Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold258
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: 5730937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 25
Found at i:4939952 original size:8 final size:8
Alignment explanation
Indices: 4939941--4939968 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4939931 AATGATGAAA
4939941 AAAAAAAC
1 AAAAAAAC
4939949 AAAAAAAC
1 AAAAAAAC
4939957 AAAAAAAC
1 AAAAAAAC
4939965 AAAA
1 AAAA
4939969 GTAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4940775 original size:18 final size:19
Alignment explanation
Indices: 4940745--4940806 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
4940735 TGTATTTGTG
4940745 TTATTTTTATATAA-AATT
1 TTATTTTTATATAATAATT
4940763 TTATATTTT-TATAATAATT
1 TTAT-TTTTATATAATAATT
**
4940782 TT-TTTACATATTAATAA-T
1 TTATTTTTATA-TAATAATT
4940800 TTATTTT
1 TTATTTT
4940807 ATTTTATGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.06
18 15 0.42
19 19 0.53
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTATATAATAATT
Found at i:4941115 original size:15 final size:14
Alignment explanation
Indices: 4941095--4941155 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
4941085 TTATAAAATT
4941095 TTTAATTAAAAAAA
1 TTTAATTAAAAAAA
*
4941109 TTATAATTAATAAAA
1 TT-TAATTAAAAAAA
* *
4941124 TTTATTTAAAAATA
1 TTTAATTAAAAAAA
* *
4941138 TTTAA-CAAATAAA
1 TTTAATTAAAAAAA
4941151 TTTAA
1 TTTAA
4941156 AGTTAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.26
14 15 0.39
15 13 0.34
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATTAAAAAAA
Found at i:4941128 original size:16 final size:16
Alignment explanation
Indices: 4941087--4941128 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
4941077 TTTAATATTT
*
4941087 ATAAAATTTTTAATTA
1 ATAAAATTTATAATTA
*
4941103 A-AAAAATTATAATTA
1 ATAAAATTTATAATTA
4941118 ATAAAATTTAT
1 ATAAAATTTAT
4941129 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAAATTTATAATTA
Found at i:4942561 original size:15 final size:15
Alignment explanation
Indices: 4942541--4942573 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4942531 CGTGCAAGTG
4942541 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
4942556 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
4942571 AAA
1 AAA
4942574 TTATGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:4942631 original size:17 final size:17
Alignment explanation
Indices: 4942609--4942665 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
4942599 ATTTAAAATA
4942609 TTATATTTTGTATATTT
1 TTATATTTTGTATATTT
* *
4942626 TTATATATT-AATAATTT
1 TTATATTTTGTAT-ATTT
*
4942643 TTTTATTTTATGTATATTT
1 TTATA-TTT-TGTATATTT
4942662 TTAT
1 TTAT
4942666 GTATATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 2 0.07
17 16 0.53
18 2 0.07
19 8 0.27
20 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (17 bp):
TTATATTTTGTATATTT
Found at i:4942662 original size:11 final size:11
Alignment explanation
Indices: 4942646--4942676 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
4942636 ATAATTTTTT
4942646 TATTTTATGTA
1 TATTTTATGTA
4942657 TATTTTTATGTA
1 TA-TTTTATGTA
4942669 TATTTTAT
1 TATTTTAT
4942677 TTTATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (11 bp):
TATTTTATGTA
Found at i:4942665 original size:12 final size:12
Alignment explanation
Indices: 4942648--4942674 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4942638 AATTTTTTTA
4942648 TTTTATGTATAT
1 TTTTATGTATAT
4942660 TTTTATGTATAT
1 TTTTATGTATAT
4942672 TTT
1 TTT
4942675 ATTTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTATGTATAT
Found at i:4942755 original size:19 final size:18
Alignment explanation
Indices: 4942731--4942780 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
4942721 ATTTAAAATA
4942731 TTATAAATTTATGTAGTAT
1 TTATAAATTTATGTA-TAT
* *
4942750 TTATAAATATTTTTTATAT
1 TTATAAAT-TTATGTATAT
*
4942769 TTATATATTTAT
1 TTATAAATTTAT
4942781 TTTATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 18 0.69
20 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TTATAAATTTATGTATAT
Found at i:4942783 original size:19 final size:19
Alignment explanation
Indices: 4942747--4942789 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4942737 ATTTATGTAG
4942747 TATTTATAAATATTTTTTA
1 TATTTATAAATATTTTTTA
*
4942766 TATTTATATAT-TTATTTTA
1 TATTTATAAATATT-TTTTA
4942785 TATTT
1 TATTT
4942790 TTTTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTATAAATATTTTTTA
Found at i:4943193 original size:24 final size:25
Alignment explanation
Indices: 4943155--4943216 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
4943145 TATGTTCGTG
*
4943155 TTATTTT-TATATTAA-AATATTATA
1 TTATTTTACATATTAATAAT-TTATA
*
4943179 TT-TTTTACATATTAATAATTTATT
1 TTATTTTACATATTAATAATTTATA
*
4943203 TTATTTTATATATT
1 TTATTTTACATATT
4943217 TTTTTATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.12
24 15 0.47
25 13 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTATTTTACATATTAATAATTTATA
Found at i:4943652 original size:43 final size:46
Alignment explanation
Indices: 4943605--4943701 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 46
4943595 AATTTATCTT
4943605 ATATTTTATATAAATAAATTTTA-AATT-TAAATTTATTT-ATTAA
1 ATATTTTATATAAATAAATTTTATAATTATAAATTTATTTAATTAA
*
4943648 ATA-TTT-T-TAAATAAATTTTATTAATTATAATTTTATTTAATTAA
1 ATATTTTATATAAATAAATTTTA-TAATTATAAATTTATTTAATTAA
*
4943692 AAATTTTATA
1 ATATTTTATA
4943702 AATATTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
40 13 0.29
41 1 0.02
42 7 0.16
43 13 0.29
44 7 0.16
45 3 0.07
46 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (46 bp):
ATATTTTATATAAATAAATTTTATAATTATAAATTTATTTAATTAA
Found at i:4949762 original size:6 final size:6
Alignment explanation
Indices: 4949751--4949776 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4949741 TATATTAAAA
4949751 ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT AT
4949777 TAAATACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:4952013 original size:4 final size:4
Alignment explanation
Indices: 4952004--4952031 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4951994 AAAATAAGAA
4952004 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4952032 CAGATAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:4953342 original size:28 final size:28
Alignment explanation
Indices: 4953310--4953378 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
4953300 GGTAACGTTA
* *
4953310 AATATGATA-AAAAAATTATATAAAATAT
1 AATATAATATAAAAAATTA-AAAAAATAT
*
4953338 AATATAATATTAAAAATTAAAAAAATAT
1 AATATAATATAAAAAATTAAAAAAATAT
4953366 -ATATAAATATAAA
1 AATAT-AATATAAA
4953379 TATTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.11
28 23 0.66
29 8 0.23
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (28 bp):
AATATAATATAAAAAATTAAAAAAATAT
Found at i:4954983 original size:15 final size:16
Alignment explanation
Indices: 4954963--4954993 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4954953 ATATAAACAC
4954963 AATAT-AAATTTTAAA
1 AATATAAAATTTTAAA
4954978 AATATAAAATTTTAAA
1 AATATAAAATTTTAAA
4954994 TATGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATAAAATTTTAAA
Found at i:4958222 original size:13 final size:13
Alignment explanation
Indices: 4958204--4958230 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4958194 GAACAGCAGC
4958204 AGAAACTACAGTT
1 AGAAACTACAGTT
4958217 AGAAACTACAGTT
1 AGAAACTACAGTT
4958230 A
1 A
4958231 CTCATTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGAAACTACAGTT
Found at i:4961615 original size:15 final size:15
Alignment explanation
Indices: 4961557--4961619 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
4961547 TTTTTATAAT
4961557 TTAATTTAAATATTAATA
1 TTAATTT-AAT-TTAA-A
*
4961575 TTATTTTAATTAATAAA
1 TTAATTTAATT--TAAA
4961592 -TAA-TT-ATTTAAA
1 TTAATTTAATTTAAA
4961604 TTAATTTAATTTAAA
1 TTAATTTAATTTAAA
4961619 T
1 T
4961620 AAATAATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
12 4 0.11
13 3 0.08
14 5 0.13
15 10 0.26
16 3 0.08
17 4 0.11
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATTTAATTTAAA
Found at i:4961974 original size:10 final size:10
Alignment explanation
Indices: 4961924--4961976 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
4961914 TTAGTTATTT
*
4961924 AAATAGTATA
1 AAATATTATA
4961934 AAAT-TT-TA
1 AAATATTATA
*
4961942 AAATATTAAA
1 AAATATTATA
4961952 CAAATA-T-TA
1 -AAATATTATA
4961961 AAATATTATA
1 AAATATTATA
4961971 AAATAT
1 AAATAT
4961977 AAATAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
8 11 0.31
9 5 0.14
10 14 0.40
11 5 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AAATATTATA
Found at i:4962144 original size:17 final size:17
Alignment explanation
Indices: 4962118--4962151 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4962108 TCACTCAATC
4962118 TCACAATTATAATAATT
1 TCACAATTATAATAATT
*
4962135 TCACAGTTATAATAATT
1 TCACAATTATAATAATT
4962152 AAATTCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (17 bp):
TCACAATTATAATAATT
Found at i:4963833 original size:27 final size:27
Alignment explanation
Indices: 4963775--4963849 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
4963765 TCAACGTTCC
* * *
4963775 ATTAGATGTAATTTGAT-CTAAGAAAA
1 ATTAAATGTAATTTAATAATAAGAAAA
* *
4963801 TTTAAATGTAATTTAATAATAATAAAA
1 ATTAAATGTAATTTAATAATAAGAAAA
4963828 ATTAAATGATATAATTTAATAA
1 ATTAAATG---TAATTTAATAA
4963850 AATCATATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 14 0.36
27 14 0.36
30 11 0.28
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (27 bp):
ATTAAATGTAATTTAATAATAAGAAAA
Found at i:4967513 original size:56 final size:56
Alignment explanation
Indices: 4967447--4967564 Score: 211
Period size: 56 Copynumber: 2.1 Consensus size: 56
4967437 TTTATTTATA
*
4967447 TATTAAGTAAATGTTATTCATTTATAAAAATTATTTGGTACATAATTAATAAAATT
1 TATTAAGTAAATATTATTCATTTATAAAAATTATTTGGTACATAATTAATAAAATT
*
4967503 TATTAAGTAAATATTATTCATTTATAAAAATTATTTGGTACATAATTAATCAAATT
1 TATTAAGTAAATATTATTCATTTATAAAAATTATTTGGTACATAATTAATAAAATT
4967559 T-TTAAG
1 TATTAAG
4967565 CTCTACAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 5 0.08
56 55 0.92
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (56 bp):
TATTAAGTAAATATTATTCATTTATAAAAATTATTTGGTACATAATTAATAAAATT
Found at i:4968976 original size:25 final size:24
Alignment explanation
Indices: 4968948--4969023 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 24
4968938 AAAGGCAGTG
4968948 AGATTAAATATTATAATAATAAAAT
1 AGATTAAATA-TATAATAATAAAAT
* * *
4968973 AGATTATAATAAAAAATAAAAAAAT
1 AGATTA-AATATATAATAATAAAAT
*
4968998 ATATTAAAATAGATATATATAATAAA
1 AGATT-AAAT--ATATA-ATAATAAA
4969024 TTATTAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
25 24 0.62
26 5 0.13
27 3 0.08
28 7 0.18
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (24 bp):
AGATTAAATATATAATAATAAAAT
Found at i:4968980 original size:18 final size:17
Alignment explanation
Indices: 4968957--4968990 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4968947 GAGATTAAAT
4968957 ATTATAATAATAAAATAG
1 ATTATAATAA-AAAATAG
4968975 ATTATAATAAAAAATA
1 ATTATAATAAAAAATA
4968991 AAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATTATAATAAAAAATAG
Found at i:4969067 original size:37 final size:35
Alignment explanation
Indices: 4968962--4969075 Score: 99
Period size: 35 Copynumber: 3.2 Consensus size: 35
4968952 TAAATATTAT
* * *
4968962 AATAATAAAATAGAT-TATAATAAAAAATAA-AAAA
1 AATATTAAAATAGATATAT-ATAATAAATAATTAAA
*
4968996 ATATATTAAAATAGATATATATAATAAATTATTAAA
1 A-ATATTAAAATAGATATATATAATAAATAATTAAA
* *
4969032 AATATTAAAATTATATTTATATGAA-ATAATAATTAAA
1 AATATTAAAA-TAGATATATAT-AATA-AATAATTAAA
*
4969069 ATTATTA
1 AATATTA
4969076 CATTAAAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
34 1 0.02
35 31 0.47
36 17 0.26
37 17 0.26
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (35 bp):
AATATTAAAATAGATATATATAATAAATAATTAAA
Found at i:4970045 original size:38 final size:41
Alignment explanation
Indices: 4969962--4970043 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
4969952 TATTAATAAA
**
4969962 TTTATTATTATTATTTAAAAAATTATATTTAATATATTATT
1 TTTATTATTAAAATTTAAAAAATTATATTTAATATATTATT
*
4970003 TTTATTATTAAAATTTTAAAAA-TAT-TTTAATTATATT-TT
1 TTTATTATTAAAATTTAAAAAATTATATTTAA-TATATTATT
4970042 TT
1 TT
4970044 ATAAATATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 9 0.24
40 9 0.24
41 19 0.51
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTATTATTAAAATTTAAAAAATTATATTTAATATATTATT
Found at i:4971243 original size:3 final size:3
Alignment explanation
Indices: 4971237--4971269 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4971227 CTTATTATCT
4971237 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4971270 AAGGGAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4977770 original size:14 final size:14
Alignment explanation
Indices: 4977751--4977790 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4977741 TATGTTCTTC
4977751 ATATATATATAATT
1 ATATATATATAATT
*
4977765 ATATATTTATAATT
1 ATATATATATAATT
* *
4977779 ATTTATAAATAA
1 ATATATATATAA
4977791 AATGATAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATATATAATT
Found at i:4992383 original size:19 final size:17
Alignment explanation
Indices: 4992358--4992406 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4992348 TATTTTTATG
*
4992358 TTTAAATATAATATGAAT
1 TTTAAATATAATA-AAAT
*
4992376 TATTAAATATATTAAAAT
1 T-TTAAATATAATAAAAT
4992394 TTTAAATATAATA
1 TTTAAATATAATA
4992407 CATATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.41
18 5 0.19
19 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAAATATAATAAAAT
Found at i:4992390 original size:9 final size:9
Alignment explanation
Indices: 4992376--4992427 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
4992366 TAATATGAAT
4992376 TATTAAATA
1 TATTAAATA
4992385 TATTAAA-A
1 TATTAAATA
*
4992393 TTTTAAATA
1 TATTAAATA
* *
4992402 TAATACATA
1 TATTAAATA
*
4992411 TATTAAACA
1 TATTAAATA
4992420 TATTAAAT
1 TATTAAAT
4992428 TAATTATATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (9 bp):
TATTAAATA
Found at i:4992412 original size:26 final size:26
Alignment explanation
Indices: 4992373--4992431 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4992363 ATATAATATG
* * *
4992373 AATTATTAAATATATTAAA-ATTTTA
1 AATTAATACATATATTAAACATATTA
4992398 AATATAATACATATATTAAACATATTA
1 AAT-TAATACATATATTAAACATATTA
4992425 AATTAAT
1 AATTAAT
4992432 TATATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 3 0.10
26 18 0.62
27 8 0.28
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAATACATATATTAAACATATTA
Found at i:4992423 original size:35 final size:36
Alignment explanation
Indices: 4992358--4992426 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
4992348 TATTTTTATG
* *
4992358 TTTAAATATAATATGAATTATTAAATATATTAAAAT
1 TTTAAATATAATATCAATTATTAAACATATTAAAAT
4992394 TTTAAATATAATA-C-ATATATTAAACATATTAAA
1 TTTAAATATAATATCAAT-TATTAAACATATTAAA
4992427 TTAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 2 0.07
35 15 0.50
36 13 0.43
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (36 bp):
TTTAAATATAATATCAATTATTAAACATATTAAAAT
Found at i:4993304 original size:35 final size:35
Alignment explanation
Indices: 4993263--4993333 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
4993253 AAATTATATT
* *
4993263 AATATTTATATATTTTATAAT-TAAATTTAAATAAA
1 AATATTTATAAATATTA-AATATAAATTTAAATAAA
* *
4993298 AATATTTTTAAATATTAAATATTAATTTAAATAAA
1 AATATTTATAAATATTAAATATAAATTTAAATAAA
4993333 A
1 A
4993334 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 3 0.10
35 28 0.90
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
AATATTTATAAATATTAAATATAAATTTAAATAAA
Found at i:4993326 original size:19 final size:18
Alignment explanation
Indices: 4993286--4993333 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
4993276 TTTATAATTA
4993286 AATTTAAATAAAAATATT
1 AATTTAAATAAAAATATT
*
4993304 --TTTAAATATTAAATATT
1 AATTTAAATA-AAAATATT
4993321 AATTTAAATAAAA
1 AATTTAAATAAAA
4993334 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 2 0.08
19 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTTAAATAAAAATATT
Found at i:4993334 original size:17 final size:17
Alignment explanation
Indices: 4993286--4993334 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
4993276 TTTATAATTA
4993286 AATTTAAATAAAAATATT
1 AATTTAAAT-AAAATATT
4993304 --TTTAAATATTAAATATT
1 AATTTAAATA--AAATATT
4993321 AATTTAAATAAAAT
1 AATTTAAATAAAAT
4993335 TAAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
15 1 0.04
16 7 0.26
17 11 0.41
19 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTTAAATAAAATATT
Found at i:4993741 original size:25 final size:26
Alignment explanation
Indices: 4993687--4993742 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
4993677 AAAAAATATA
* *
4993687 ATAATATTATTTTTTATTTCATTATT
1 ATAATATTATTTTTTAATTCATAATT
4993713 -TAATA-TATTTTTATAATTCA-AATT
1 ATAATATTATTTTT-TAATTCATAATT
4993737 ATAATA
1 ATAATA
4993743 ATAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAATATTATTTTTTAATTCATAATT
Found at i:4994367 original size:73 final size:73
Alignment explanation
Indices: 4994220--4994366 Score: 260
Period size: 72 Copynumber: 2.0 Consensus size: 73
4994210 TCTAAGTAAA
*
4994220 TTATTTTCACGAATCTATACATAATATTAAAATTAACTATACAAATTTACGAGGTGTTGACACGT
1 TTATTTTCACGAATCTATACATAATATTAAAATTAACTATAAAAATTTACGAGGTGTTGACACGT
4994285 GATAATTT
66 GATAATTT
* *
4994293 TTATTTTCATGAATCTATACATAATATT-AAATTAACTATAAAAATTTATGAGGTGTTGACACGT
1 TTATTTTCACGAATCTATACATAATATTAAAATTAACTATAAAAATTTACGAGGTGTTGACACGT
4994357 GATAATTT
66 GATAATTT
4994365 TT
1 TT
4994367 TTGAGTTTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 44 0.62
73 27 0.38
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (73 bp):
TTATTTTCACGAATCTATACATAATATTAAAATTAACTATAAAAATTTACGAGGTGTTGACACGT
GATAATTT
Found at i:4994519 original size:35 final size:32
Alignment explanation
Indices: 4994425--4994522 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 32
4994415 AAAATATTTG
4994425 TATTTATATTTATGT-TATTTTTTATATGTAAAA
1 TATTT-TATTTATGTATA-TTTTTATATGTAAAA
* * *
4994458 TATTATATTTTTGTAT-TTTTTATATATGAATAA
1 TATTTTATTTATGTATATTTTTATATGT-AA-AA
4994491 TTTATTTTATTTCATGTATATTTTTATATGTA
1 --TATTTTATTT-ATGTATATTTTTATATGTA
4994523 TATGTATTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 10 0.19
32 10 0.19
33 7 0.13
35 9 0.17
36 6 0.12
37 10 0.19
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (32 bp):
TATTTTATTTATGTATATTTTTATATGTAAAA
Found at i:4995987 original size:20 final size:20
Alignment explanation
Indices: 4995947--4995987 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4995937 TTTATGTATC
*
4995947 AAAAATATTATAAATTTATA
1 AAAAATATTATAAATTAATA
* *
4995967 AAAAATTTTATATATTAATA
1 AAAAATATTATAAATTAATA
4995987 A
1 A
4995988 TTAGTATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATATTATAAATTAATA
Found at i:4996078 original size:45 final size:45
Alignment explanation
Indices: 4996029--4996135 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
4996019 TATTAGCATC
* * *
4996029 ATATTTATATTATTTTTTATGCTGTGTTTAATTATTTTTT-ATGTT
1 ATATTTATATTATGTTTTATGCTAT-TTTAATTATTTTTTAATATT
* * **
4996074 ATATTCATATTGTGTTTTATTTTATTTTAATTATTTTTTAATATT
1 ATATTTATATTATGTTTTATGCTATTTTAATTATTTTTTAATATT
*
4996119 ATATTTGTATTATGTTT
1 ATATTTATATTATGTTT
4996136 CAATTTATCT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 14 0.27
45 37 0.73
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (45 bp):
ATATTTATATTATGTTTTATGCTATTTTAATTATTTTTTAATATT
Found at i:4996221 original size:15 final size:16
Alignment explanation
Indices: 4996202--4996242 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
4996192 TTTTTAAAAT
4996202 AAATTTTATTAATT-A
1 AAATTTTATTAATTAA
*
4996217 TAATTTTATTTAATTAA
1 AAATTTTA-TTAATTAA
4996234 AAATTTTAT
1 AAATTTTAT
4996243 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTTTATTAATTAA
Found at i:4996229 original size:16 final size:16
Alignment explanation
Indices: 4996163--4996242 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 16
4996153 GATATAATTA
*
4996163 AATTTTAATTTTAAATTT
1 AATTATAATTTT--ATTT
*
4996181 ATTTATTAATTTT-TTT
1 AATTA-TAATTTTATTT
*
4996197 AA-AATAAATTTTA-TT
1 AATTAT-AATTTTATTT
4996212 AATTATAATTTTATTT
1 AATTATAATTTTATTT
*
4996228 AATTAAAAATTTTAT
1 AATT-ATAATTTTAT
4996243 AAATATTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.02
15 18 0.36
16 12 0.24
17 9 0.18
18 3 0.06
19 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTATAATTTTATTT
Found at i:4996567 original size:18 final size:18
Alignment explanation
Indices: 4996533--4996567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4996523 ATCAATCAAA
* *
4996533 AAGATTTTACTTTATACT
1 AAGATTTTAATTCATACT
4996551 AAGATTTTAATTCATAC
1 AAGATTTTAATTCATAC
4996568 CATGCGTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (18 bp):
AAGATTTTAATTCATACT
Found at i:4996851 original size:15 final size:15
Alignment explanation
Indices: 4996831--4996860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4996821 TAACACTGTC
*
4996831 AAAAAATTAAAAAAT
1 AAAAAATAAAAAAAT
4996846 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
4996861 TGTGGGGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:4997138 original size:3 final size:3
Alignment explanation
Indices: 4997130--4997157 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4997120 AAAACGCTCC
4997130 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4997158 TACTCTGTTC
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:5001099 original size:29 final size:29
Alignment explanation
Indices: 5001027--5001099 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 29
5001017 TACATTCAAT
* * *
5001027 TTATTTTTAATATTTTTATGTTTAAAAAAA
1 TTATTATTAA-ATATTTATATTTAAAAAAA
* * *
5001057 TTATATATT-TATATTTATATTTAAATATA
1 TTAT-TATTAAATATTTATATTTAAAAAAA
5001086 TTATTATTAAATAT
1 TTATTATTAAATAT
5001100 AAACACTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 4 0.12
31 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (29 bp):
TTATTATTAAATATTTATATTTAAAAAAA
Found at i:5001896 original size:3 final size:3
Alignment explanation
Indices: 5001890--5001923 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5001880 AAAAAATGTT
5001890 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
5001924 CTAACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5002493 original size:24 final size:23
Alignment explanation
Indices: 5002461--5002541 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 23
5002451 ATTTTTATTT
5002461 AAAT-TTAATTATAAAAATATATA
1 AAATATTAATTATAAAAATA-ATA
5002484 AAATATTAA-TAT-AAAATAATA
1 AAATATTAATTATAAAAATAATA
5002505 ATTTAATATT-ATTATAAATAATTAAATA
1 A---AATATTAATTATAAA-AA-T-AATA
*
5002533 AAATTTTAA
1 AAATATTAA
5002542 ATTAATCTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
21 4 0.09
22 6 0.13
23 8 0.17
24 13 0.28
25 7 0.15
26 3 0.06
27 1 0.02
28 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATTAATTATAAAAATAATA
Found at i:5002497 original size:13 final size:13
Alignment explanation
Indices: 5002479--5002541 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
5002469 TTATAAAAAT
5002479 ATATAAAATATTA
1 ATATAAAATATTA
*
5002492 ATATAAAATAATA
1 ATATAAAATATTA
*
5002505 AT-T-TAATATTA
1 ATATAAAATATTA
*
5002516 TTAT-AAATAATTA
1 ATATAAAAT-ATTA
*
5002529 A-ATAAAATTTTA
1 ATATAAAATATTA
5002541 A
1 A
5002542 ATTAATCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.17
12 11 0.28
13 22 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAAAATATTA
Found at i:5002990 original size:3 final size:3
Alignment explanation
Indices: 5002982--5003009 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5002972 ATTTTCTTTA
5002982 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5003010 AGAAGATTAG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:5010328 original size:26 final size:27
Alignment explanation
Indices: 5010299--5010360 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
5010289 TTAATAAATT
5010299 TAAAATTTAAAT-TAAAAAAATATTTA
1 TAAAATTTAAATCTAAAAAAATATTTA
* * * *
5010325 TAAAATTTGAATCTCAAGAATTATTTA
1 TAAAATTTAAATCTAAAAAAATATTTA
5010352 TAATAATTT
1 TAA-AATTT
5010361 TTTATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.37
27 14 0.47
28 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (27 bp):
TAAAATTTAAATCTAAAAAAATATTTA
Found at i:5010919 original size:22 final size:22
Alignment explanation
Indices: 5010894--5010937 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5010884 ATGTGATGAA
* *
5010894 TAATTTGATATTCGAAAATTTT
1 TAATTTAAAATTCGAAAATTTT
*
5010916 TAATTTAAAATTCTAAAATTTT
1 TAATTTAAAATTCGAAAATTTT
5010938 ACAGTGAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTTAAAATTCGAAAATTTT
Found at i:5012166 original size:2 final size:2
Alignment explanation
Indices: 5012108--5012148 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
5012098 ATGCACTTTC
5012108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5012149 GTACACACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5016303 original size:22 final size:22
Alignment explanation
Indices: 5016275--5016326 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
5016265 TTAATGTGCA
* *
5016275 AATTCTTTATAGTATTTTATTC
1 AATTCTTCATAGTACTTTATTC
*
5016297 AATTCTTCATATTACTTTATTC
1 AATTCTTCATAGTACTTTATTC
5016319 AATTCTTC
1 AATTCTTC
5016327 CAAATCAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTCTTCATAGTACTTTATTC
Found at i:5018543 original size:38 final size:38
Alignment explanation
Indices: 5018492--5018567 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
5018482 AACATCACCA
5018492 ATGCATTTGGAGTCCATCCTTATCTTATCTTTATTTCT
1 ATGCATTTGGAGTCCATCCTTATCTTATCTTTATTTCT
5018530 ATGCATTTGGAGTCCATCCTTATCTTATCTTTATTTCT
1 ATGCATTTGGAGTCCATCCTTATCTTATCTTTATTTCT
5018568 CTTAGTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (38 bp):
ATGCATTTGGAGTCCATCCTTATCTTATCTTTATTTCT
Found at i:5024229 original size:2 final size:2
Alignment explanation
Indices: 5024180--5024213 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5024170 TTACATGGTG
*
5024180 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5024214 TCCACTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5026175 original size:39 final size:40
Alignment explanation
Indices: 5026119--5026212 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
5026109 ATAACAACCT
*
5026119 TAATTTAATATTGTTTTCTTTTACTATTT-AATTTTTTTA
1 TAATTTAATATTATTTTCTTTTACTATTTAAATTTTTTTA
*
5026158 TAATTTAATATTATTTTCTTTTCCTATTTAAATTTTTTTA
1 TAATTTAATATTATTTTCTTTTACTATTTAAATTTTTTTA
* *
5026198 TAATTAAATTTTATT
1 TAATTTAATATTATT
5026213 ATCAATCTCG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 27 0.54
40 23 0.46
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (40 bp):
TAATTTAATATTATTTTCTTTTACTATTTAAATTTTTTTA
Found at i:5027474 original size:2 final size:2
Alignment explanation
Indices: 5027469--5027497 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5027459 AAAAAAAAAA
5027469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5027498 AACATTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5031820 original size:2 final size:2
Alignment explanation
Indices: 5031813--5031840 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5031803 TTTACATAAA
5031813 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
5031841 GGCACAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5033213 original size:2 final size:2
Alignment explanation
Indices: 5033206--5033231 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5033196 TTTCCAGAAC
5033206 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
5033232 AGTAAGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5034534 original size:15 final size:17
Alignment explanation
Indices: 5034447--5034534 Score: 62
Period size: 16 Copynumber: 5.4 Consensus size: 17
5034437 TAAACATGAA
*
5034447 ATAATAAATAATATAAAT
1 ATAATAAA-ATTATAAAT
*
5034465 TTAATAAGAATATATAAA-
1 ATAATAA-AAT-TATAAAT
* *
5034483 ATGATTAAATTAT--AT
1 ATAATAAAATTATAAAT
*
5034498 AT-ATAAAATTATTAAT
1 ATAATAAAATTATAAAT
5034514 ATAATAAAATT-TAAAT
1 ATAATAAAATTATAAAT
5034530 A-AATA
1 ATAATA
5034535 TATTTTTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.18
15 6 0.11
16 12 0.21
17 11 0.19
18 11 0.19
19 7 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAATAAAATTATAAAT
Found at i:5037749 original size:12 final size:12
Alignment explanation
Indices: 5037734--5037797 Score: 78
Period size: 12 Copynumber: 5.4 Consensus size: 12
5037724 TTTTTTTAAG
*
5037734 TATTTATATATA
1 TATTTAAATATA
5037746 TA-TTAAATATAA
1 TATTTAAATAT-A
5037758 TATTT-AATATA
1 TATTTAAATATA
5037769 TATTTAAATATA
1 TATTTAAATATA
* *
5037781 AATATAAATATA
1 TATTTAAATATA
5037793 TATTT
1 TATTT
5037798 TTTAATATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
11 13 0.30
12 29 0.66
13 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTTAAATATA
Found at i:5037785 original size:30 final size:29
Alignment explanation
Indices: 5037749--5037838 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 29
5037739 ATATATATAT
*
5037749 TAAATATAATATTTAATATATATTTAAATA
1 TAAATATAA-ATTTAATATATTTTTAAATA
*
5037779 TAAATATAAATAT-ATAT-TTTTTAATATA
1 TAAATATAAATTTAATATATTTTTAA-ATA
* * *
5037807 TAAAAAATAAATTAAATATATTTTTACATA
1 T-AAATATAAATTTAATATATTTTTAAATA
5037837 TA
1 TA
5037839 TTTATATTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 6 0.12
28 8 0.16
29 13 0.26
30 17 0.34
31 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAATATAAATTTAATATATTTTTAAATA
Found at i:5044435 original size:18 final size:17
Alignment explanation
Indices: 5044414--5044447 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5044404 CTTAATCATG
*
5044414 TAAAATATATATTATAAT
1 TAAAAAATATA-TATAAT
5044432 TAAAAAATATATATAA
1 TAAAAAATATATATAA
5044448 AATATTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAATATATATAAT
Found at i:5045526 original size:16 final size:15
Alignment explanation
Indices: 5045505--5045581 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
5045495 CAACAAGCAG
5045505 TTTTTTATTTTTTATT
1 TTTTTTA-TTTTTATT
5045521 TTTTTTATTTTTATT
1 TTTTTTATTTTTATT
* *
5045536 TATTATTATTATTATT
1 T-TTTTTATTTTTATT
* * *
5045552 ATTATTATTATTATT
1 TTTTTTATTTTTATT
* * *
5045567 ATTATTATTATTATT
1 TTTTTTATTTTTATT
5045582 ATCATTATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 38 0.67
16 19 0.33
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTATTTTTATT
Found at i:5045541 original size:3 final size:3
Alignment explanation
Indices: 5045525--5045590 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
5045515 TTTATTTTTT
*
5045525 TTA TTT TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5045571 TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
5045591 CACGGTTTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5049592 original size:15 final size:15
Alignment explanation
Indices: 5049569--5049598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5049559 ATCATGTACC
*
5049569 TTAACCTATAACAGT
1 TTAAACTATAACAGT
5049584 TTAAACTATAACAGT
1 TTAAACTATAACAGT
5049599 GATTAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (15 bp):
TTAAACTATAACAGT
Found at i:5051721 original size:97 final size:97
Alignment explanation
Indices: 5051546--5051740 Score: 266
Period size: 97 Copynumber: 2.0 Consensus size: 97
5051536 AGGATCAATC
* * *
5051546 ACAGAAATAACCATCAACAACCAAAGCATTGCTATAAGTTTCAATTGACAAAAAGTTCTCATCAC
1 ACAGAAATAACCAACAACAACCAAAGCATTGCTATAAGTTTAAATTGACAAAAAGTCCTCATCAC
* *
5051611 AGCATTCCGCTTCCCTTAATAAGAGTAGCAAA
66 AGCAGTCCACTTCCCTTAATAAGAGTAGCAAA
* * * * *
5051643 ACAGAAATAACTAACAACAACCTAAGTATTGTTGTATA-TTTAAATTGACAAAAAGTCCTCATCA
1 ACAGAAATAACCAACAACAACCAAAGCATTGCTATA-AGTTTAAATTGACAAAAAGTCCTCATCA
* *
5051707 CAGCAGTCCACTTCCCTTACTATGAGTAGCAAA
65 CAGCAGTCCACTTCCCTTAATAAGAGTAGCAAA
5051740 A
1 A
5051741 TTTATGTACA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 84 0.99
98 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (97 bp):
ACAGAAATAACCAACAACAACCAAAGCATTGCTATAAGTTTAAATTGACAAAAAGTCCTCATCAC
AGCAGTCCACTTCCCTTAATAAGAGTAGCAAA
Found at i:5054663 original size:15 final size:16
Alignment explanation
Indices: 5054643--5054680 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5054633 AGAGTCATTT
5054643 AAAAAAATAGA-CAAA
1 AAAAAAATAGATCAAA
* *
5054658 AAAAAAATTGATGAAA
1 AAAAAAATAGATCAAA
5054674 AAAAAAA
1 AAAAAAA
5054681 AAAGAAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAAAAATAGATCAAA
Found at i:5058601 original size:2 final size:2
Alignment explanation
Indices: 5058596--5058630 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5058586 AAACTATAAA
5058596 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5058631 CATAATGTTG
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:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5060845 original size:30 final size:32
Alignment explanation
Indices: 5060815--5060877 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
5060805 AACATAATAA
*
5060815 AAATACATGAATATGTAAATATTTATATAAAAT
1 AAAT-CATGAATATATAAATATTTATATAAAAT
* *
5060848 AAATCATTAATGTATAAATATTTATATAAA
1 AAATCATGAATATATAAATATTTATATAAA
5060878 TTTATAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (32 bp):
AAATCATGAATATATAAATATTTATATAAAAT
Found at i:5061527 original size:18 final size:19
Alignment explanation
Indices: 5061488--5061528 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5061478 TTTAACATAT
5061488 ACATAAAAAATAAAATACA
1 ACATAAAAAATAAAATACA
* *
5061507 ACATGAAAAATAATATA-A
1 ACATAAAAAATAAAATACA
5061525 ACAT
1 ACAT
5061529 TGTACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (19 bp):
ACATAAAAAATAAAATACA
Found at i:5062595 original size:22 final size:22
Alignment explanation
Indices: 5062567--5062617 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
5062557 TATAGACTAG
5062567 TTTGTAGCTTATTTTAAATATA
1 TTTGTAGCTTATTTTAAATATA
5062589 TTTGTAGCTTATTTTAAATATA
1 TTTGTAGCTTATTTTAAATATA
*
5062611 TTAGTAG
1 TTTGTAG
5062618 ATAGCGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (22 bp):
TTTGTAGCTTATTTTAAATATA
Found at i:5062927 original size:12 final size:13
Alignment explanation
Indices: 5062906--5062935 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
5062896 GAGAAAGAAA
5062906 AAAAAGAAAAGAG
1 AAAAAGAAAAGAG
5062919 AAAAA-AAAAGAG
1 AAAAAGAAAAGAG
5062931 AAAAA
1 AAAAA
5062936 TTTTGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAG
Found at i:5062935 original size:20 final size:20
Alignment explanation
Indices: 5062895--5062934 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5062885 AGTTTTTTTT
5062895 AGAGAAAGAAAAAAAAGAAA
1 AGAGAAAGAAAAAAAAGAAA
*
5062915 AGAGAAA-AAAAAAGAGAAA
1 AGAGAAAGAAAAAAAAGAAA
5062934 A
1 A
5062935 ATTTTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAGAAAGAAAAAAAAGAAA
Found at i:5063225 original size:11 final size:12
Alignment explanation
Indices: 5063209--5063242 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
5063199 TCGTATCGTG
5063209 TTTATATTAT-T
1 TTTATATTATAT
5063220 TTTATATTATAT
1 TTTATATTATAT
5063232 TTTA-ATTATAT
1 TTTATATTATAT
5063243 ATATATGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:5063779 original size:58 final size:59
Alignment explanation
Indices: 5063669--5063781 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 59
5063659 TGTAATATTC
* * * *
5063669 GTATCGTATCTCCATTCATAACATATTTTATGTAATTTTTTATAATAATTTAATTTAAT
1 GTATCATATCTCAATTCATAACATATTTTATATAATTTGTTATAATAATTTAATTTAAT
* * *
5063728 GTATCATATCTCAATTCGTAACAT-TTTT-TCATAATTTGTTATAGTGATTTAATT
1 GTATCATATCTCAATTCATAACATATTTTAT-ATAATTTGTTATAATAATTTAATT
5063782 AAAAAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 1 0.02
58 24 0.52
59 21 0.46
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (59 bp):
GTATCATATCTCAATTCATAACATATTTTATATAATTTGTTATAATAATTTAATTTAAT
Found at i:5063943 original size:23 final size:20
Alignment explanation
Indices: 5063914--5063973 Score: 77
Period size: 19 Copynumber: 2.9 Consensus size: 20
5063904 GTCAAGAAAT
5063914 AAAGAAAAAAAGAAAGAGAAAG
1 AAAGAAAAAAAGAAA-A-AAAG
*
5063936 AGGAGAAAAAAAG-AAAAAAG
1 A-AAGAAAAAAAGAAAAAAAG
5063956 AAAGAAAAAAAGAAAAAA
1 AAAGAAAAAAAGAAAAAA
5063974 TTATGTATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 10 0.29
20 10 0.29
21 1 0.03
22 3 0.09
23 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAAGAAAAAAAG
Found at i:5063957 original size:24 final size:23
Alignment explanation
Indices: 5063916--5063960 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
5063906 CAAGAAATAA
*
5063916 AGAAAAAAAGAAAGAGAAAGAGG
1 AGAAAAAAAGAAAAAGAAAGAGG
5063939 AGAAAAAAAGAAAAAAGAAAGA
1 AGAAAAAAAG-AAAAAGAAAGA
5063961 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAGAAAAAGAAAGAGG
Found at i:5063961 original size:4 final size:4
Alignment explanation
Indices: 5063907--5063970 Score: 53
Period size: 4 Copynumber: 16.5 Consensus size: 4
5063897 TAATTCTGTC
* * * *
5063907 AAGA AATA AAGA AAAA AAGA AAG- -AGA AAGA GGAGA AAAA AAGA AA-A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA
*
5063953 AAGA AAGA AAAA AAGA AA
1 AAGA AAGA AAGA AAGA AA
5063971 AAATTATGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
2 2 0.04
3 3 0.07
4 38 0.83
5 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:5064802 original size:15 final size:15
Alignment explanation
Indices: 5064784--5064836 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 15
5064774 TCAATTCGTG
5064784 ATATTTTTTATATAA
1 ATATTTTTTATATAA
* *
5064799 ATA-TTTATATATTA
1 ATATTTTTTATATAA
5064813 ATAATTTATTTTATATAA
1 AT-A-TT-TTTTATATAA
5064831 ATATTT
1 ATATTT
5064837 ATATGTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 11 0.37
15 5 0.17
16 2 0.07
17 2 0.07
18 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTTTTTATATAA
Found at i:5064827 original size:20 final size:22
Alignment explanation
Indices: 5064802--5064851 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
5064792 TATATAAATA
5064802 TTTATATATTAATAATT-TAT-
1 TTTATATATTAATAATTATATG
*
5064822 TTTATATA--AATATTTATATG
1 TTTATATATTAATAATTATATG
5064842 TTTATATATT
1 TTTATATATT
5064852 TCTGTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 3 0.12
20 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTATATATTAATAATTATATG
Found at i:5064847 original size:18 final size:17
Alignment explanation
Indices: 5064794--5064847 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
5064784 ATATTTTTTA
*
5064794 TATAAATATTTATATAT
1 TATAAATATTTATATTT
*
5064811 TA-ATA-ATTTAT-TTT
1 TATAAATATTTATATTT
5064825 ATATAAATATTTATATGTT
1 -TATAAATATTTATAT-TT
5064844 TATA
1 TATA
5064848 TATTTCTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
14 2 0.07
15 8 0.28
16 4 0.14
17 8 0.28
18 5 0.17
19 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATAAATATTTATATTT
Found at i:5064957 original size:22 final size:22
Alignment explanation
Indices: 5064912--5064959 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5064902 TAATATTATG
*
5064912 TTTATATTATATATCAATTTAT
1 TTTATATTATATATCAATTAAT
*
5064934 TTTATATTTTATAT-AATTAAAT
1 TTTATATTATATATCAATT-AAT
5064956 TTTA
1 TTTA
5064960 ACTTTAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATATTATATATCAATTAAT
Found at i:5065404 original size:20 final size:20
Alignment explanation
Indices: 5065379--5065416 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5065369 ATATATTATT
5065379 ATTTTTATTTGA-ATAATAAA
1 ATTTTTA-TTGATATAATAAA
5065399 ATTTTTATTGATATAATA
1 ATTTTTATTGATATAATA
5065417 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTTTTATTGATATAATAAA
Found at i:5065419 original size:17 final size:20
Alignment explanation
Indices: 5065378--5065421 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 20
5065368 GATATATTAT
5065378 TATTTTTATTTGAATAATAA
1 TATTTTTATTTGAATAATAA
*
5065398 AATTTTTA-TTG-AT-ATAA
1 TATTTTTATTTGAATAATAA
5065415 TATTTTT
1 TATTTTT
5065422 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 3 0.14
20 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TATTTTTATTTGAATAATAA
Found at i:5065946 original size:12 final size:14
Alignment explanation
Indices: 5065886--5065948 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
5065876 TAACATTAAA
5065886 ATAAAA-ATATTTT
1 ATAAAATATATTTT
*
5065899 AT-AAATATAATTAATAA
1 ATAAAATAT-ATT--T-T
*
5065916 ATAATATATATTTT
1 ATAAAATATATTTT
5065930 ATAAAATATATTTT
1 ATAAAATATATTTT
5065944 A-AAAA
1 ATAAAA
5065949 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
12 3 0.08
13 8 0.20
14 17 0.43
15 1 0.03
16 1 0.03
17 5 0.12
18 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAAATATATTTT
Found at i:5072381 original size:24 final size:22
Alignment explanation
Indices: 5072334--5072382 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
5072324 GTTTATATAA
* *
5072334 AATATAAAATAAATTAAGACAT
1 AATATAAAATAAATTAAAAAAT
5072356 AATATAAACATAATATTAAAAAAT
1 AATATAAA-ATAA-ATTAAAAAAT
5072380 AAT
1 AAT
5072383 TTTATTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATAAAATAAATTAAAAAAT
Found at i:5072666 original size:11 final size:13
Alignment explanation
Indices: 5072637--5072663 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5072627 ATTTTTAAAC
5072637 ATAAAAAATATTT
1 ATAAAAAATATTT
5072650 ATAAAAAATATTT
1 ATAAAAAATATTT
5072663 A
1 A
5072664 AAATATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAAAAATATTT
Found at i:5072719 original size:12 final size:12
Alignment explanation
Indices: 5072640--5072771 Score: 55
Period size: 12 Copynumber: 11.0 Consensus size: 12
5072630 TTTAAACATA
*
5072640 AAAAATATTTAT
1 AAAAATATATAT
5072652 AAAAA-ATAT-T
1 AAAAATATATAT
* *
5072662 TAAAATATA-AC
1 AAAAATATATAT
5072673 ATAAAATA-ATAT
1 A-AAAATATATAT
* *
5072685 ACACAT-TATATT
1 AAAAATATATA-T
5072697 AATACACATATATAT
1 AA-A-A-ATATATAT
*
5072712 AAAAATATACAT
1 AAAAATATATAT
*
5072724 -AAAATA-AAAT
1 AAAAATATATAT
*
5072734 AAATTATTAATATAT
1 AAA--AAT-ATATAT
*
5072749 AAAAAAATATAT
1 AAAAATATATAT
5072761 AAAAATA-ATAT
1 AAAAATATATAT
5072772 TTTAAATACA
Statistics
Matches: 89, Mismatches: 16, Indels: 31
0.65 0.12 0.23
Matches are distributed among these distances:
10 8 0.09
11 25 0.28
12 34 0.38
13 5 0.06
14 2 0.02
15 11 0.12
16 4 0.04
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATATATAT
Found at i:5072759 original size:49 final size:51
Alignment explanation
Indices: 5072643--5072767 Score: 134
Period size: 49 Copynumber: 2.5 Consensus size: 51
5072633 AAACATAAAA
* * *
5072643 AATATTTATAAAAAATAT-TTAAAATATAACATAAAATAATATACACATTAT
1 AATATATA-AAAAAATATATAAAAATATAACATAAAATAAAATACACATTAT
* * * *
5072694 ATTA-ATACACATATATATAAAAATAT-ACATAAAATAAAATA-A-ATTATT
1 AATATATAAAAAAATATATAAAAATATAACATAAAATAAAATACACATTA-T
5072742 AATATATAAAAAAATATATAAAAATA
1 AATATATAAAAAAATATATAAAAATA
5072768 ATATTTTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
47 4 0.07
48 5 0.08
49 38 0.63
50 10 0.17
51 3 0.05
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (51 bp):
AATATATAAAAAAATATATAAAAATATAACATAAAATAAAATACACATTAT
Found at i:5072991 original size:21 final size:21
Alignment explanation
Indices: 5072965--5073004 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5072955 ATATGAACAT
5072965 AACATAA-ATAAAAAATAATTA
1 AACATAATA-AAAAAATAATTA
5072986 AACATAATAAAAAAATAAT
1 AACATAATAAAAAAATAAT
5073005 ATGAGCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (21 bp):
AACATAATAAAAAAATAATTA
Found at i:5073267 original size:24 final size:23
Alignment explanation
Indices: 5073240--5073285 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
5073230 TAAAAATACG
* *
5073240 ATATAAATACATGAATATATTAAA
1 ATATAAATAAATAAATA-ATTAAA
*
5073264 ATATAGATAAATAAATAATTAA
1 ATATAAATAAATAAATAATTAA
5073286 CGTGTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATAAATAAATAAATAATTAAA
Found at i:5073448 original size:35 final size:34
Alignment explanation
Indices: 5073409--5073496 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 34
5073399 ATATACGTAC
5073409 ATATAAAAAATATATA-AAATAAATAA-ATTATTAAT
1 ATATAAAAAATATATACAAAT-AATAATATT-TT-AT
5073444 ATATAAAAAATATATACAAAT-ATAATATTTTAT
1 ATATAAAAAATATATACAAATAATAATATTTTAT
5073477 ATA-AAAAAATA-ATACAAATA
1 ATATAAAAAATATATACAAATA
5073497 CAAATACATA
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
31 8 0.16
32 8 0.16
33 5 0.10
34 6 0.12
35 19 0.38
36 4 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (34 bp):
ATATAAAAAATATATACAAATAATAATATTTTAT
Found at i:5073469 original size:26 final size:26
Alignment explanation
Indices: 5073418--5073471 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
5073408 CATATAAAAA
* *
5073418 ATATATAAAATAAATAAATTATTAAT
1 ATATAAAAAATAAATAAAATATTAAT
*
5073444 ATATAAAAAATATATACAAATA-TAAT
1 ATATAAAAAATAAATA-AAATATTAAT
5073470 AT
1 AT
5073472 TTTATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATATAAAAAATAAATAAAATATTAAT
Found at i:5076310 original size:13 final size:14
Alignment explanation
Indices: 5076277--5076316 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
5076267 AAATAATCTG
5076277 TTAAATAAATATT-
1 TTAAATAAATATTA
*
5076290 TTATAT-AATATTA
1 TTAAATAAATATTA
5076303 TTAAATAAATATTA
1 TTAAATAAATATTA
5076317 ATATGATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATAAATATTA
Found at i:5076377 original size:30 final size:30
Alignment explanation
Indices: 5076305--5076379 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
5076295 TAATATTATT
*
5076305 AAAT-AAATATTA-ATATGATATTTAATATA
1 AAATAAAATATTATATATGATA-TAAATATA
5076334 AAATAAAATTATTATATATGATA-AAATATCA
1 AAATAAAA-TATTATATATGATATAAATAT-A
* *
5076365 ATATCAAATATTATA
1 AAATAAAATATTATA
5076380 ATTAAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 4 0.10
30 15 0.38
31 12 0.31
32 8 0.21
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
AAATAAAATATTATATATGATATAAATATA
Found at i:5076386 original size:13 final size:13
Alignment explanation
Indices: 5076357--5076402 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
5076347 ATATATGATA
* *
5076357 AAATATCAATATC
1 AAATATTAATATT
5076370 AAATATT-ATAATT
1 AAATATTAAT-ATT
5076383 AAAT-TTAATATT
1 AAATATTAATATT
5076395 AAATATTA
1 AAATATTA
5076403 CATTGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATATTAATATT
Found at i:5077004 original size:2 final size:2
Alignment explanation
Indices: 5076997--5077024 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5076987 AACAACATGA
5076997 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
5077025 TTGTAGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5077197 original size:3 final size:3
Alignment explanation
Indices: 5077189--5077214 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5077179 ATATATATCA
5077189 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
5077215 ACAGATTTGA
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:5077869 original size:36 final size:34
Alignment explanation
Indices: 5077788--5077870 Score: 80
Period size: 36 Copynumber: 2.3 Consensus size: 34
5077778 TAAAAATATT
* *
5077788 TTTTAAATTAATAAAATAATAATACGTATTATTA
1 TTTTAAATTAATAAAATAATAATACATATCATTA
5077822 TTTTATTAATTAA-AAAATAAT-ATATCAATATCATTAAA
1 TTTTA--AATTAATAAAATAATAATA-C-ATATCATT--A
5077860 TTTTAAATTAA
1 TTTTAAATTAA
5077871 CATATATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
34 8 0.20
35 9 0.22
36 18 0.44
38 6 0.15
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (34 bp):
TTTTAAATTAATAAAATAATAATACATATCATTA
Found at i:5082904 original size:22 final size:22
Alignment explanation
Indices: 5082878--5082921 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5082868 TTATACTACA
5082878 ACAAATATAGTAAATTATAAGT
1 ACAAATATAGTAAATTATAAGT
5082900 ACAAATATAGTAAATTATAAGT
1 ACAAATATAGTAAATTATAAGT
5082922 TCATAACGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (22 bp):
ACAAATATAGTAAATTATAAGT
Found at i:5084213 original size:19 final size:19
Alignment explanation
Indices: 5084189--5084229 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5084179 TTACAAATTA
5084189 AATAAAT-TTTATCAATAAT
1 AATAAATATTTAT-AATAAT
*
5084208 AATAAATATTTATAATGAT
1 AATAAATATTTATAATAAT
5084227 AAT
1 AAT
5084230 TTTAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAAATATTTATAATAAT
Found at i:5088831 original size:20 final size:20
Alignment explanation
Indices: 5088753--5088837 Score: 63
Period size: 20 Copynumber: 4.4 Consensus size: 20
5088743 GTATTTAGAT
*
5088753 TTTTTAATTTAA-AA-ATT-
1 TTTTTAAATTAATAATATTA
* *
5088770 TTATTAAA-TATTAATATTA
1 TTTTTAAATTAATAATATTA
* * *
5088789 TTTTAAAATTAAAAATACATA
1 TTTTTAAATTAATAATA-TTA
5088810 TTTTTAAATT-ATAATATTTA
1 TTTTTAAATTAATAATA-TTA
5088830 TTTTTAAA
1 TTTTTAAA
5088838 AAAATATTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
16 2 0.04
17 8 0.16
18 3 0.06
19 6 0.12
20 21 0.41
21 11 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTAAATTAATAATATTA
Found at i:5089187 original size:16 final size:16
Alignment explanation
Indices: 5089155--5089208 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
5089145 TTATTTAATT
5089155 ATATAAATATCAAATATA
1 ATATAAAT-T-AAATATA
*
5089173 ATATAAATTAAATATT
1 ATATAAATTAAATATA
** *
5089189 ATCGAAATTAACTATA
1 ATATAAATTAAATATA
5089205 ATAT
1 ATAT
5089209 TTTATATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 20 0.69
17 1 0.03
18 8 0.28
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (16 bp):
ATATAAATTAAATATA
Found at i:5089248 original size:18 final size:17
Alignment explanation
Indices: 5089218--5089256 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
5089208 TTTTATATTT
5089218 ATTATATATATATAATA
1 ATTATATATATATAATA
*
5089235 ATTATATCATATATCATA
1 ATTATAT-ATATATAATA
5089253 ATTA
1 ATTA
5089257 AATTATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATATATATATAATA
Found at i:5090905 original size:17 final size:16
Alignment explanation
Indices: 5090885--5090917 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
5090875 AGTATAATAA
5090885 AAAAAAGGAAAAAAAAG
1 AAAAAA-GAAAAAAAAG
5090902 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
5090918 GTCTTAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:5101796 original size:13 final size:14
Alignment explanation
Indices: 5101771--5101800 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5101761 TATACATATA
5101771 AATTTTTTAATTTT
1 AATTTTTTAATTTT
5101785 AATTTTTT-ATTTT
1 AATTTTTTAATTTT
5101798 AAT
1 AAT
5101801 AATTAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTTTTTAATTTT
Found at i:5103779 original size:2 final size:2
Alignment explanation
Indices: 5103772--5103829 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
5103762 GGACCAAATA
* *
5103772 AT AT AT AT AT AT AT AT AT -T TT GT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5103812 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
5103830 TTTTGGGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5109847 original size:20 final size:20
Alignment explanation
Indices: 5109822--5109949 Score: 175
Period size: 20 Copynumber: 6.3 Consensus size: 20
5109812 ATTGTGGGTG
5109822 TATATACATACATATACATATA
1 TATATACATACATATAC--ATA
5109844 TATATACATACATATACATA
1 TATATACATACATATACATA
*
5109864 TATATATATACATATACATA
1 TATATACATACATATACATA
*
5109884 TATATACATACATATATATA
1 TATATACATACATATACATA
* * * *
5109904 TATACATATAGATATATATA
1 TATATACATACATATACATA
*
5109924 TATATACATACATATATATA
1 TATATACATACATATACATA
5109944 TATATA
1 TATATA
5109950 TATGACGTGC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 80 0.82
22 17 0.18
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (20 bp):
TATATACATACATATACATA
Found at i:5109849 original size:22 final size:22
Alignment explanation
Indices: 5109822--5109951 Score: 168
Period size: 22 Copynumber: 6.3 Consensus size: 22
5109812 ATTGTGGGTG
5109822 TATATACATACATATACATATA
1 TATATACATACATATACATATA
5109844 TATATACATACATATACATATA
1 TATATACATACATATACATATA
5109866 TATAT--ATACATATAC--ATA
1 TATATACATACATATACATATA
5109884 TATATACATAC--AT--ATATA
1 TATATACATACATATACATATA
* * *
5109902 TATATACATATAGATATATATA
1 TATATACATACATATACATATA
*
5109924 TATATACATACATATATATATA
1 TATATACATACATATACATATA
5109946 TATATA
1 TATATA
5109952 TGACGTGCCA
Statistics
Matches: 97, Mismatches: 3, Indels: 16
0.84 0.03 0.14
Matches are distributed among these distances:
18 23 0.24
20 16 0.16
22 58 0.60
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (22 bp):
TATATACATACATATACATATA
Found at i:5109868 original size:4 final size:4
Alignment explanation
Indices: 5109822--5109952 Score: 136
Period size: 4 Copynumber: 32.8 Consensus size: 4
5109812 ATTGTGGGTG
* * * * * *
5109822 TATA TACA TACA TATA CATA TATA TATA CATA CATA TACA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * *
5109870 TATA CATA TACA TATA TATA CATA CATA TATA TATA TACA TATA GATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
5109918 TATA TATA TATA CATA CATA TATA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TAT
5109953 GACGTGCCAT
Statistics
Matches: 107, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 107 1.00
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.40
Consensus pattern (4 bp):
TATA
Found at i:5109952 original size:6 final size:6
Alignment explanation
Indices: 5109822--5109952 Score: 136
Period size: 6 Copynumber: 21.8 Consensus size: 6
5109812 ATTGTGGGTG
* * * * * *
5109822 TATATA CATACA TATACA TATATA TATACA TACATA TACATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
5109870 TATACA TATACA TATATA TACATA CATATA TATATA TACATA TAGATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* *
5109918 TATATA TATATA CATACA TATATA TATATA TATAT
1 TATATA TATATA TATATA TATATA TATATA TATAT
5109953 GACGTGCCAT
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 104 1.00
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.40
Consensus pattern (6 bp):
TATATA
Found at i:5115884 original size:16 final size:16
Alignment explanation
Indices: 5115863--5115902 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
5115853 CTCTAGCTTG
5115863 TCATTACTATCGAATA
1 TCATTACTATCGAATA
*
5115879 TCATTACTATCTAATA
1 TCATTACTATCGAATA
5115895 TCATTACT
1 TCATTACT
5115903 TAGATCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (16 bp):
TCATTACTATCGAATA
Found at i:5116035 original size:15 final size:15
Alignment explanation
Indices: 5116012--5116043 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5116002 TTGGGAGATG
5116012 GAGCAGGGGCACATA
1 GAGCAGGGGCACATA
*
5116027 GAGCGGGGGCACATA
1 GAGCAGGGGCACATA
5116042 GA
1 GA
5116044 CTTGAACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.44, T:0.06
Consensus pattern (15 bp):
GAGCAGGGGCACATA
Found at i:5123452 original size:18 final size:18
Alignment explanation
Indices: 5123413--5123455 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5123403 AACGTAGAAT
* *
5123413 ATAA-ATTAAAATATATA
1 ATAATATTAAAATAAAAA
*
5123430 TTAATATTAAAATAAAAA
1 ATAATATTAAAATAAAAA
5123448 ATAATATT
1 ATAATATT
5123456 TTATTATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATATTAAAATAAAAA
Found at i:5123529 original size:14 final size:13
Alignment explanation
Indices: 5123499--5123531 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
5123489 AAATTTATCA
5123499 TAAATA-TAAAAT
1 TAAATATTAAAAT
5123511 TAAATATTAAAATT
1 TAAATATTAAAA-T
5123525 TAAATAT
1 TAAATAT
5123532 CATATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 5 0.26
14 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATATTAAAAT
Found at i:5125552 original size:27 final size:27
Alignment explanation
Indices: 5125514--5125568 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
5125504 TTCTTTTAAG
5125514 TTTTTTTATATATTTAAAAAATTATAA
1 TTTTTTTATATATTTAAAAAATTATAA
**
5125541 TTTTTTTATATATTTAAATGATTATAA
1 TTTTTTTATATATTTAAAAAATTATAA
5125568 T
1 T
5125569 ATCGTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTTTATATATTTAAAAAATTATAA
Found at i:5125578 original size:27 final size:27
Alignment explanation
Indices: 5125521--5125578 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
5125511 AAGTTTTTTT
* ** *
5125521 ATATATTTAAAAAATTATAATTTTTTT
1 ATATATTTAAAAAATTATAATATCGTA
**
5125548 ATATATTTAAATGATTATAATATCGTA
1 ATATATTTAAAAAATTATAATATCGTA
5125575 ATAT
1 ATAT
5125579 TGAATCCTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
ATATATTTAAAAAATTATAATATCGTA
Found at i:5126261 original size:2 final size:2
Alignment explanation
Indices: 5126254--5126288 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5126244 TTCTAATTAA
5126254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5126289 GAAAATGAAA
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:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.