATTAAATCT
823996 AAATTTTA
1 AAATTTTA
824004 AAATTTTA
1 AAATTTTA
824012 AAATTTTA
1 AAATTTTA
824020 AAA
1 AAA
824023 ATAGAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTTA
Found at i:824036 original size:31 final size:31
Alignment explanation
Indices: 824004--824061 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
823994 CTAAATTTTA
*
824004 AAATTTTAAAATTTT-AAAAATAGAAAGATT
1 AAATTTTAAAATTTTGAAAAATACAAAGATT
* *
824034 AAATTTTTAATTTTTGAAAAATACAAAG
1 AAATTTTAAAATTTTGAAAAATACAAAG
824062 GCTATACGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (31 bp):
AAATTTTAAAATTTTGAAAAATACAAAGATT
Found at i:826464 original size:7 final size:7
Alignment explanation
Indices: 826452--826477 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
826442 AAAATATTAA
826452 AAAATAC
1 AAAATAC
826459 AAAATAC
1 AAAATAC
826466 AAAATAC
1 AAAATAC
826473 AAAAT
1 AAAAT
826478 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAC
Found at i:828752 original size:16 final size:16
Alignment explanation
Indices: 828733--828770 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
828723 ATATATAATA
828733 TATATAATATATTTTT
1 TATATAATATATTTTT
*
828749 TATATAATGTATTTTT
1 TATATAATATATTTTT
828765 TATATA
1 TATATA
828771 TGTTTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATATAATATATTTTT
Found at i:830188 original size:20 final size:20
Alignment explanation
Indices: 830138--830189 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
830128 TATTGATGAA
* *
830138 TGAATACTTTATTAATTTAT
1 TGAATAATTTATTAATTTAG
830158 TG-ATAAATTTATTAATTTAG
1 TGAAT-AATTTATTAATTTAG
*
830178 TGAATATTTTAT
1 TGAATAATTTAT
830190 ACTTCATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (20 bp):
TGAATAATTTATTAATTTAG
Found at i:830260 original size:15 final size:16
Alignment explanation
Indices: 830242--830273 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
830232 ATGTAAGTAC
830242 AATGTA-TTTTTATAT
1 AATGTATTTTTTATAT
830257 AATGTATTTTTTATAT
1 AATGTATTTTTTATAT
830273 A
1 A
830274 TGTTTTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
AATGTATTTTTTATAT
Found at i:831116 original size:16 final size:16
Alignment explanation
Indices: 831080--831130 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
831070 ACTGAATTAA
* *
831080 ATAATATATATTATAT
1 ATAATATATTTTTTAT
*
831096 TTAATATATTTTTTAT
1 ATAATATATTTTTTAT
*
831112 ATAATTTATTTTTTAT
1 ATAATATATTTTTTAT
831128 ATA
1 ATA
831131 TGTTTTATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATAATATATTTTTTAT
Found at i:834630 original size:25 final size:25
Alignment explanation
Indices: 834568--834644 Score: 111
Period size: 26 Copynumber: 3.1 Consensus size: 25
834558 ATCGCAGCTT
* *
834568 TTATGAGCGTCCCGATATATGGCTC
1 TTATGAGCTTCCCGATAAATGGCTC
834593 TTCATGAGCTTCCCGATAAATGGCTC
1 TT-ATGAGCTTCCCGATAAATGGCTC
*
834619 TTATGAGCTTCCCG-TTAATGGCTC
1 TTATGAGCTTCCCGATAAATGGCTC
834643 TT
1 TT
834645 CGGAACTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
24 11 0.23
25 14 0.29
26 23 0.48
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
TTATGAGCTTCCCGATAAATGGCTC
Found at i:838516 original size:17 final size:16
Alignment explanation
Indices: 838492--838530 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
838482 CTTTTCATTA
838492 TGTTTTCCTTTCTTTT-
1 TGTTTTCCTTT-TTTTC
838508 TGTTGTTCCTTTTTTTC
1 TGTT-TTCCTTTTTTTC
838525 TGTTTT
1 TGTTTT
838531 GTGCATGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTTTTCCTTTTTTTC
Found at i:844784 original size:14 final size:15
Alignment explanation
Indices: 844756--844784 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
844746 AATCCTGTTT
844756 AATATTTTAATATAA
1 AATATTTTAATATAA
844771 AATATTTT-ATATAA
1 AATATTTTAATATAA
844785 TACATCTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATATAA
Found at i:846532 original size:36 final size:35
Alignment explanation
Indices: 846483--846562 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 35
846473 TAAACTTAAA
846483 ATTAAAAA-ATAAAACTTCAATAAATTCTTCAATC
1 ATTAAAAACATAAAACTTCAATAAATTCTTCAATC
* * *
846517 ATTAAAAACAGTAAAACTTTAATAAATTCTTTAATT
1 ATTAAAAACA-TAAAACTTCAATAAATTCTTCAATC
846553 ATTAAAAACA
1 ATTAAAAACA
846563 AATAATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 8 0.20
35 1 0.02
36 32 0.78
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.34
Consensus pattern (35 bp):
ATTAAAAACATAAAACTTCAATAAATTCTTCAATC
Found at i:846897 original size:17 final size:17
Alignment explanation
Indices: 846875--846908 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
846865 AATTAAACAA
846875 GTTTTACTAATCTGGGT
1 GTTTTACTAATCTGGGT
846892 GTTTTACTAATCTGGGT
1 GTTTTACTAATCTGGGT
846909 TGATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (17 bp):
GTTTTACTAATCTGGGT
Found at i:849337 original size:2 final size:2
Alignment explanation
Indices: 849332--849360 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
849322 ATAACATGTT
849332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
849361 CTGTGGCTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:851293 original size:18 final size:18
Alignment explanation
Indices: 851270--851335 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
851260 TGTAATTAAT
851270 TTCACTGTATATTACTAA
1 TTCACTGTATATTACTAA
* *
851288 TTCACTTTACCATAAATTACTCAT
1 TTCACTGT---AT--ATTACT-AA
851312 TTCACTGTATATTACTAA
1 TTCACTGTATATTACTAA
851330 TTCACT
1 TTCACT
851336 TTATTATCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
18 14 0.37
19 6 0.16
21 4 0.11
23 6 0.16
24 8 0.21
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (18 bp):
TTCACTGTATATTACTAA
Found at i:856408 original size:16 final size:18
Alignment explanation
Indices: 856382--856414 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
856372 TTGAATTATC
856382 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
856399 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
856415 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:858432 original size:22 final size:21
Alignment explanation
Indices: 858400--858445 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
858390 TATATCAAAT
* *
858400 ACCCAAGACCATAAACTCTTAA
1 ACCCAAAACCATAAA-TCCTAA
858422 ACCCAAAACCATAAATCCTAA
1 ACCCAAAACCATAAATCCTAA
858443 ACC
1 ACC
858446 ATAGATCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (21 bp):
ACCCAAAACCATAAATCCTAA
Found at i:866163 original size:2 final size:2
Alignment explanation
Indices: 866156--866189 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
866146 TGTGCGTGCA
*
866156 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
866190 AGAGAGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:874811 original size:31 final size:30
Alignment explanation
Indices: 874738--874816 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
874728 ATGCAATTTG
* *
874738 ATACATGAAA-TTTGATTTGGTACAATTAT
1 ATACATGAAACTTTGATTTAGTACAAATAT
* * * *
874767 ACACATAAAACTTTGATTGTAGTTCAAATGT
1 ATACATGAAACTTTGATT-TAGTACAAATAT
874798 ATACATGAAACTTTGATTT
1 ATACATGAAACTTTGATTT
874817 TGATTCGATC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 8 0.20
30 8 0.20
31 24 0.60
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (30 bp):
ATACATGAAACTTTGATTTAGTACAAATAT
Found at i:876178 original size:40 final size:40
Alignment explanation
Indices: 876123--876203 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
876113 CCAGCAACAC
876123 ATACCATACCAAACAGCATACTGTGTTTCCATGGTAGTCT
1 ATACCATACCAAACAGCATACTGTGTTTCCATGGTAGTCT
*
876163 ATACCATACCAAACAGCATATTGTGTTTCCATGGTAGTCT
1 ATACCATACCAAACAGCATACTGTGTTTCCATGGTAGTCT
876203 A
1 A
876204 ATAGTCTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (40 bp):
ATACCATACCAAACAGCATACTGTGTTTCCATGGTAGTCT
Found at i:879484 original size:38 final size:38
Alignment explanation
Indices: 879442--879522 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
879432 GTAGCCTTTC
879442 ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
1 ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
*
879480 ACTTATAAAAACAAACAAAAAGATATCTTTATTTTCTT
1 ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
879518 ACTTA
1 ACTTA
879523 ATGCTGCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (38 bp):
ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
Found at i:880272 original size:35 final size:35
Alignment explanation
Indices: 880233--880304 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
880223 AGTAATAGAG
880233 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
1 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
880268 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
1 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
880303 AA
1 AA
880305 ACCCGAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (35 bp):
AATGGCAATTGAGAACAGTATAACACCATTTTAAT
Found at i:895052 original size:32 final size:32
Alignment explanation
Indices: 895011--895071 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
895001 CAAATTTAGC
895011 TATACATTCAATTTCTAGGAAGAGAACTTGTA
1 TATACATTCAATTTCTAGGAAGAGAACTTGTA
895043 TATACATTCAATTTCTAGGAAGAGAACTT
1 TATACATTCAATTTCTAGGAAGAGAACTT
895072 TACTTATACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (32 bp):
TATACATTCAATTTCTAGGAAGAGAACTTGTA
Found at i:896766 original size:98 final size:98
Alignment explanation
Indices: 896649--896844 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
896639 ATTGTGTCGA
896649 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
1 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
896714 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
66 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
896747 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
1 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
896812 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
66 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
896845 ATACTTAAAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.51
Consensus pattern (98 bp):
TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
Found at i:904785 original size:6 final size:6
Alignment explanation
Indices: 904774--904802 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
904764 CATTACTGTT
904774 TACATC TACATC TACATC TACATC TACAT
1 TACATC TACATC TACATC TACATC TACAT
904803 ATTATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATC
Found at i:911274 original size:10 final size:10
Alignment explanation
Indices: 911252--911291 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
911242 TCATAAAATA
911252 TAAATATATTT
1 TAAATA-ATTT
911263 TAAATAATTT
1 TAAATAATTT
*
911273 TAAATAATAT
1 TAAATAATTT
*
911283 CAAATAATT
1 TAAATAATT
911292 CAATTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
TAAATAATTT
Found at i:922494 original size:2 final size:2
Alignment explanation
Indices: 922487--922526 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
922477 ATTCTTAAAA
922487 AT AT AT AT AT AT AT AT AT AT A- AT GAT -T A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
922527 GATTAAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 29 0.85
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:925269 original size:29 final size:31
Alignment explanation
Indices: 925231--925294 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 31
925221 AATATATATA
925231 TTTTATTTTTAAAAATA-TTTTAAAATACTT
1 TTTTATTTTTAAAAATATTTTTAAAATACTT
925261 TTTTATTTTT-AAAATATTTTTAAAATACTT
1 TTTTATTTTTAAAAATATTTTTAAAATACTT
925291 TTTT
1 TTTT
925295 TTTAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 6 0.18
30 27 0.82
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTATTTTTAAAAATATTTTTAAAATACTT
Found at i:926000 original size:21 final size:20
Alignment explanation
Indices: 925976--926015 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
925966 AAATCAAAAC
925976 AATTTTCAAAATTTCAAAATT
1 AATTTTCAAAA-TTCAAAATT
* *
925997 AATTTTTAGAATTCAAAAT
1 AATTTTCAAAATTCAAAAT
926016 ACTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (20 bp):
AATTTTCAAAATTCAAAATT
Found at i:926198 original size:16 final size:16
Alignment explanation
Indices: 926179--926209 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
926169 TTGAAAGAGT
926179 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
926195 TTTCAAATTTATATG
1 TTTCAAATATATATG
926210 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:926954 original size:24 final size:24
Alignment explanation
Indices: 926900--926955 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
926890 ATTCTATCTT
**
926900 TTATTTAATATATAATTAATTTTA
1 TTATTTAATATATAAAAAATTTTA
* *
926924 TTTTTTATTATATAAAAATATTTTA
1 TTATTTAATATATAAAAA-ATTTTA
926949 -TATTTAA
1 TTATTTAA
926956 AATAATGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTAATATATAAAAAATTTTA
Found at i:928241 original size:95 final size:96
Alignment explanation
Indices: 928077--928268 Score: 377
Period size: 95 Copynumber: 2.0 Consensus size: 96
928067 AAGTCACCCC
928077 AAAATGGAGAAAAAAATTAAACGTTTTTTTACTTTGTTGACGTGACATACACGTGGATAACACGT
1 AAAATGGAGAAAAAAATTAAACGTTTTTTTACTTTGTTGACGTGACATACACGTGGATAACACGT
928142 CAGCATTGAATTAATTTTTTAAAATTAAAAA
66 CAGCATTGAATTAATTTTTTAAAATTAAAAA
928173 AAAATGGAG-AAAAAATTAAACGTTTTTTTACTTTGTTGACGTGACATACACGTGGATAACACGT
1 AAAATGGAGAAAAAAATTAAACGTTTTTTTACTTTGTTGACGTGACATACACGTGGATAACACGT
928237 CAGCATTGAATTAATTTTTTAAAATTAAAAA
66 CAGCATTGAATTAATTTTTTAAAATTAAAAA
928268 A
1 A
928269 TATAAATATT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 87 0.91
96 9 0.09
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (96 bp):
AAAATGGAGAAAAAAATTAAACGTTTTTTTACTTTGTTGACGTGACATACACGTGGATAACACGT
CAGCATTGAATTAATTTTTTAAAATTAAAAA
Found at i:928313 original size:19 final size:20
Alignment explanation
Indices: 928260--928314 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
928250 ATTTTTTAAA
928260 ATTAAAAAATATAAATATTCT
1 ATTAAAAAATATAAA-ATTCT
* *
928281 TTTTAAAAAT-TAAAATTC-
1 ATTAAAAAATATAAAATTCT
928299 ATTAAAAAATATAAAA
1 ATTAAAAAATATAAAA
928315 GATATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 4 0.14
21 8 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAAAAAATATAAAATTCT
Found at i:928553 original size:28 final size:29
Alignment explanation
Indices: 928509--928564 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
928499 TTAACTAGCT
928509 TTTTTAAAAATTAAAAAATTA-TAAAAATC
1 TTTTTAAAAATT-AAAAATTATTAAAAATC
*
928538 TTTTT-AAAATTTAAAATTATTAAAAAT
1 TTTTTAAAAATTAAAAATTATTAAAAAT
928565 ATAAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 13 0.52
29 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTTTAAAAATTAAAAATTATTAAAAATC
Found at i:928597 original size:37 final size:38
Alignment explanation
Indices: 928514--928597 Score: 111
Period size: 37 Copynumber: 2.2 Consensus size: 38
928504 TAGCTTTTTT
928514 AAAAATTAAAAAATTATAAAAATCTTTTTAAAATTTAA
1 AAAAATTAAAAAATTATAAAAATCTTTTTAAAATTTAA
**
928552 AATTATT-AAAAA-TATAAAAA-CATTTTTTAAAATTTAA
1 AAAAATTAAAAAATTATAAAAATC--TTTTTAAAATTTAA
928589 AAAAATTAA
1 AAAAATTAA
928598 TTAAATGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 1 0.03
36 8 0.21
37 24 0.62
38 6 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (38 bp):
AAAAATTAAAAAATTATAAAAATCTTTTTAAAATTTAA
Found at i:928601 original size:20 final size:19
Alignment explanation
Indices: 928550--928602 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
928540 TTTAAAATTT
928550 AAAATTATTAAAAATATAAA
1 AAAATTATT-AAAATATAAA
* * *
928570 AACATTTTTTAAAATTTAAA
1 AA-AATTATTAAAATATAAA
928590 AAAATTAATTAAA
1 AAAATT-ATTAAA
928603 TGATGGCATG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 3 0.12
20 18 0.69
21 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTATTAAAATATAAA
Found at i:928983 original size:16 final size:16
Alignment explanation
Indices: 928962--928992 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
928952 TTTGCAACTC
928962 GATTTAAATTTAGACG
1 GATTTAAATTTAGACG
928978 GATTTAAATTTAGAC
1 GATTTAAATTTAGAC
928993 AAATTTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (16 bp):
GATTTAAATTTAGACG
Found at i:928998 original size:16 final size:16
Alignment explanation
Indices: 928963--929000 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
928953 TTGCAACTCG
**
928963 ATTTAAATTTAGACGG
1 ATTTAAATTTAGACAA
928979 ATTTAAATTTAGACAA
1 ATTTAAATTTAGACAA
928995 ATTTAA
1 ATTTAA
929001 GCATAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (16 bp):
ATTTAAATTTAGACAA
Found at i:929434 original size:2 final size:2
Alignment explanation
Indices: 929427--929453 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
929417 CATGGTTGTG
929427 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
929454 TTCTTGAGTG
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:929838 original size:35 final size:35
Alignment explanation
Indices: 929760--929840 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
929750 TTATACTAAT
* *
929760 AATTATTTTTCGTTGGAAAATATTTTATTTAACTC
1 AATTTTTTTTCGTTGGAAAATATTTGATTTAACTC
*
929795 AATCTTTTTTTCGTT-GACAAATATTTGGTTTAAC-C
1 AAT-TTTTTTTCGTTGGA-AAATATTTGATTTAACTC
929830 AAATTTTTTTT
1 -AATTTTTTTT
929841 GTGTAGTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 13 0.32
36 27 0.68
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (35 bp):
AATTTTTTTTCGTTGGAAAATATTTGATTTAACTC
Found at i:931608 original size:42 final size:42
Alignment explanation
Indices: 931549--931733 Score: 352
Period size: 42 Copynumber: 4.4 Consensus size: 42
931539 AACTGAAATG
931549 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
1 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
931591 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
1 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
931633 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
1 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
931675 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
1 ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
*
931717 GATATACATTCTTTAAC
1 -ATACACATTCTTTAAC
931734 CGAAATGATA
Statistics
Matches: 141, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
42 126 0.89
43 15 0.11
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.25
Consensus pattern (42 bp):
ATACACATTCTTTAACAGCTAACTACAAACAAAGATACTCAA
Found at i:937001 original size:26 final size:26
Alignment explanation
Indices: 936924--937004 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 26
936914 GCCTTTCTAT
936924 TTTTATTATTTTTA-TAAAATGTTACAATA
1 TTTTA-TATTTTTATTAAAAT-TT--AATA
* **
936953 TATTATATTTTT-TCTAATTTTTAATA
1 TTTTATATTTTTAT-TAAAATTTAATA
936979 TTTTATATTTTTATTAAAATTTAATA
1 TTTTATATTTTTATTAAAATTTAATA
937005 AAATTTATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
26 25 0.58
27 1 0.02
28 9 0.21
29 8 0.19
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (26 bp):
TTTTATATTTTTATTAAAATTTAATA
Found at i:938184 original size:20 final size:20
Alignment explanation
Indices: 938137--938185 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
938127 AATTTAGTAC
* * *
938137 TTTAATAAATAATAATTATA
1 TTTATTAAAAAATAAATATA
938157 -TTATTTAAAAAATAAATATA
1 TTTA-TTAAAAAATAAATATA
938177 TTTATTAAA
1 TTTATTAAA
938186 GAAACTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATTAAAAAATAAATATA
Found at i:939998 original size:169 final size:169
Alignment explanation
Indices: 939798--940393 Score: 1131
Period size: 169 Copynumber: 3.5 Consensus size: 169
939788 CCAAGTAATT
*
939798 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTCAAACCAT
1 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
* *
939863 ACATTATCATATTCATAAAGTAT-TCGTTACTCAACCGCATTAAACACCACAAACATATTAAGCC
66 ACATTATCATATTCATAAATTATCT-GTTACTCAACCACATTAAACACCACAAACATATTAAGCC
*
939927 ACACATACATATACATATCAAAATATGTCCAACTCAAGCC
130 ACACATACATATACATATCAAAATGTGTCCAACTCAAGCC
939967 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
1 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
940032 ACATTATCATATTCATAAATTATCTGTTACTCAACCACATTAAACACCACAAACATATTAAGCCA
66 ACATTATCATATTCATAAATTATCTGTTACTCAACCACATTAAACACCACAAACATATTAAGCCA
940097 CACATACATATACATATCAAAATGTGTCCAACTCAAGCC
131 CACATACATATACATATCAAAATGTGTCCAACTCAAGCC
940136 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
1 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
940201 ACATTATCATATTCATAAATTATCTGTTACTCAACCACATTAAACACCACAAACATATTAAGCCA
66 ACATTATCATATTCATAAATTATCTGTTACTCAACCACATTAAACACCACAAACATATTAAGCCA
940266 CACATACATATACATATCAAAATGTGTCCAACTCAAGCC
131 CACATACATATACATATCAAAATGTGTCCAACTCAAGCC
*
940305 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTGTCTTAAACCAT
1 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
940370 ACATTATCATATTCATAAATTATC
66 ACATTATCATATTCATAAATTATC
940394 CGTGGGGAAG
Statistics
Matches: 421, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
169 420 1.00
170 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.32
Consensus pattern (169 bp):
AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTTAAACCAT
ACATTATCATATTCATAAATTATCTGTTACTCAACCACATTAAACACCACAAACATATTAAGCCA
CACATACATATACATATCAAAATGTGTCCAACTCAAGCC
Found at i:942587 original size:10 final size:9
Alignment explanation
Indices: 942569--942628 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 9
942559 TTATTTTTTT
942569 AAATT-TAA
1 AAATTATAA
*
942577 AACTTCATAA
1 AAATT-ATAA
942587 AAATTATAAA
1 AAATTAT-AA
*
942597 AATATTTTTAA
1 AA-A-TTATAA
942608 AAATTATAA
1 AAATTATAA
942617 AATATTATAA
1 AA-ATTATAA
942627 AA
1 AA
942629 TATTTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.10
9 9 0.21
10 21 0.50
11 5 0.12
12 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:942610 original size:21 final size:20
Alignment explanation
Indices: 942584--942622 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
942574 TAAAACTTCA
942584 TAAAAATTATAAAAATATTTT
1 TAAAAATTAT-AAAATATTTT
942605 TAAAAATTATAAAATATT
1 TAAAAATTATAAAATATT
942623 ATAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATTATAAAATATTTT
Found at i:942629 original size:10 final size:10
Alignment explanation
Indices: 942583--942632 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
942573 TTAAAACTTC
942583 ATAAAA-ATT
1 ATAAAATATT
942592 ATAAAAATATTT
1 AT-AAAATA-TT
*
942604 TTAAAA-ATT
1 ATAAAATATT
942613 ATAAAATATT
1 ATAAAATATT
942623 ATAAAATATT
1 ATAAAATATT
942633 TTTAATATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
9 9 0.26
10 18 0.51
11 5 0.14
12 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAAATATT
Found at i:942629 original size:30 final size:31
Alignment explanation
Indices: 942572--942637 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
942562 TTTTTTTAAA
*
942572 TTTAAAACTTCATAAAAATTATAAAAATATT
1 TTTAAAAATTCATAAAAATTATAAAAATATT
942603 TTTAAAAATT-ATAAAATATTAT-AAAATATT
1 TTTAAAAATTCATAAAA-ATTATAAAAATATT
942633 TTTAA
1 TTTAA
942638 TATACCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTAAAAATTCATAAAAATTATAAAAATATT
Found at i:945232 original size:30 final size:30
Alignment explanation
Indices: 945198--945255 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
945188 TATTATCATG
945198 GGAATTCCTTGATGCTGGACCAACCTTTAA
1 GGAATTCCTTGATGCTGGACCAACCTTTAA
* *
945228 GGAATTCCTTTATGTTGGACCAACCTTT
1 GGAATTCCTTGATGCTGGACCAACCTTT
945256 GAGAAATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (30 bp):
GGAATTCCTTGATGCTGGACCAACCTTTAA
Found at i:949430 original size:44 final size:44
Alignment explanation
Indices: 949366--949452 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
949356 GCTAAGTCTT
* **
949366 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTC
1 ATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCGACAAATCTC
* *
949410 ATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGCGACAAATCT
1 ATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCGACAAATCT
949453 TGTACCTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCGACAAATCTC
Found at i:949464 original size:44 final size:43
Alignment explanation
Indices: 949365--949472 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
949355 AGCTAAGTCT
* * **
949365 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATC
1 TATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCGACAAATC
*
949408 TCATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGCGACAAATC
1 T-ATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCGACAAATC
*
949452 T-TGTACCTTTGAAGTTACAGT
1 TATCT-CC-TTGAAGTTACAGT
949473 AGGTCGGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 2 0.04
43 3 0.05
44 50 0.91
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (43 bp):
TATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCGACAAATC
Found at i:950863 original size:16 final size:17
Alignment explanation
Indices: 950842--950874 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
950832 ATGTCTAGGT
950842 AAATT-ATTAATTGAGA
1 AAATTAATTAATTGAGA
950858 AAATTAGATTAATTGAG
1 AAATTA-ATTAATTGAG
950875 GGGTTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AAATTAATTAATTGAGA
Found at i:952512 original size:40 final size:40
Alignment explanation
Indices: 952457--952532 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
952447 NCATACTGAG
* *
952457 TTGTGAAAAGTAGGTATGGTGTTTTGGTGAAGAAAACCAT
1 TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAACCAT
952497 TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAA
1 TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAA
952533 TCATACTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (40 bp):
TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAACCAT
Found at i:953819 original size:3 final size:3
Alignment explanation
Indices: 953802--953896 Score: 59
Period size: 3 Copynumber: 32.0 Consensus size: 3
953792 CGTTATTTTC
* * ** *
953802 ATT ATT AGT AGT ATT ATT ATT -TAT ATT ATT AAA AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
953847 ATT AAT GTC ATC ATT ACT A-T AGT ATT ATT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
953894 ATT
1 ATT
953897 CACTTATTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
2 3 0.04
3 69 0.95
4 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:954307 original size:24 final size:21
Alignment explanation
Indices: 954280--954322 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
954270 ATATTTTAAT
954280 TTACATACGTATATATGTATATGC
1 TTACATA--TATATAT-TATATGC
954304 TTACATATATATATTATAT
1 TTACATATATATATTATAT
954323 AATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
24 7 0.37
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (21 bp):
TTACATATATATATTATATGC
Found at i:961561 original size:19 final size:19
Alignment explanation
Indices: 961534--961572 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
961524 TCAATCATCT
*
961534 ACAGGAAATATACAC-GCAA
1 ACAGCAAATA-ACACAGCAA
961553 ACAGCAAATAACACAGCAA
1 ACAGCAAATAACACAGCAA
961572 A
1 A
961573 AATAGCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (19 bp):
ACAGCAAATAACACAGCAA
Found at i:962642 original size:16 final size:16
Alignment explanation
Indices: 962623--962658 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
962613 TTATTTAGTT
962623 ATTTATTTA-TTCTTGC
1 ATTTATTTATTTCTT-C
962639 ATTTATTTATTTCTTC
1 ATTTATTTATTTCTTC
962655 ATTT
1 ATTT
962659 CCCTTGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTATTTATTTCTTC
Found at i:970489 original size:1 final size:1
Alignment explanation
Indices: 970432--970473 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
970422 AAGGAGTAGA
* * *
970432 TTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
970474 AAATGAACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:974425 original size:24 final size:24
Alignment explanation
Indices: 974377--974431 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
974367 TATTCAATTT
974377 TCATA-TTTCAATTCAATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
*
974401 TCATATTTTCCATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
974425 TCA-ATTT
1 TCATATTT
974432 AATCACAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:977554 original size:150 final size:154
Alignment explanation
Indices: 977265--977559 Score: 411
Period size: 150 Copynumber: 1.9 Consensus size: 154
977255 CTCAGGTCTG
* * *
977265 CTCACACAAGCTGTCAGTCTTTTGTTACTACTCAGTGCTGCACTGTTGCTTACACAAGCTGTCAG
1 CTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTG-AC--TTGC-TACACAAGCTATCAG
* * *
977330 GTATTCGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAACACCCGAGTTCAC
62 GTATCCGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAACACCAGAGTCCAC
*
977395 ATTAATCACAGTTTCGCATCACGACCTA
127 ATTAATCACAATTTCGCATCACGACCTA
977423 CTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTG-C-T-C-ACACAAGCTATCAGGTAT
1 CTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGACTTGCTACACAAGCTATCAGGTAT
* * *
977484 CCGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTATGACCAACGCTCAGA-TCCACTTT
66 CCGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAACAC-CAGAGTCCACATT
*
977548 ATTCACAATTTC
130 AATCACAATTTC
977560 ACATAGATCT
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
150 81 0.65
151 3 0.02
152 1 0.01
153 1 0.01
156 1 0.01
158 38 0.30
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (154 bp):
CTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGACTTGCTACACAAGCTATCAGGTAT
CCGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAACACCAGAGTCCACATTA
ATCACAATTTCGCATCACGACCTA
Found at i:1001002 original size:37 final size:37
Alignment explanation
Indices: 1000960--1001033 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
1000950 TCCTCACAAC
*
1000960 ATTTTTGCTCTTACTCTTTCTTCTAACAAGTTCCATG
1 ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTCCATG
*
1000997 ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTTCATG
1 ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTCCATG
1001034 GTATACTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.49
Consensus pattern (37 bp):
ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTCCATG
Found at i:1004658 original size:22 final size:22
Alignment explanation
Indices: 1004609--1004658 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1004599 GGTTCAATTG
1004609 AATAAATTATTAAAAATAAAAT
1 AATAAATTATTAAAAATAAAAT
*
1004631 ATTAAA-TATTAAAAAATAGAAA-
1 AATAAATTATT-AAAAATA-AAAT
1004653 AATAAA
1 AATAAA
1004659 AAAATTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.17
22 17 0.71
23 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AATAAATTATTAAAAATAAAAT
Found at i:1006132 original size:20 final size:20
Alignment explanation
Indices: 1006107--1006148 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1006097 CTATTTCATA
*
1006107 TTTAGTAAATTATATTAAAT
1 TTTAGTAAATTACATTAAAT
**
1006127 TTTAGTGTATTACATTAAAT
1 TTTAGTAAATTACATTAAAT
1006147 TT
1 TT
1006149 CAAACTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (20 bp):
TTTAGTAAATTACATTAAAT
Found at i:1042072 original size:2 final size:2
Alignment explanation
Indices: 1042065--1042089 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1042055 TGAGCTTAAT
1042065 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 T
1042090 GGAAATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1048698 original size:2 final size:2
Alignment explanation
Indices: 1048691--1049449 Score: 1518
Period size: 2 Copynumber: 379.5 Consensus size: 2
1048681 TTTTACTGCA
1048691 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048733 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048775 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048817 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048859 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048901 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048943 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1048985 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049027 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049069 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049111 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049153 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049195 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049237 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049279 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049321 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049363 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049405 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1049447 TG T
1 TG T
1049450 TCAATTGGTG
Statistics
Matches: 757, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 757 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1055051 original size:47 final size:48
Alignment explanation
Indices: 1054980--1055075 Score: 176
Period size: 47 Copynumber: 2.0 Consensus size: 48
1054970 CTTGCATATT
1054980 TTAATTTATCAATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGG
1 TTAATTTATC-ATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGG
1055029 TTAATTTATC-TTTTCCTACCAGCATTAGATACTAATTTTAATTGAGG
1 TTAATTTATCATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGG
1055076 ATCCATGGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 37 0.79
49 10 0.21
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (48 bp):
TTAATTTATCATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGG
Found at i:1067383 original size:3 final size:3
Alignment explanation
Indices: 1067375--1067412 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1067365 TAATTCTGTT
1067375 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1067413 GAGATCAAAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1071840 original size:6 final size:6
Alignment explanation
Indices: 1071829--1071853 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1071819 TGAAACAAAA
1071829 TTCACT TTCACT TTCACT TTCACT T
1 TTCACT TTCACT TTCACT TTCACT T
1071854 AGCCGTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCACT
Found at i:1075282 original size:3 final size:3
Alignment explanation
Indices: 1075274--1075299 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1075264 TAATTATTTA
1075274 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1075300 AAGCAAGTAT
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:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1082704 original size:18 final size:18
Alignment explanation
Indices: 1082677--1082721 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1082667 AATATTAAAA
1082677 TTTTATTTTAA-AAATAT
1 TTTTATTTTAATAAATAT
*
1082694 TTTTCATTTTAATAATTA-
1 TTTT-ATTTTAATAAATAT
1082712 TTTTATTTTA
1 TTTTATTTTA
1082722 CTATTTGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 11 0.44
19 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTTTAATAAATAT
Found at i:1083715 original size:6 final size:6
Alignment explanation
Indices: 1083706--1083745 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
1083696 AATTTCTCTA
*
1083706 TCTCTC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTC
1083746 AGTCGAAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCTCCC
Found at i:1085123 original size:31 final size:33
Alignment explanation
Indices: 1085069--1085129 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
1085059 TAAGTATTTT
*
1085069 TTTTATAAAATTCTAAAATATATA-ATTATAAG
1 TTTTATAAAATTCTAAAAAATATATATTATAAG
1085101 TTTTA-AAAATTC-AAAACAATATATATTAT
1 TTTTATAAAATTCTAAAA-AATATATATTAT
1085130 GTCTGACGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 12 0.46
32 10 0.38
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (33 bp):
TTTTATAAAATTCTAAAAAATATATATTATAAG
Found at i:1085218 original size:50 final size:50
Alignment explanation
Indices: 1085141--1085340 Score: 213
Period size: 50 Copynumber: 4.0 Consensus size: 50
1085131 TCTGACGAGA
1085141 CGAGACGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCAC
1 CGAGACGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCAC
* * * * * *
1085191 CAAGACGAGAGGTCCCATGTGAGACCATGTCTGGGATATGGCGTTGGTAC
1 CGAGACGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCAC
* * ** * * *
1085241 CGAGATGAGAAGTCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCAC
1 CGAGACGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCAC
* * ** *
1085291 CGACATGAGAACATCCCATGTAAGACCATGTCT-AGGACATGGCTTTGGCA
1 CGAGACGAG-AGGTCCCATGTAAGACCATGTCTGA-GACATGGCATTGGCA
1085341 TGTTATTATC
Statistics
Matches: 122, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 91 0.75
51 31 0.25
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
CGAGACGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCAC
Found at i:1087931 original size:283 final size:280
Alignment explanation
Indices: 1087321--1088166 Score: 1453
Period size: 283 Copynumber: 3.0 Consensus size: 280
1087311 TAATACAAAG
* *
1087321 TTCCATTGAAATAATTACACAAAATCATCAAACATTTCCAATTTGGATTGAAATACTTGACAACT
1 TTCCATTG-AATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACT
* *
1087386 TAATTAACTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTACATTTTCATT
65 TAATTAATTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATT
*
1087451 CATCAGCTCAAACACACAAACATCACCCACCTCGAATTCATGTACATCGCAAATTGTCCCCAACT
130 CATCAGCTCAAACACACAAACATCTCCCACCTCGAATTCATGT-CATCGCAAATTGTCCCCAACT
*
1087516 CTTACCCCCAAACACTGCTTTTCTACCTTTACTCCTTCCTCTTCTTTCATACTCATCTTTCCAAC
194 CTTACCCCCAAACACTGCTTTTCTACCTTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAAC
*
1087581 TCCTCCCATCCGCAACTCTCAG
259 TCCTCCCATCCGCAACTCTCAA
*
1087603 TTCCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGATAACTT
1 TTCCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTT
1087668 AATTAATTTCGACGAGTAAAAGCTTGCGAT-AAGTGACAACTTCCAACAAGTTTCCATTTTCATT
66 AATTAATTTCGACGAGTAAAAGCTTGCGATGAA-TGACAACTTCCAACAAGTTTCCATTTTCATT
*
1087732 CATCAGCTCAAACACACAAACATCTCCCACCTCGAATTCATGGTCTATTGCAAATTGTCCCCCAA
130 CATCAGCTCAAACACACAAACATCTCCCACCTCGAATTCAT-GTC-ATCGCAAATTGT-CCCCAA
* *
1087797 TTCTTACCCCCAACCACTGCTTTTCTACCTTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCA
192 CTCTTACCCCCAAACACTGCTTTTCTACCTTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCA
1087862 ACTCCTCCCATCCGCAACTCTCAA
257 ACTCCTCCCATCCGCAACTCTCAA
*
1087886 TTCCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGATTGAAATACTTGACAACTT
1 TTCCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTT
*
1087951 AATTAATTTCGATGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTC
66 AATTAATTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTC
*
1088016 ATCAGCTCAAACACACAAACGTCTCCCACCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACT
131 ATCAGCTCAAACACACAAACATCTCCCACCTCGAATTCA-TGT-CATCGCAAATTGTCCCCAACT
* *
1088081 CTTACCCTCAAACACTGCTTTTCTA-CTTGTACTCCTTCCTCTTCTTTCATACTCAACATTCCAA
194 CTTACCCCCAAACACTGCTTTTCTACCTT-TACTCCTTCCTCTTCTTTCATACTCAACTTTCCAA
1088145 CTCCTCCCATCCGCAACTCTCA
258 CTCCTCCCATCCGCAACTCTCA
1088167 GCATCATTTC
Statistics
Matches: 536, Mismatches: 20, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
280 2 0.00
281 157 0.29
282 107 0.20
283 266 0.50
284 4 0.01
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (280 bp):
TTCCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTT
AATTAATTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTC
ATCAGCTCAAACACACAAACATCTCCCACCTCGAATTCATGTCATCGCAAATTGTCCCCAACTCT
TACCCCCAAACACTGCTTTTCTACCTTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTC
CTCCCATCCGCAACTCTCAA
Found at i:1094427 original size:3 final size:3
Alignment explanation
Indices: 1094419--1094444 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1094409 AGCCTATTCT
1094419 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1094445 GGTCATTATC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1099162 original size:16 final size:16
Alignment explanation
Indices: 1099141--1099189 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
1099131 NNNNNTTGCT
1099141 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
1099157 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
1099173 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
1099189 A
1 A
1099190 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.22, C:0.37, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:1104970 original size:423 final size:423
Alignment explanation
Indices: 1104184--1105030 Score: 1694
Period size: 423 Copynumber: 2.0 Consensus size: 423
1104174 AGAAGTGGGG
1104184 TAACAATGGAGATATCTGTGCGAAAGAGACACGACGGAACATTAGAGTTGTAGTATGTTTCTACC
1 TAACAATGGAGATATCTGTGCGAAAGAGACACGACGGAACATTAGAGTTGTAGTATGTTTCTACC
1104249 AACGTACAACTTGTTTTCCCCTGTACTCTGTGTCTGTGCCTCAGTTACAGTTCAATTATTATTAA
66 AACGTACAACTTGTTTTCCCCTGTACTCTGTGTCTGTGCCTCAGTTACAGTTCAATTATTATTAA
1104314 GTTTTAAAAGTAATTTTTTTAAGTATTAAATTAAAAAAAAAGATTTCTTTTCTTTTCTTTTGAGG
131 GTTTTAAAAGTAATTTTTTTAAGTATTAAATTAAAAAAAAAGATTTCTTTTCTTTTCTTTTGAGG
1104379 GATAAAGTACTTGATTTTTACTTTTATGCATAACCTTTATGTTAAAATTGGTGGTTTACTTGTAT
196 GATAAAGTACTTGATTTTTACTTTTATGCATAACCTTTATGTTAAAATTGGTGGTTTACTTGTAT
1104444 GTTACTCATTGGTTAGATGTCAATAAAACATCGCAAGCTGATGTTATACCACTCTGTATGACTGT
261 GTTACTCATTGGTTAGATGTCAATAAAACATCGCAAGCTGATGTTATACCACTCTGTATGACTGT
1104509 GCAGGTTGCTGGAGGTGATGGTACAGTTGGTTGGGTTCTTGGATGTCTCGGAGAACTTCATCAAA
326 GCAGGTTGCTGGAGGTGATGGTACAGTTGGTTGGGTTCTTGGATGTCTCGGAGAACTTCATCAAA
1104574 AAGGTCGAGACCCGGTTCCTCCAGTAGCTGTGA
391 AAGGTCGAGACCCGGTTCCTCCAGTAGCTGTGA
1104607 TAACAATGGAGATATCTGTGCGAAAGAGACACGACGGAACATTAGAGTTGTAGTATGTTTCTACC
1 TAACAATGGAGATATCTGTGCGAAAGAGACACGACGGAACATTAGAGTTGTAGTATGTTTCTACC
1104672 AACGTACAACTTGTTTTCCCCTGTACTCTGTGTCTGTGCCTCAGTTACAGTTCAATTATTATTAA
66 AACGTACAACTTGTTTTCCCCTGTACTCTGTGTCTGTGCCTCAGTTACAGTTCAATTATTATTAA
1104737 GTTTTAAAAGTAATTTTTTTAAGTATTAAATTAAAAAAAAAGATTTCTTTTCTTTTCTTTTGAGG
131 GTTTTAAAAGTAATTTTTTTAAGTATTAAATTAAAAAAAAAGATTTCTTTTCTTTTCTTTTGAGG
1104802 GATAAAGTACTTGATTTTTACTTTTATGCATAACCTTTATGTTAAAATTGGTGGTTTACTTGTAT
196 GATAAAGTACTTGATTTTTACTTTTATGCATAACCTTTATGTTAAAATTGGTGGTTTACTTGTAT
1104867 GTTACTCATTGGTTAGATGTCAATAAAACATCGCAAGCTGATGTTATACCACTCTGTATGACTGT
261 GTTACTCATTGGTTAGATGTCAATAAAACATCGCAAGCTGATGTTATACCACTCTGTATGACTGT
1104932 GCAGGTTGCTGGAGGTGATGGTACAGTTGGTTGGGTTCTTGGATGTCTCGGAGAACTTCATCAAA
326 GCAGGTTGCTGGAGGTGATGGTACAGTTGGTTGGGTTCTTGGATGTCTCGGAGAACTTCATCAAA
1104997 AAGGTCGAGACCCGGTTCCTCCAGTAGCTGTGA
391 AAGGTCGAGACCCGGTTCCTCCAGTAGCTGTGA
1105030 T
1 T
1105031 TCCACTTGGT
Statistics
Matches: 424, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
423 424 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (423 bp):
TAACAATGGAGATATCTGTGCGAAAGAGACACGACGGAACATTAGAGTTGTAGTATGTTTCTACC
AACGTACAACTTGTTTTCCCCTGTACTCTGTGTCTGTGCCTCAGTTACAGTTCAATTATTATTAA
GTTTTAAAAGTAATTTTTTTAAGTATTAAATTAAAAAAAAAGATTTCTTTTCTTTTCTTTTGAGG
GATAAAGTACTTGATTTTTACTTTTATGCATAACCTTTATGTTAAAATTGGTGGTTTACTTGTAT
GTTACTCATTGGTTAGATGTCAATAAAACATCGCAAGCTGATGTTATACCACTCTGTATGACTGT
GCAGGTTGCTGGAGGTGATGGTACAGTTGGTTGGGTTCTTGGATGTCTCGGAGAACTTCATCAAA
AAGGTCGAGACCCGGTTCCTCCAGTAGCTGTGA
Found at i:1112567 original size:21 final size:22
Alignment explanation
Indices: 1112512--1112567 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
1112502 ACTAAGACTC
1112512 AATCGACAATTCTGAAGCGCATT
1 AATCGACAATT-TGAAGCGCATT
** *
1112535 -ATCCTCCTATTT-AAGCGCATT
1 AAT-CGACAATTTGAAGCGCATT
1112556 AATCGACAATTT
1 AATCGACAATTT
1112568 TTTCATATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
21 15 0.60
22 5 0.20
23 5 0.20
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (22 bp):
AATCGACAATTTGAAGCGCATT
Found at i:1118348 original size:6 final size:6
Alignment explanation
Indices: 1118337--1118361 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1118327 TTCTTAAAAT
1118337 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
1118362 CCGGCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:1122285 original size:20 final size:21
Alignment explanation
Indices: 1122257--1122300 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1122247 TTTATATGAT
1122257 AATTAAAAAAAATA-AAATCA
1 AATTAAAAAAAATAGAAATCA
* *
1122277 AATTGAAAAAAATAGAAATGA
1 AATTAAAAAAAATAGAAATCA
1122298 AAT
1 AAT
1122301 GTTACATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (21 bp):
AATTAAAAAAAATAGAAATCA
Found at i:1126339 original size:7 final size:7
Alignment explanation
Indices: 1126312--1126351 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
1126302 CTACTATAAT
1126312 ATTAAAA
1 ATTAAAA
1126319 A-TAAAA
1 ATTAAAA
* *
1126325 ACTCAAA
1 ATTAAAA
1126332 ATTAAAA
1 ATTAAAA
1126339 ATTAAAA
1 ATTAAAA
1126346 ATTAAA
1 ATTAAA
1126352 GTGCAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (7 bp):
ATTAAAA
Found at i:1130595 original size:28 final size:27
Alignment explanation
Indices: 1130563--1130633 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
1130553 TTTTGGGATT
*
1130563 AAATTTTAGGGTTTAACATAATTTTTAA
1 AAATTTTAGGGTTTAACAGAA-TTTTAA
* **
1130591 AAATTTTACGAGTTTAATGGAATTTTAA
1 AAATTTTA-GGGTTTAACAGAATTTTAA
*
1130619 AAA-TTAAGGGTTTAA
1 AAATTTTAGGGTTTAA
1130634 TTAAAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.19
27 3 0.08
28 17 0.47
29 9 0.25
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (27 bp):
AAATTTTAGGGTTTAACAGAATTTTAA
Found at i:1130614 original size:29 final size:28
Alignment explanation
Indices: 1130585--1130683 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
1130575 TTAACATAAT
*
1130585 TTTTAAAAATTTTACGAGTTTAATGGAA
1 TTTTAAAAATTTTAAGAGTTTAATGGAA
* **
1130613 TTTTAAAAA--TTAAGGGTTTAATTAAAA
1 TTTTAAAAATTTTAAGAGTTTAA-TGGAA
* ** * *
1130640 TTTTTAATTTTTTATGAGATTAATGAGAA
1 TTTTAAAAATTTTAAGAGTTTAATG-GAA
1130669 TTTTAAAAATTTTAA
1 TTTTAAAAATTTTAA
1130684 AAGAGATCAA
Statistics
Matches: 51, Mismatches: 16, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
26 10 0.20
27 9 0.18
28 10 0.20
29 22 0.43
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.46
Consensus pattern (28 bp):
TTTTAAAAATTTTAAGAGTTTAATGGAA
Found at i:1130797 original size:20 final size:20
Alignment explanation
Indices: 1130760--1130799 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1130750 AATTAAAGAA
* **
1130760 TTTTTAAAATTTTTAATTTT
1 TTTTTAAAACTTCAAATTTT
1130780 TTTTTAAAACTTCAAATTTT
1 TTTTTAAAACTTCAAATTTT
1130800 CCAAAATTTT
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:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAAAACTTCAAATTTT
Found at i:1133125 original size:14 final size:14
Alignment explanation
Indices: 1133106--1133140 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1133096 TACAATATCC
1133106 AAATAGTAACAACA
1 AAATAGTAACAACA
*
1133120 AAATAGTAACATCA
1 AAATAGTAACAACA
*
1133134 TAATAGT
1 AAATAGT
1133141 GAAATAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:1134050 original size:20 final size:19
Alignment explanation
Indices: 1134025--1134100 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
1134015 ATTATATATA
1134025 AAAATAATTTTCAAAATTTT
1 AAAATAATTTT-AAAATTTT
1134045 AAAAT-ATTTATAAAAATTTT
1 AAAATAATTT-T-AAAATTTT
*
1134065 AATATTTATATTTTAAAATTTT
1 AA-A-ATA-ATTTTAAAATTTT
*
1134087 AAAA-AATTCTAAAA
1 AAAATAATTTTAAAA
1134101 ATATATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.17
19 5 0.11
20 16 0.34
21 2 0.04
22 11 0.23
23 1 0.02
24 4 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATAATTTTAAAATTTT
Found at i:1134070 original size:18 final size:19
Alignment explanation
Indices: 1134037--1134074 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
1134027 AATAATTTTC
1134037 AAAATTTTAAAATATTTATA
1 AAAATTTT-AAATATTTATA
1134057 AAAATTTT-AATATTTATA
1 AAAATTTTAAATATTTATA
1134075 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTTTAAATATTTATA
Found at i:1135793 original size:18 final size:18
Alignment explanation
Indices: 1135766--1135804 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1135756 AAATTTGAAA
*
1135766 TAACATAATAGAAAACAC
1 TAACACAATAGAAAACAC
1135784 TAACACAATAGAAAACAC
1 TAACACAATAGAAAACAC
1135802 TAA
1 TAA
1135805 AGAATTGATA
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:0.62, C:0.18, G:0.05, T:0.15
Consensus pattern (18 bp):
TAACACAATAGAAAACAC
Done.