Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold396
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: 560635
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 4
Found at i:281 original size:29 final size:29
Alignment explanation
Indices: 222--281 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
212 ATGAGCATAT
* **
222 AATAGAAAAATAATTAAAACACGACGTAA
1 AATAGAAAAACAATTAAAACACGACACAA
251 AATAGAAAAACAATTAAAACACGACACAA
1 AATAGAAAAACAATTAAAACACGACACAA
280 AA
1 AA
282 ATAACATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.65, C:0.13, G:0.08, T:0.13
Consensus pattern (29 bp):
AATAGAAAAACAATTAAAACACGACACAA
Found at i:715 original size:26 final size:26
Alignment explanation
Indices: 679--728 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
669 AGAAATAAAC
679 ATTTTTTCTCTAGTTCAGTTTTATCA
1 ATTTTTTCTCTAGTTCAGTTTTATCA
705 ATTTTTTCTCTAGTTCAGTTTTAT
1 ATTTTTTCTCTAGTTCAGTTTTAT
729 TGTGGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.60
Consensus pattern (26 bp):
ATTTTTTCTCTAGTTCAGTTTTATCA
Found at i:2119 original size:20 final size:20
Alignment explanation
Indices: 2094--2135 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2084 CTCTAGTAGA
2094 TAGGAGATCCACTACAGGTC
1 TAGGAGATCCACTACAGGTC
2114 TAGGAGATCCACTACAGGTC
1 TAGGAGATCCACTACAGGTC
2134 TA
1 TA
2136 CACCTTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (20 bp):
TAGGAGATCCACTACAGGTC
Found at i:2809 original size:26 final size:26
Alignment explanation
Indices: 2770--2823 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2760 ATAAATAAAC
* * *
2770 ATTTTTTGTTTGGTTCAGTTTTATCA
1 ATTTTTTCTATGGTTCAATTTTATCA
2796 ATTTTTTCTATGGTTCAATTTTATCA
1 ATTTTTTCTATGGTTCAATTTTATCA
2822 AT
1 AT
2824 AAATAATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.59
Consensus pattern (26 bp):
ATTTTTTCTATGGTTCAATTTTATCA
Found at i:10335 original size:19 final size:17
Alignment explanation
Indices: 10308--10349 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 17
10298 ATTTTACACA
10308 TTTATTATTAAATAATATAT
1 TTTA-TATTAAAT-ATAT-T
10328 TTTATATTAAATATATT
1 TTTATATTAAATATATT
10345 TTTAT
1 TTTAT
10350 TATTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 8 0.36
20 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATATTAAATATATT
Found at i:10342 original size:16 final size:15
Alignment explanation
Indices: 10321--10351 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
10311 ATTATTAAAT
10321 AATATATTTTATATTA
1 AATATATTTT-TATTA
10337 AATATATTTTTATTA
1 AATATATTTTTATTA
10352 TTTTTATTAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATATTTTTATTA
Found at i:10375 original size:25 final size:24
Alignment explanation
Indices: 10321--10382 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
10311 ATTATTAAAT
*
10321 AATA-TATTTTATATTAAATATATT
1 AATATTATTTT-TATTAAATATATA
**
10345 TTTATTATTTTTATTAAAATATATA
1 AATATTATTTTTATT-AAATATATA
*
10370 AATATTATGTTTA
1 AATATTATTTTTA
10383 ATAATATTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
AATATTATTTTTATTAAATATATA
Found at i:10907 original size:20 final size:20
Alignment explanation
Indices: 10882--10921 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10872 TAAAATTTAA
10882 TATATTTTTTAAATAAAAAT
1 TATATTTTTTAAATAAAAAT
*
10902 TATATTTTTTAAATATAAAT
1 TATATTTTTTAAATAAAAAT
10922 GACTCGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTTTTTAAATAAAAAT
Found at i:14108 original size:20 final size:20
Alignment explanation
Indices: 14083--14124 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14073 TTCAAATTTT
14083 ATCCGATGAGACACCATCCC
1 ATCCGATGAGACACCATCCC
14103 ATCCGATGAGACACCATCCC
1 ATCCGATGAGACACCATCCC
14123 AT
1 AT
14125 TCTTTTGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.38, G:0.14, T:0.17
Consensus pattern (20 bp):
ATCCGATGAGACACCATCCC
Found at i:15111 original size:26 final size:26
Alignment explanation
Indices: 15081--15134 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
15071 GATATTATTT
* * *
15081 ATTGATAAAATTGAACCATAGAAAAA
1 ATTGATAAAACTGAACCAAACAAAAA
15107 ATTGATAAAACTGAACCAAACAAAAA
1 ATTGATAAAACTGAACCAAACAAAAA
15133 AT
1 AT
15135 GTTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (26 bp):
ATTGATAAAACTGAACCAAACAAAAA
Found at i:15794 original size:20 final size:20
Alignment explanation
Indices: 15769--15810 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
15759 TAGGAAGGTG
15769 TAGACCTGTAGTGGATCTCC
1 TAGACCTGTAGTGGATCTCC
15789 TAGACCTGTAGTGGATCTCC
1 TAGACCTGTAGTGGATCTCC
15809 TA
1 TA
15811 TCTACTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (20 bp):
TAGACCTGTAGTGGATCTCC
Found at i:17214 original size:26 final size:26
Alignment explanation
Indices: 17178--17227 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
17168 TGATACCACA
17178 ATAAAACTGAACTAGAGAAAAAATTG
1 ATAAAACTGAACTAGAGAAAAAATTG
17204 ATAAAACTGAACTAGAGAAAAAAT
1 ATAAAACTGAACTAGAGAAAAAAT
17228 GTTTATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.60, C:0.08, G:0.14, T:0.18
Consensus pattern (26 bp):
ATAAAACTGAACTAGAGAAAAAATTG
Found at i:22349 original size:24 final size:24
Alignment explanation
Indices: 22313--22376 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
22303 CATGTATATT
*
22313 TATAAATTCAAAATATAAATA-TAA
1 TATATATT-AAAATATAAATATTAA
*
22337 TATATATTAAAA-ATATTATATTAA
1 TATATATTAAAATATA-AATATTAA
*
22361 T-TATATTTAAATATAA
1 TATATATTAAAATATAA
22377 TTTATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 3 0.09
23 16 0.48
24 14 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATATTAAAATATAAATATTAA
Found at i:30813 original size:29 final size:27
Alignment explanation
Indices: 30776--30857 Score: 65
Period size: 31 Copynumber: 2.8 Consensus size: 27
30766 TCTTTAATCT
*
30776 TAAAGTATAATAATAAATATTAATCAAAA
1 TAAAATAT-ATAATAAAT-TTAATCAAAA
**
30805 TAAAATATATCAATAAATTTTCATATCAACT
1 TAAAATATAT-AATAAA-TTT-A-ATCAAAA
*
30836 TATAATATGATAATAAATTTAA
1 TAAAATAT-ATAATAAATTTAA
30858 CCTTTAACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
28 3 0.07
29 16 0.36
30 5 0.11
31 18 0.41
32 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
TAAAATATATAATAAATTTAATCAAAA
Found at i:31433 original size:4 final size:4
Alignment explanation
Indices: 31426--31477 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
31416 TATATATATC
* * * * *
31426 TATG TATG TATG TATG AATG TACG TACG TACG TATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
31474 TATG
1 TATG
31478 GACTTTTTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (4 bp):
TATG
Found at i:31757 original size:43 final size:46
Alignment explanation
Indices: 31663--31765 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 46
31653 ATACCCTGAA
* * *
31663 ATTAAATAAATATAATACGTATAAATAAATTAAAATATTATATTAT
1 ATTATATAAATATAATACGTATAAATAAATTAAAATATAATATGAT
*
31709 ATTATATAAATATAATATG-AT-AAT-AATTAAAATATAATATGAT
1 ATTATATAAATATAATACGTATAAATAAATTAAAATATAATATGAT
*
31752 CTTATATAAATATA
1 ATTATATAAATATA
31766 TTTTTAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
43 30 0.58
44 3 0.06
45 2 0.04
46 17 0.33
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (46 bp):
ATTATATAAATATAATACGTATAAATAAATTAAAATATAATATGAT
Found at i:31761 original size:22 final size:22
Alignment explanation
Indices: 31693--31766 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
31683 ATAAATAAAT
* *
31693 TAAAATATTATATTATATTATA
1 TAAAATATAATATGATATTATA
*
31715 T-AAATATAATATGATAATA-A
1 TAAAATATAATATGATATTATA
*
31735 TTAAAATATAATATGATCTTATA
1 -TAAAATATAATATGATATTATA
31758 TAAATATAT
1 TAAA-ATAT
31767 TTTTAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.37
22 21 0.49
23 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (22 bp):
TAAAATATAATATGATATTATA
Found at i:31765 original size:21 final size:21
Alignment explanation
Indices: 31695--31765 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
31685 AAATAAATTA
* *
31695 AAATATTATATTATATTATAT
1 AAATATAATATGATATTATAT
*
31716 AAATATAATATGATAATA-ATT
1 AAATATAATATGATATTATA-T
*
31737 AAAATATAATATGATCTTATAT
1 -AAATATAATATGATATTATAT
31759 AAATATA
1 AAATATA
31766 TTTTTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
20 1 0.02
21 23 0.55
22 17 0.40
23 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATATAATATGATATTATAT
Found at i:31779 original size:23 final size:24
Alignment explanation
Indices: 31753--31798 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31743 TAATATGATC
* *
31753 TTATATAA-ATATATTTTTAAAAT
1 TTATATAATATAAATTATTAAAAT
31776 TTATATAATATAAATTATTAAAA
1 TTATATAATATAAATTATTAAAA
31799 CATTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATATAATATAAATTATTAAAAT
Found at i:33687 original size:66 final size:66
Alignment explanation
Indices: 33559--33688 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
33549 TTTTAAAAAT
* * ** * * *
33559 GATATTTATTTTTAATATTATTAAATTTTAGATAAAAAAATATTTTTTTATTATTTTTTTATTTT
1 GATATTCATTTTCAATATTATTAAATTCAAGATAAAAAAATATTTTTTTATCATTCTCTTATTTT
33624 A
66 A
33625 GATATTCATTTTCAATACTT-TTAAATTCAAGATAAAAAAATATTTTTTTATCATTCTCTTATTT
1 GATATTCATTTTCAATA-TTATTAAATTCAAGATAAAAAAATATTTTTTTATCATTCTCTTATTT
33689 CGTTTTTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 54 0.96
67 2 0.04
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (66 bp):
GATATTCATTTTCAATATTATTAAATTCAAGATAAAAAAATATTTTTTTATCATTCTCTTATTTT
A
Found at i:35297 original size:26 final size:26
Alignment explanation
Indices: 35164--35297 Score: 67
Period size: 26 Copynumber: 5.1 Consensus size: 26
35154 ATTTATTATT
* * *
35164 TAATGTATTATTAATTTATAAATTTA
1 TAATTTATTAATAATATATAAATTTA
* * * *
35190 TATTTTAATAATAA-AT-TACATGGTA
1 TAATTTATTAATAATATATAAAT-TTA
* * *
35215 TTATTTTATTAATAAATAAATATATATTA
1 -TAATTTATTAAT-AATATATAAAT-TTA
* * * **
35244 AAATTTTTTAAAAATA-ATAAAAAATA
1 TAATTTATTAATAATATAT-AAATTTA
35270 TAATTTATTAATAATATATAAATTTA
1 TAATTTATTAATAATATATAAATTTA
35296 TA
1 TA
35298 TATAAAAAAT
Statistics
Matches: 77, Mismatches: 24, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
24 4 0.05
25 3 0.04
26 45 0.58
27 10 0.13
28 9 0.12
29 6 0.08
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (26 bp):
TAATTTATTAATAATATATAAATTTA
Found at i:35545 original size:4 final size:4
Alignment explanation
Indices: 35536--35565 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
35526 TTCATGCTTG
*
35536 ATAA ATAA ATAA ATAA ATAA GTAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
35566 TTTGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:35959 original size:26 final size:28
Alignment explanation
Indices: 35928--35987 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
35918 TTTAAAATTT
35928 ATATAAAATAAATTA-ATAACATAATAA
1 ATATAAAATAAATTATATAACATAATAA
* * *
35955 A-ATAATATAAATTATATAATATATTAA
1 ATATAAAATAAATTATATAACATAATAA
35982 ATATAA
1 ATATAA
35988 TTATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.43
27 12 0.43
28 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAATAAATTATATAACATAATAA
Found at i:35976 original size:5 final size:5
Alignment explanation
Indices: 35943--36025 Score: 52
Period size: 5 Copynumber: 17.2 Consensus size: 5
35933 AAATAAATTA
* * *
35943 ATAAC ATAAT A-AA- ATAAT ATAA- ATTAT ATAAT ATATT A-AAT ATAATT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T
* *
35990 ATAAT ATAAA ATAA- ATAAAG ATAAT ATGAAT A-AAT A
1 ATAAT ATAAT ATAAT AT-AAT ATAAT AT-AAT ATAAT A
36026 AATTTTCAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
3 1 0.02
4 16 0.25
5 35 0.56
6 11 0.17
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:36004 original size:22 final size:22
Alignment explanation
Indices: 35928--36029 Score: 69
Period size: 22 Copynumber: 4.9 Consensus size: 22
35918 TTTAAAATTT
35928 ATATAAAATAAAT-TAA-TA-A
1 ATATAAAATAAATATAATTATA
35947 CATAATAAAAT-AATATAAATTAT-
1 -AT-ATAAAATAAATAT-AATTATA
* *
35970 ATAATATATTAAATATAATTATA
1 AT-ATAAAATAAATATAATTATA
*
35993 ATATAAAATAAATA-AA-GATA
1 ATATAAAATAAATATAATTATA
*
36013 ATAT-GAATAAATA-AATT
1 ATATAAAATAAATATAATT
36030 TTCAGGTTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.15
20 12 0.18
21 10 0.15
22 26 0.39
23 9 0.13
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (22 bp):
ATATAAAATAAATATAATTATA
Found at i:38624 original size:19 final size:19
Alignment explanation
Indices: 38586--38628 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
38576 ACTACCAATA
38586 AAAAATTATTTAACTTTTT
1 AAAAATTATTTAACTTTTT
*
38605 ATAAAATTTTTTAA-TTTTT
1 A-AAAATTATTTAACTTTTT
38624 AAAAA
1 AAAAA
38629 CTCACTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAAATTATTTAACTTTTT
Found at i:41772 original size:3 final size:3
Alignment explanation
Indices: 41764--41808 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
41754 ACTGTTAAAT
41764 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41809 AGATAAACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:42818 original size:33 final size:32
Alignment explanation
Indices: 42750--42840 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
42740 AGAAACTGAC
*
42750 AAAAATCTCAAACTAAAAATTACCTAAAAATTAAA
1 AAAAATCTCAAACTTAAAATTA---AAAAATTAAA
42785 AAAAATCTCAAA-TTAAAATTAAAATAATCTAAA
1 AAAAATCTCAAACTTAAAATTAAAA-AAT-TAAA
*
42818 AAAAA-CT-AAATTTAAAAATTAAA
1 AAAAATCTCAAACTT-AAAATTAAA
42841 TTAAAATATT
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
31 6 0.12
32 7 0.14
33 18 0.35
34 8 0.16
35 12 0.24
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (32 bp):
AAAAATCTCAAACTTAAAATTAAAAAATTAAA
Found at i:42997 original size:18 final size:19
Alignment explanation
Indices: 42974--43021 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
42964 ATATTTTTAT
42974 TTAAATTTAATTATAA-AA
1 TTAAATTTAATTATAAGAA
42992 TTAAATTTTAA-TATAAGAA
1 TTAAA-TTTAATTATAAGAA
*
43011 -TAATTTTAATT
1 TTAAATTTAATT
43022 TTTATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 14 0.54
19 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTTAATTATAAGAA
Found at i:48033 original size:20 final size:20
Alignment explanation
Indices: 47989--48031 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
47979 GTATGATTTA
* *
47989 ATTTAAAATTTTATTTAAAT
1 ATTTAAAATTATATTAAAAT
48009 ATTTAAAA-TATATTAAAAT
1 ATTTAAAATTATATTAAAAT
48028 ATTT
1 ATTT
48032 TATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAAAATTATATTAAAAT
Found at i:48037 original size:2 final size:2
Alignment explanation
Indices: 48032--48065 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48022 TAAAATATTT
48032 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48066 GCTTACTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48243 original size:16 final size:16
Alignment explanation
Indices: 48224--48269 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
48214 CACTATAAAG
*
48224 ATTTTTTCTTATAATT
1 ATTTTTTATTATAATT
* *
48240 ATTTTTAATTTTAATT
1 ATTTTTTATTATAATT
48256 -TTTTTTATTATAAT
1 ATTTTTTATTATAAT
48270 AGTCCACTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATTATAATT
Found at i:49549 original size:7 final size:7
Alignment explanation
Indices: 49538--49580 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
49528 ATAAAGCACT
*
49538 CACTTTT
1 CACTTTC
49545 CACTTTC
1 CACTTTC
*
49552 CACATTC
1 CACTTTC
49559 CACTTTC
1 CACTTTC
49566 CACTTTC
1 CACTTTC
49573 CACGTTTC
1 CAC-TTTC
49581 GAAATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 28 0.88
8 4 0.12
ACGTcount: A:0.16, C:0.40, G:0.02, T:0.42
Consensus pattern (7 bp):
CACTTTC
Found at i:50983 original size:24 final size:24
Alignment explanation
Indices: 50923--50984 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
50913 TCGAAAGTAG
*
50923 AAATTAAGTATAAATATCAAATTAA
1 AAATTAAGT-TAAATATCAAAATAA
* *** *
50948 TAATTTTTTTAAATATTAAAATAA
1 AAATTAAGTTAAATATCAAAATAA
50972 AAATTAAGTTAAA
1 AAATTAAGTTAAA
50985 ATATAAAGTC
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (24 bp):
AAATTAAGTTAAATATCAAAATAA
Found at i:51165 original size:16 final size:18
Alignment explanation
Indices: 51141--51187 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
51131 TTATATTTTA
51141 TATAAATTTTAATA-CAT
1 TATAAATTTTAATATCAT
*
51158 TA-AAA-TTT-ATATTAT
1 TATAAATTTTAATATCAT
51173 TATAAATTTTAATAT
1 TATAAATTTTAATAT
51188 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.12
15 7 0.28
16 6 0.24
17 5 0.20
18 4 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TATAAATTTTAATATCAT
Found at i:51190 original size:17 final size:17
Alignment explanation
Indices: 51141--51190 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
51131 TTATATTTTA
*
51141 TATAAATTTTAATACAT
1 TATAAATTTTAATATAT
51158 TA-AAA-TTT-ATATTAT
1 TATAAATTTTAATA-TAT
51173 TATAAATTTTAATATAT
1 TATAAATTTTAATATAT
51190 T
1 T
51191 TTTTATTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 3 0.11
15 7 0.25
16 6 0.21
17 9 0.32
18 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAAATTTTAATATAT
Found at i:51210 original size:27 final size:28
Alignment explanation
Indices: 51180--51239 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
51170 TATTATAAAT
*
51180 TTTAATA-TATTTTT-TATTCATATCATA
1 TTTAATATTATTTTTATA-TAATATCATA
*
51207 TTT-ATATTATTTTTATATAATATTATA
1 TTTAATATTATTTTTATATAATATCATA
51234 TTTAAT
1 TTTAAT
51240 TTTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.11
27 21 0.75
28 4 0.14
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTAATATTATTTTTATATAATATCATA
Found at i:51212 original size:24 final size:25
Alignment explanation
Indices: 51185--51248 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
51175 TAAATTTTAA
*
51185 TATATTTTTTAT-TCATATCATATT
1 TATATTTTTTATATAATATCATATT
*
51209 TATATTATTTTTATATAATATTATATT
1 TATA-T-TTTTTATATAATATCATATT
51236 TA-ATTTTTTATAT
1 TATATTTTTTATAT
51249 TAAATAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.37
25 2 0.06
26 8 0.23
27 12 0.34
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TATATTTTTTATATAATATCATATT
Found at i:51229 original size:22 final size:21
Alignment explanation
Indices: 51185--51263 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 21
51175 TAAATTTTAA
* *
51185 TATATTTTTTATTCATATCATATT
1 TATATTATTT-TT-ATATAATA-T
51209 TATATTATTTTTATATAATAT
1 TATATTATTTTTATATAATAT
51230 TATATTTAATTTTTTATATTAAATAAT
1 TATA-TT-A-TTTTTATA-T-AAT-AT
51257 TATATTA
1 TATATTA
51264 CGTTAAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
21 5 0.11
22 9 0.19
23 3 0.06
24 17 0.36
25 2 0.04
26 5 0.11
27 6 0.13
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTTTTATATAATAT
Found at i:51422 original size:6 final size:6
Alignment explanation
Indices: 51411--51440 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
51401 TGCGACTGTG
*
51411 CAATGC CAATGC CAATGT CAATGC CAATGC
1 CAATGC CAATGC CAATGC CAATGC CAATGC
51441 AATTCATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (6 bp):
CAATGC
Found at i:51475 original size:18 final size:19
Alignment explanation
Indices: 51434--51477 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
51424 AATGTCAATG
* *
51434 CCAATGCAATTCATTGTAT
1 CCAATGTAATGCATTGTAT
*
51453 GCAATGTAATGCA-TGTAT
1 CCAATGTAATGCATTGTAT
51471 CCAATGT
1 CCAATGT
51478 CTCTTAAGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (19 bp):
CCAATGTAATGCATTGTAT
Found at i:51830 original size:18 final size:18
Alignment explanation
Indices: 51777--51833 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
51767 TGATCGAGGA
*
51777 TAAAATCTAATTTTATTATT
1 TAAAATATAATTTTA-TA-T
**
51797 TAAAATATAACATTATAT
1 TAAAATATAATTTTATAT
*
51815 TAAAATATATTTTTATAT
1 TAAAATATAATTTTATAT
51833 T
1 T
51834 TTATTATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 17 0.55
19 2 0.06
20 12 0.39
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATATAATTTTATAT
Found at i:52040 original size:18 final size:20
Alignment explanation
Indices: 52013--52052 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
52003 ATGTTATATG
*
52013 TAAGACTTTT-AAT-ATTAT
1 TAAGAATTTTAAATAATTAT
52031 TAAGAATTTTAAATAATTAT
1 TAAGAATTTTAAATAATTAT
52051 TA
1 TA
52053 GACAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TAAGAATTTTAAATAATTAT
Found at i:52737 original size:21 final size:21
Alignment explanation
Indices: 52713--52766 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
52703 AATTATCATA
*
52713 AATATTTAATGTT-AATATTAC
1 AATAATTAAT-TTCAATATTAC
* *
52734 AATAATCAATTTCAATTTTAC
1 AATAATTAATTTCAATATTAC
52755 AATAATTAATTT
1 AATAATTAATTT
52767 TACTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (21 bp):
AATAATTAATTTCAATATTAC
Found at i:53136 original size:26 final size:26
Alignment explanation
Indices: 53105--53155 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
53095 TTATTTTAAA
*
53105 TTTAAATTTAATAAATTTT-AAATTAG
1 TTTAAA-TTAACAAATTTTCAAATTAG
*
53131 TTTAAATTAACATATTTTCAAATTA
1 TTTAAATTAACAAATTTTCAAATTA
53156 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTAAATTAACAAATTTTCAAATTAG
Found at i:53139 original size:47 final size:47
Alignment explanation
Indices: 53070--53171 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 47
53060 TATTATTTTT
* * *
53070 TAAATTTAAATAATTTTGAATTAA-ATTATTTT-AAATTTAAATTTAA
1 TAAATTTAAATAAGTTTAAATTAACA-TATTTTCAAATTAAAATTTAA
*
53116 TAAATTTTAAATTAGTTTAAATTAACATATTTTCAAATTAAAATTTAA
1 TAAA-TTTAAATAAGTTTAAATTAACATATTTTCAAATTAAAATTTAA
*
53164 -ATATTTAA
1 TAAATTTAA
53172 TAGATTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
46 9 0.19
47 25 0.52
48 14 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (47 bp):
TAAATTTAAATAAGTTTAAATTAACATATTTTCAAATTAAAATTTAA
Found at i:53140 original size:15 final size:16
Alignment explanation
Indices: 53033--53160 Score: 82
Period size: 15 Copynumber: 8.6 Consensus size: 16
53023 ATTTTATTTT
53033 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
*
53049 ATTT-AATT-TATT--
1 ATTTAAATTATTTTAA
53061 A-TT--ATT-TTTTAA
1 ATTTAAATTATTTTAA
* *
53073 ATTTAAATAATTTTGA
1 ATTTAAATTATTTTAA
53089 A-TTAAATTATTTTAA
1 ATTTAAATTATTTTAA
**
53104 ATTTAAATT-TAATAA
1 ATTTAAATTATTTTAA
*
53119 ATTTTAAATTAGTTTAA
1 A-TTTAAATTATTTTAA
53136 A-TTAACA-TATTTTCAA
1 ATTTAA-ATTATTTT-AA
*
53152 ATTAAAATT
1 ATTTAAATT
53161 TAAATATTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 25
0.69 0.10 0.20
Matches are distributed among these distances:
10 6 0.07
11 2 0.02
12 2 0.02
13 2 0.02
14 3 0.03
15 33 0.38
16 30 0.35
17 8 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:53167 original size:22 final size:22
Alignment explanation
Indices: 53096--53169 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
53086 TGAATTAAAT
* *
53096 TATTTTAAATTTAAATTTAATA
1 TATTTTAAATTAAAATTTAACA
*
53118 AATTTTAAATTAGTTTAAA-TTAACA
1 TATTTTAAATTA----AAATTTAACA
53143 TATTTTCAAATTAAAATTTAA-A
1 TATTTT-AAATTAAAATTTAACA
53165 TATTT
1 TATTT
53170 AATAGATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 19 0.45
23 4 0.10
25 10 0.24
26 9 0.21
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (22 bp):
TATTTTAAATTAAAATTTAACA
Found at i:53606 original size:29 final size:30
Alignment explanation
Indices: 53538--53619 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
53528 AAATAAAAGC
* *
53538 TAACCCACTTTATCCTAAAAGTTAAACGGAT
1 TAACCAACTTTATCAT-AAAGTTAAACGGAT
* *
53569 TAACAAACTTTATCATAAAGTTTAAC-GAT
1 TAACCAACTTTATCATAAAGTTAAACGGAT
53598 TAACCAACTTTATCATAAAGTT
1 TAACCAACTTTATCATAAAGTT
53620 GATGTATCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.52
30 9 0.20
31 13 0.28
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.33
Consensus pattern (30 bp):
TAACCAACTTTATCATAAAGTTAAACGGAT
Found at i:53751 original size:18 final size:17
Alignment explanation
Indices: 53728--53796 Score: 72
Period size: 16 Copynumber: 4.2 Consensus size: 17
53718 ATAAAATAAA
53728 ATAAATATTATATAAAAT
1 ATAAATA-TATATAAAAT
53746 ATAAATATAT-TAAAAT
1 ATAAATATATATAAAAT
* * *
53762 TTATATA-ATATAAATT
1 ATAAATATATATAAAAT
*
53778 ATTAATATA-ATAAAAT
1 ATAAATATATATAAAAT
53794 ATA
1 ATA
53797 TAAAAATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
15 2 0.05
16 28 0.68
17 4 0.10
18 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATATATATAAAAT
Found at i:53752 original size:27 final size:27
Alignment explanation
Indices: 53708--53814 Score: 76
Period size: 23 Copynumber: 4.4 Consensus size: 27
53698 ATTATATGAC
53708 ATATTA-A-AAAATA-AAATAAAATAA
1 ATATTATATAAAATATAAATAAAATAA
* *
53732 ATATTATATAAAATATAAATATATTAA
1 ATATTATATAAAATATAAATAAAATAA
* * *
53759 A-ATT-TATATAATATAAAT--TATTA
1 ATATTATATAAAATATAAATAAAATAA
*
53782 ATA-TA-ATAAAATATATA-AAAAT-A
1 ATATTATATAAAATATAAATAAAATAA
53805 ATA-TATATAA
1 ATATTATATAA
53815 TATAATATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
23 20 0.30
24 13 0.20
25 14 0.21
26 9 0.14
27 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
ATATTATATAAAATATAAATAAAATAA
Found at i:53760 original size:32 final size:32
Alignment explanation
Indices: 53716--53821 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
53706 ACATATTAAA
* *
53716 AAATAAAATAAAATAAATATTATATAAAATAT
1 AAATATAATAAAATAAATATAATATAAAATAT
* ** *
53748 AAATATATTAAAATTTATATAATATAAATTAT
1 AAATATAATAAAATAAATATAATATAAAATAT
* * * *
53780 TAATATAATAAAATATATA-AAAATAATATAT
1 AAATATAATAAAATAAATATAATATAAAATAT
53811 ATAATATAATA
1 A-AATATAATA
53822 TATGAATTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 9 0.15
32 51 0.85
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
AAATATAATAAAATAAATATAATATAAAATAT
Found at i:53774 original size:5 final size:5
Alignment explanation
Indices: 53717--53823 Score: 61
Period size: 5 Copynumber: 23.2 Consensus size: 5
53707 CATATTAAAA
* * * * * *
53717 AATAA AATAA AATA- AATAT TATAT AAAAT -ATA- AATAT ATTAA AAT-T
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* * * *
53763 TATAT AATAT AA-AT TAT-T AATAT AATAA AATAT -ATA- AAAAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
53809 -ATAT AATAT AATAT A
1 AATAT AATAT AATAT A
53824 TGAATTATTA
Statistics
Matches: 77, Mismatches: 16, Indels: 18
0.69 0.14 0.16
Matches are distributed among these distances:
4 26 0.34
5 51 0.66
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:53797 original size:25 final size:25
Alignment explanation
Indices: 53769--53834 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 25
53759 AATTTATATA
53769 ATATAAATTATTAATATAATAAAAT
1 ATATAAATTATTAATATAATAAAAT
* * *
53794 ATATAAAAATAATATATATAATATAAT
1 ATAT-AAATTATTA-ATATAATAAAAT
*
53821 ATATGAATTATTAA
1 ATATAAATTATTAA
53835 ATCAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 5 0.15
26 13 0.39
27 15 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATAAATTATTAATATAATAAAAT
Found at i:53805 original size:18 final size:18
Alignment explanation
Indices: 53766--53809 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
53756 TAAAATTTAT
* *
53766 ATAATATAAATTATTAAT
1 ATAATATAAATTATAAAA
53784 ATAATA-AAATATATAAAA
1 ATAATATAAAT-TATAAAA
53802 ATAATATA
1 ATAATATA
53810 TATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATATAAATTATAAAA
Found at i:54036 original size:18 final size:21
Alignment explanation
Indices: 54012--54057 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
54002 CATATGCATA
*
54012 AATTAAAAA-ATTAT-TTTAT
1 AATTAAAAATAATATATTTAT
54031 -ATTAAAAATAATATATTTAT
1 AATTAAAAATAATATATTTAT
54051 AATTAAA
1 AATTAAA
54058 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 4 0.17
20 5 0.22
21 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAAAATAATATATTTAT
Found at i:58926 original size:16 final size:15
Alignment explanation
Indices: 58891--58931 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
58881 ACAGATAAAT
*
58891 ATTTATTTAT-ATTC
1 ATTTATTTATAATTA
58905 ATTTATTTATAATTGA
1 ATTTATTTATAATT-A
58921 ATTTATTTATA
1 ATTTATTTATA
58932 TAAAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 11 0.46
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTATTTATAATTA
Found at i:59337 original size:21 final size:21
Alignment explanation
Indices: 59312--59352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59302 ATTTTAAAAT
59312 AAATTAAAAAT-AAAATATTTA
1 AAATT-AAAATGAAAATATTTA
*
59333 AAATTAATATGAAAATATTT
1 AAATTAAAATGAAAATATTT
59353 TATAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATTAAAATGAAAATATTTA
Found at i:59607 original size:15 final size:16
Alignment explanation
Indices: 59577--59618 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
59567 TAAGTATTAC
*
59577 AATATTAAA-ATTATA
1 AATATTAAATATGATA
59592 AATA-TAAATATGATA
1 AATATTAAATATGATA
59607 AATATTAAATAT
1 AATATTAAATAT
59619 ATTATGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AATATTAAATATGATA
Found at i:59638 original size:24 final size:25
Alignment explanation
Indices: 59611--59662 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
59601 ATGATAAATA
*
59611 TTAAATATA-TTATGTTATTTATTT
1 TTAAATATACTTATATTATTTATTT
*
59635 TTAAATATATCTTATATTTTTTATTT
1 TTAAATATA-CTTATATTATTTATTT
59661 TT
1 TT
59663 TATATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
26 15 0.62
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTAAATATACTTATATTATTTATTT
Found at i:59828 original size:28 final size:27
Alignment explanation
Indices: 59776--59844 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 27
59766 AGAAGCTCAA
59776 AAAATTTTTTTAAAACTAATCTTTT-TC
1 AAAA-TTTTTTAAAACTAATCTTTTATC
* * *
59803 AAAATTTTTTAAAATTTAATATTTTTATT
1 AAAATTTTTTAAAA-CTAAT-CTTTTATC
*
59832 AAATTTTTTTAAA
1 AAAATTTTTTAAA
59845 TATCAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.29
27 8 0.23
28 4 0.11
29 13 0.37
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
AAAATTTTTTAAAACTAATCTTTTATC
Found at i:59845 original size:28 final size:27
Alignment explanation
Indices: 59776--59845 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
59766 AGAAGCTCAA
* *
59776 AAAATTTTTTTAAAACTAATCTTTTTC
1 AAAATTTTTTTAAATCTAATATTTTTC
* *
59803 AAAATTTTTTAAAATTTAATATTTTT-
1 AAAATTTTTTTAAATCTAATATTTTTC
59829 ATTAAATTTTTTTAAAT
1 A--AAATTTTTTTAAAT
59846 ATCAATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 22 0.61
28 13 0.36
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
AAAATTTTTTTAAATCTAATATTTTTC
Found at i:61104 original size:56 final size:56
Alignment explanation
Indices: 61034--61147 Score: 185
Period size: 56 Copynumber: 2.0 Consensus size: 56
61024 ATGACTCGAG
*
61034 TTAGAATGTATATTTAGAAATTTTT-TTCTTCCTATTTTAGACTTTAGGACATTTAA
1 TTAGAATGTATATTTAGAAATTTTTGTTCTTCCTATTTTAGACTCT-GGACATTTAA
* *
61090 TTAGAATGTTTATTTAGAAATTTTTGTTCTTTCTATTTTAGACTCTGGACATTTAA
1 TTAGAATGTATATTTAGAAATTTTTGTTCTTCCTATTTTAGACTCTGGACATTTAA
61146 TT
1 TT
61148 CTTTCTATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 36 0.67
57 18 0.33
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (56 bp):
TTAGAATGTATATTTAGAAATTTTTGTTCTTCCTATTTTAGACTCTGGACATTTAA
Found at i:61150 original size:30 final size:30
Alignment explanation
Indices: 61116--61175 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
61106 GAAATTTTTG
61116 TTCTTTCTATTTTAGACTCTGGACATTTAA
1 TTCTTTCTATTTTAGACTCTGGACATTTAA
*
61146 TTCTTTCTATTTTAGGCTCTGGACATTTAA
1 TTCTTTCTATTTTAGACTCTGGACATTTAA
61176 AACACTTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.50
Consensus pattern (30 bp):
TTCTTTCTATTTTAGACTCTGGACATTTAA
Found at i:62994 original size:28 final size:28
Alignment explanation
Indices: 62954--63012 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
62944 GATTAGCTGC
*
62954 TTTGCTAGGAGTCCTTTTGTGACACCAG
1 TTTGCTAGGAGTCCTTTCGTGACACCAG
62982 TTTGCTAGGAGTCCTTTCGTGACACCAG
1 TTTGCTAGGAGTCCTTTCGTGACACCAG
63010 TTT
1 TTT
63013 ATATGAGAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (28 bp):
TTTGCTAGGAGTCCTTTCGTGACACCAG
Found at i:70087 original size:20 final size:21
Alignment explanation
Indices: 70059--70097 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
70049 ATTTATTTAT
*
70059 TATTTAAAAAATAT-TTAAAA
1 TATTAAAAAAATATATTAAAA
70079 TATTAAAAAAATATATTAA
1 TATTAAAAAAATATATTAA
70098 TATTAATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATTAAAAAAATATATTAAAA
Found at i:70099 original size:19 final size:19
Alignment explanation
Indices: 70059--70103 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
70049 ATTTATTTAT
*
70059 TATTTAAAAAATATTTAAAA
1 TATTAAAAAAATATTT-AAA
70079 TATTAAAAAAATATATT-AA
1 TATTAAAAAAATAT-TTAAA
70098 TATTAA
1 TATTAA
70104 TACTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAAAAAAATATTTAAA
Found at i:71294 original size:30 final size:33
Alignment explanation
Indices: 71259--71329 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 33
71249 TTCTAATCTA
71259 AATTAAACATATA-A-TTAA-TTTA-ATCTTGTT
1 AATTAAACATATATATTTAACTTTATATCTT-TT
*
71289 AATTAATCATATATATTTTAACTTTATATCTTTT
1 AATTAAACATATATA-TTTAACTTTATATCTTTT
71323 AATTAAA
1 AATTAAA
71330 TAAGTATCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 12 0.35
31 1 0.03
33 4 0.12
34 12 0.35
35 5 0.15
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (33 bp):
AATTAAACATATATATTTAACTTTATATCTTTT
Found at i:71539 original size:2 final size:2
Alignment explanation
Indices: 71493--71524 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
71483 TAATAGATTC
71493 TA TA -A 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 TA TA T
71525 CTTATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73072 original size:22 final size:24
Alignment explanation
Indices: 73047--73092 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
73037 TATCTAATAA
73047 TATATT-ATTTTTT-TATTTTTAT
1 TATATTAATTTTTTATATTTTTAT
73069 TATATTAATTTTTTATATTTTTAT
1 TATATTAATTTTTTATATTTTTAT
73093 ATAGAGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 7 0.32
24 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TATATTAATTTTTTATATTTTTAT
Found at i:73177 original size:2 final size:2
Alignment explanation
Indices: 73170--73214 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
73160 TTTAAAATTA
73170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
73213 AT
1 AT
73215 CAATGTCAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:74430 original size:19 final size:18
Alignment explanation
Indices: 74392--74426 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74382 CATGACATTA
*
74392 TAAAATTTAAAAAATAAT
1 TAAAAATTAAAAAATAAT
74410 TAAAAATTAAAAAATAA
1 TAAAAATTAAAAAATAA
74427 ATTATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAATTAAAAAATAAT
Found at i:76060 original size:19 final size:21
Alignment explanation
Indices: 76010--76069 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 21
76000 AATTAAATTA
76010 ATTTTATAT-ATTTATATATAT
1 ATTTTATATAATTT-TATATAT
* *
76031 TTTTTAAATAATTTTAT-T-T
1 ATTTTATATAATTTTATATAT
76050 ATTTTATATAATTATTATAT
1 ATTTTATATAATT-TTATAT
76070 TTTATTTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 12 0.38
20 5 0.16
21 11 0.34
22 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATATAATTTTATATAT
Found at i:76071 original size:27 final size:28
Alignment explanation
Indices: 76006--76084 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 28
75996 TATAAATTAA
* *
76006 ATTA-ATTTTATATATTTATATATATTT
1 ATTATATTTTATTTATTTATATATAATT
*
76033 TTTAAATAATTTTATTTATTT-TATATAATT
1 ATT--AT-ATTTTATTTATTTATATATAATT
*
76063 ATTATATTTTATTT-TCTATATA
1 ATTATATTTTATTTATTTATATA
76085 AACTTTACGT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
26 2 0.05
27 15 0.36
28 2 0.05
29 1 0.02
30 10 0.24
31 12 0.29
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTATATTTTATTTATTTATATATAATT
Found at i:76075 original size:23 final size:23
Alignment explanation
Indices: 76010--76082 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
76000 AATTAAATTA
* *
76010 ATTTTATATATTTA-TATATATT
1 ATTTTATATAATTATTATATTTT
*
76032 -TTTTAAATAA-T-TT-TA-TTT
1 ATTTTATATAATTATTATATTTT
76050 ATTTTATATAATTATTATATTTT
1 ATTTTATATAATTATTATATTTT
*
76073 ATTTTCTATA
1 ATTTTATATA
76083 TAAACTTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 2 0.05
19 11 0.28
20 3 0.08
21 10 0.25
22 2 0.05
23 12 0.30
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTATATAATTATTATATTTT
Found at i:76285 original size:2 final size:2
Alignment explanation
Indices: 76280--76308 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
76270 TCTCTCTCTT
76280 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
76309 TCCTTTTCCT
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:83356 original size:18 final size:17
Alignment explanation
Indices: 83329--83388 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
83319 TATTATAATC
83329 ATAATATTTTATATTTAT
1 ATAA-ATTTTATATTTAT
83347 ATAAATTTTTATATATTA-
1 ATAAA-TTTTATAT-TTAT
83365 AT-AA-TTTATA-TTAT
1 ATAAATTTTATATTTAT
*
83379 ATAAAATTTA
1 ATAAATTTTA
83389 ATATACTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 8 0.22
16 4 0.11
17 3 0.08
18 14 0.38
19 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATAAATTTTATATTTAT
Found at i:83388 original size:16 final size:16
Alignment explanation
Indices: 83336--83388 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
83326 ATCATAATAT
83336 TTTATATT-TATATAAA
1 TTTATATTATATA-AAA
*
83352 TTTTTA-TATATTAATAA
1 TTTATATTATA-TAA-AA
83369 TTTATATTATATAAAA
1 TTTATATTATATAAAA
83385 TTTA
1 TTTA
83389 ATATACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.45
17 12 0.39
18 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATATTATATAAAA
Found at i:83393 original size:32 final size:33
Alignment explanation
Indices: 83330--83393 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
83320 ATTATAATCA
* * *
83330 TAATATTTTATATTTATATAAATTTTTATATAT
1 TAATAATTTATATTTATATAAAATTTAATATAT
83363 TAATAATTTATA-TTATATAAAATTTAATATA
1 TAATAATTTATATTTATATAAAATTTAATATA
83394 CTATTTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TAATAATTTATATTTATATAAAATTTAATATAT
Found at i:84659 original size:3 final size:3
Alignment explanation
Indices: 84646--84677 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
84636 AACAGAACTC
*
84646 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
84678 GAGTTCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:85152 original size:27 final size:27
Alignment explanation
Indices: 85100--85153 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
85090 TCTTAAAATT
* *
85100 TATTTGATATAAATTATTAACTTTTTA
1 TATTTGATATAAATTATAAACATTTTA
*
85127 TATTTTATATAAA-TATAAAACATTTTA
1 TATTTGATATAAATTAT-AAACATTTTA
85154 ATTACTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTTGATATAAATTATAAACATTTTA
Found at i:85538 original size:16 final size:16
Alignment explanation
Indices: 85517--85563 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
85507 ATGTTTTTTA
85517 TTTTATAATTAAAATT
1 TTTTATAATTAAAATT
* *
85533 TTTTATTATTAATA-T
1 TTTTATAATTAAAATT
* *
85548 ATTTATATTTAAAATT
1 TTTTATAATTAAAATT
85564 ATAATAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTATAATTAAAATT
Found at i:85557 original size:24 final size:23
Alignment explanation
Indices: 85496--85557 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 23
85486 TACCCGTTAC
*
85496 AATATGATATTATGTTTTTTATTTT
1 AATAT-AT-TTATATTTTTTATTTT
* *
85521 -ATA-ATTAAAATTTTTTATTATT
1 AATATATTTATATTTTTTATT-TT
85543 AATATATTTATATTT
1 AATATATTTATATTT
85558 AAAATTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
21 11 0.38
22 4 0.14
23 3 0.10
24 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
AATATATTTATATTTTTTATTTT
Found at i:87794 original size:22 final size:22
Alignment explanation
Indices: 87767--87808 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
87757 TATTTAAAAT
87767 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
87789 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
87809 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:87850 original size:21 final size:18
Alignment explanation
Indices: 87813--87851 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
87803 AATTTAAATA
87813 AAAATATTTTTAATTAAT
1 AAAATATTTTTAATTAAT
87831 AAAATAATTATTTAAATTAAT
1 AAAAT-ATT-TTT-AATTAAT
87852 TTAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 3 0.17
21 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATATTTTTAATTAAT
Found at i:94039 original size:40 final size:39
Alignment explanation
Indices: 93986--94086 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 39
93976 TTATACATAA
*
93986 TAATATTTTTATTTAATGTATTAAAAATTATAAATAAAAT
1 TAAT-TTTTTATTTAATGTATTAAAAATAATAAATAAAAT
*
94026 TAATTTTTATATTTAATATAATGTATTAAAAATAATAAATGAAAT
1 TAATTTTT-TA--T--T-TAATGTATTAAAAATAATAAATAAAAT
94071 TAATTTTTGTATTTAA
1 TAATTTTT-TATTTAA
94087 AATAAAGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
39 4 0.08
40 9 0.17
41 1 0.02
42 1 0.02
43 1 0.02
44 1 0.02
45 35 0.67
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.49
Consensus pattern (39 bp):
TAATTTTTTATTTAATGTATTAAAAATAATAAATAAAAT
Found at i:94053 original size:45 final size:45
Alignment explanation
Indices: 93999--94091 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
93989 TATTTTTATT
* *
93999 TAATGTATTAAAAATTATAAATAAAATTAATTTTTATATTTAATA
1 TAATGTATTAAAAATAATAAATAAAATTAATTTTTATATTTAAAA
* *
94044 TAATGTATTAAAAATAATAAATGAAATTAATTTTTGTATTTAAAA
1 TAATGTATTAAAAATAATAAATAAAATTAATTTTTATATTTAAAA
94089 TAA
1 TAA
94092 AGTTATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (45 bp):
TAATGTATTAAAAATAATAAATAAAATTAATTTTTATATTTAAAA
Found at i:96086 original size:15 final size:15
Alignment explanation
Indices: 96066--96102 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
96056 TATCCAAATT
96066 CAAGTTGCA-AGTTG
1 CAAGTTGCATAGTTG
96080 ACAAGTTG-ATAGTTG
1 -CAAGTTGCATAGTTG
96095 CAAGTTGC
1 CAAGTTGC
96103 CTGTCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (15 bp):
CAAGTTGCATAGTTG
Found at i:96267 original size:26 final size:26
Alignment explanation
Indices: 96238--96293 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
96228 TTATTACAAA
* *
96238 AAAATAATTAAAT-ATTATAAATTTAT
1 AAAATAATAAAATAATTA-AAAATTAT
*
96264 AAAATTATAAAATAATTAAAAATTAT
1 AAAATAATAAAATAATTAAAAATTAT
96290 AAAA
1 AAAA
96294 AAAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAATAATAAAATAATTAAAAATTAT
Found at i:96294 original size:9 final size:8
Alignment explanation
Indices: 96246--96293 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
96236 AAAAAATAAT
96246 TAAATATTA
1 TAAA-ATTA
*
96255 TAAATTTA
1 TAAAATTA
96263 TAAAATTA
1 TAAAATTA
*
96271 TAAAATAA
1 TAAAATTA
96279 TTAAAAATTA
1 -T-AAAATTA
96289 TAAAA
1 TAAAA
96294 AAAATTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 21 0.64
9 6 0.18
10 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAAATTA
Found at i:97473 original size:21 final size:21
Alignment explanation
Indices: 97428--97477 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
97418 GATTCGTTAA
* *
97428 TATAAT-ATTATATTTTAATT
1 TATAATAATTAAAATTTAATT
97448 T-TAATAATTAAAATTTAATT
1 TATAATAATTAAAATTTAATT
97468 TATAATAATT
1 TATAATAATT
97478 TTAAGTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATAATAATTAAAATTTAATT
Found at i:97811 original size:14 final size:15
Alignment explanation
Indices: 97794--97826 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
97784 AAAAATTTAA
*
97794 AATATTTTTATA-TT
1 AATATTTATATATTT
97808 AATATTTATATATTT
1 AATATTTATATATTT
97823 AATA
1 AATA
97827 ATTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATTTATATATTT
Found at i:98453 original size:16 final size:16
Alignment explanation
Indices: 98434--98464 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98424 TTATATAATT
*
98434 TTAATTTTTAATAAAA
1 TTAATATTTAATAAAA
98450 TTAATATTTAATAAA
1 TTAATATTTAATAAA
98465 TAATAATTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATTTAATAAAA
Found at i:98478 original size:26 final size:26
Alignment explanation
Indices: 98442--98500 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
98432 TTTTAATTTT
*
98442 TAATAAAATT-AATATTTAATAAATAA
1 TAATTAAATTAAATA-TTAATAAATAA
* *
98468 TAATTAAATTAAATATTAATTATTAA
1 TAATTAAATTAAATATTAATAAATAA
98494 -AATTAAA
1 TAATTAAA
98501 AAAATTCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 7 0.24
26 18 0.62
27 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATTAAATTAAATATTAATAAATAA
Found at i:98630 original size:16 final size:15
Alignment explanation
Indices: 98587--98632 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
98577 GATAATATTA
98587 ATATCTAATAAAAAT
1 ATATCTAATAAAAAT
* * *
98602 ATTTGTAAAAAAATAT
1 ATATCTAATAAAA-AT
98618 ATATCTAATAAAAAT
1 ATATCTAATAAAAAT
98633 GTAGAATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (15 bp):
ATATCTAATAAAAAT
Found at i:100276 original size:19 final size:19
Alignment explanation
Indices: 100238--100277 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
100228 TTTTTTTACC
* * *
100238 AAAAATATTACAATTCAAA
1 AAAAAAATTACAAATAAAA
100257 AAAAAAATTACAAATAAAA
1 AAAAAAATTACAAATAAAA
100276 AA
1 AA
100278 TATGACTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAAAATTACAAATAAAA
Found at i:100981 original size:22 final size:20
Alignment explanation
Indices: 100949--101007 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
100939 TTTATATTTT
*
100949 AAAATTTAATAAAAATAATTA
1 AAAATTAAATAAAAAT-ATTA
*
100970 AATAATTAAATATTAAAATTTTA
1 AA-AATTAAATA--AAAATATTA
*
100993 AAAAATAAATAAAAA
1 AAAATTAAATAAAAA
101008 AACATAGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 16 0.50
23 5 0.16
24 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTAAATAAAAATATTA
Found at i:101941 original size:3 final size:3
Alignment explanation
Indices: 101933--101964 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
101923 AGGAAATGTT
101933 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
101965 TGAGATTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:103355 original size:92 final size:92
Alignment explanation
Indices: 103198--103381 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
103188 AAAAATGCCA
103198 TAGTTAATAGTAATCAGTTTGTAATGAATATGTAACAGTGATGTCTCAAAGGTCGTTTTTTTAAG
1 TAGTTAATAGTAATCAGTTTGTAATGAATATGTAACAGTGATGTCTCAAAGGTCGTTTTTTTAAG
103263 ATGCTTGTTTTCTACTAGATGACTGAT
66 ATGCTTGTTTTCTACTAGATGACTGAT
103290 TAGTTAATAGTAATCAGTTTGTAATGAATATGTAACAGTGATGTCTCAAAGGTCGTTTTTTTAAG
1 TAGTTAATAGTAATCAGTTTGTAATGAATATGTAACAGTGATGTCTCAAAGGTCGTTTTTTTAAG
103355 ATGCTTGTTTTCTACTAGATGACTGAT
66 ATGCTTGTTTTCTACTAGATGACTGAT
103382 CATCTTGGAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (92 bp):
TAGTTAATAGTAATCAGTTTGTAATGAATATGTAACAGTGATGTCTCAAAGGTCGTTTTTTTAAG
ATGCTTGTTTTCTACTAGATGACTGAT
Found at i:109586 original size:30 final size:33
Alignment explanation
Indices: 109552--109612 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
109542 CGATCATTAT
109552 TTAT-AAAATA-AT-ATTTTTATTTAA-ATTTAA
1 TTATAAAAATATATAATTTTT-TTTAATATTTAA
109582 TTATAAAAATATATAATTTTTTTTAATATTT
1 TTATAAAAATATATAATTTTTTTTAATATTT
109613 TAATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 4 0.15
31 6 0.22
32 7 0.26
33 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TTATAAAAATATATAATTTTTTTTAATATTTAA
Found at i:109633 original size:35 final size:32
Alignment explanation
Indices: 109552--109635 Score: 84
Period size: 35 Copynumber: 2.6 Consensus size: 32
109542 CGATCATTAT
109552 TTAT-AAAATAAT-ATTTTTATTTAAATTTAA
1 TTATAAAAATAATAATTTTTATTTAAATTTAA
109582 TTATAAAAATATATAATTTTT-TTTAATATTTTAA
1 TTATAAAAATA-ATAATTTTTATTTAA-A-TTTAA
**
109616 TATATTTTAAATAATAATTT
1 T-TA-TAAAAATAATAATTT
109636 AGATCTTCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
30 4 0.09
31 6 0.13
32 7 0.16
33 7 0.16
34 6 0.13
35 9 0.20
36 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTATAAAAATAATAATTTTTATTTAAATTTAA
Found at i:110200 original size:29 final size:29
Alignment explanation
Indices: 110167--110224 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
110157 TTATTTTTTT
*
110167 ATTTTTAAAAAGT-AAAA-TTAAAAATAAA
1 ATTTTTAAAAA-TCAAAATTTAAAAAAAAA
110195 ATTTTTAAAAATCAAAATTTAAAAAAAAA
1 ATTTTTAAAAATCAAAATTTAAAAAAAAA
110224 A
1 A
110225 AAGCAACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 15 0.56
29 11 0.41
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTTTTAAAAATCAAAATTTAAAAAAAAA
Found at i:110211 original size:16 final size:15
Alignment explanation
Indices: 110167--110214 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
110157 TTATTTTTTT
110167 ATTTTTAAAAAGTAAA
1 ATTTTTAAAAA-TAAA
110183 A---TTAAAAATAAA
1 ATTTTTAAAAATAAA
110195 ATTTTTAAAAATCAAA
1 ATTTTTAAAAAT-AAA
110211 ATTT
1 ATTT
110215 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 5 0.18
13 7 0.25
15 8 0.29
16 8 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATTTTTAAAAATAAA
Found at i:110215 original size:14 final size:13
Alignment explanation
Indices: 110170--110223 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 13
110160 TTTTTTTATT
110170 TTTAAAAAGTAAAA
1 TTTAAAAA-TAAAA
110184 -TTAAAAATAAAA
1 TTTAAAAATAAAA
110196 TTTTTAAAAATCAAAA
1 --TTTAAAAAT-AAAA
110212 TTTAAAAA-AAAA
1 TTTAAAAATAAAA
110224 AAAGCAACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 9 0.25
13 7 0.19
14 8 0.22
15 8 0.22
16 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
TTTAAAAATAAAA
Found at i:110219 original size:15 final size:14
Alignment explanation
Indices: 110170--110224 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 14
110160 TTTTTTTATT
*
110170 TTTAAAAAGTAAAA
1 TTTAAAAAATAAAA
110184 -TT-AAAAATAAAA
1 TTTAAAAAATAAAA
*
110196 TTTTTAAAAATCAAAA
1 -TTTAAAAAAT-AAAA
110212 TTTAAAAAA-AAAA
1 TTTAAAAAATAAAA
110225 AAGCAACTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.26
13 6 0.17
14 2 0.06
15 14 0.40
16 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
TTTAAAAAATAAAA
Found at i:110626 original size:31 final size:31
Alignment explanation
Indices: 110577--110635 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
110567 CAAATCGGTC
* *
110577 AATACATGCATCAGCACCGTCAATTTAAGGG
1 AATAAATGCATCACCACCGTCAATTTAAGGG
*
110608 AATAAATGCGTCACCACCGTCAATTTAA
1 AATAAATGCATCACCACCGTCAATTTAA
110636 CTGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
AATAAATGCATCACCACCGTCAATTTAAGGG
Found at i:111599 original size:16 final size:16
Alignment explanation
Indices: 111578--111635 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
111568 GTTTAATTTG
111578 ATTTTAAAATAATTAA
1 ATTTTAAAATAATTAA
*
111594 AATTT--AAT--TT-A
1 ATTTTAAAATAATTAA
111605 ATTTTAAAATAATTAA
1 ATTTTAAAATAATTAA
*
111621 ATTTTAATATAATTA
1 ATTTTAAAATAATTA
111636 TTAAATATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
11 5 0.15
12 2 0.06
13 3 0.09
14 3 0.09
15 2 0.06
16 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTAAAATAATTAA
Found at i:111599 original size:27 final size:27
Alignment explanation
Indices: 111569--111640 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
111559 TAAAATTTAG
*
111569 TTTAATTTGATTTTAAAATAATTAAAA
1 TTTAATTTAATTTTAAAATAATTAAAA
*
111596 TTTAATTTAATTTTAAAATAATTAAAT
1 TTTAATTTAATTTTAAAATAATTAAAA
*
111623 TTTAATATAATTATTAAA
1 TTTAATTTAATT-TTAAA
111641 TATCAAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 36 0.88
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (27 bp):
TTTAATTTAATTTTAAAATAATTAAAA
Found at i:112619 original size:2 final size:2
Alignment explanation
Indices: 112612--112649 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
112602 ACTTAATGCT
112612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112650 CACACACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:119896 original size:2 final size:2
Alignment explanation
Indices: 119889--119929 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
119879 GTCGATGAAG
119889 AT AT AT 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 AT AT AT A
119930 AAAGAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120177 original size:27 final size:28
Alignment explanation
Indices: 120126--120208 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 28
120116 TAGATCTGAG
120126 ATAAAAATAATTAAAATATTATATG-AT
1 ATAAAAATAATTAAAATATTATATGAAT
120153 ATAAAAATAA-TATAAATA-TATTATGAAT
1 ATAAAAATAATTA-AAATATTA-TATGAAT
** *
120181 ATATGAATATTTTAAAAT-TTATAT-AAT
1 ATAAAAATA-ATTAAAATATTATATGAAT
120208 A
1 A
120209 AAATTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
26 4 0.09
27 23 0.49
28 12 0.26
29 6 0.13
30 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (28 bp):
ATAAAAATAATTAAAATATTATATGAAT
Found at i:120598 original size:25 final size:24
Alignment explanation
Indices: 120547--120598 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
120537 CTTACATATT
*
120547 TATTTTATTTTTTATATCATATTA
1 TATTTTATTTTTTATATCATATCA
120571 TATTTTAATTATTTT-TATCATATCA
1 TATTTT-ATT-TTTTATATCATATCA
120596 TAT
1 TAT
120599 CTAAAATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 15 0.60
26 4 0.16
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTATTTTTTATATCATATCA
Found at i:121032 original size:2 final size:2
Alignment explanation
Indices: 121027--121075 Score: 50
Period size: 2 Copynumber: 25.5 Consensus size: 2
121017 ATGATGTGTG
* *
121027 TA TA TA TA TA TA T- TA T- TT TGA T- TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
121067 TA TA TA TA T
1 TA TA TA TA T
121076 TAACTTCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
1 3 0.08
2 36 0.90
3 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:121897 original size:29 final size:26
Alignment explanation
Indices: 121859--121964 Score: 79
Period size: 29 Copynumber: 3.7 Consensus size: 26
121849 ATTTATATAT
*
121859 TTATATCATATTTATATATTTTATTTTA
1 TTATATCATATTTA-ATATTAT-TTTTA
121887 TTATAATCATATTTAATATTATTTTTA
1 TTAT-ATCATATTTAATATTATTTTTA
* *
121914 TTTATAT-AAATTTTAAAATATATATTTATA
1 -TTATATCATA-TTT--AATAT-TATTTTTA
*
121944 TTATATTATATATTTAATATT
1 TTATA-T-CATATTTAATATT
121965 TTTATATGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
26 2 0.03
27 10 0.15
28 15 0.23
29 25 0.38
30 8 0.12
31 3 0.05
32 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATATCATATTTAATATTATTTTTA
Found at i:121968 original size:27 final size:27
Alignment explanation
Indices: 121849--121992 Score: 84
Period size: 27 Copynumber: 5.1 Consensus size: 27
121839 AAATTAAATA
*
121849 ATTTATATATT-TA-TATCATATTT-AT
1 ATTTTTATATTATATTAT-ATATTTAAT
* *
121874 ATATTTTATTTTATTATAATCATATTTAAT
1 AT-TTTTATATTA-TATTAT-ATATTTAAT
* *
121904 ATTATTTTTATT-TA-TATAAATTTTAAAAT
1 ATT-TTTATATTATATTATATA-TTT--AAT
121933 ATATATTTATATTATATTATATATTTAAT
1 AT-T-TTTATATTATATTATATATTTAAT
* *
121962 ATTTTTATATGATATTTATATAATT-AT
1 ATTTTTATATTATA-TTATATATTTAAT
121989 ATTT
1 ATTT
121993 AAAATTTTGG
Statistics
Matches: 95, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
25 2 0.02
26 9 0.09
27 21 0.22
28 14 0.15
29 20 0.21
30 19 0.20
31 5 0.05
32 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTTTATATTATATTATATATTTAAT
Found at i:122247 original size:5 final size:5
Alignment explanation
Indices: 122237--122317 Score: 69
Period size: 5 Copynumber: 16.4 Consensus size: 5
122227 AATTAATGAC
* *
122237 TTATA TTATA -TATA TTTTA ATATA TTTATA TTTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA -TTATA -TTATA TTATA TTATA TTATA
* * * *
122288 TTTTT TTATA TAATA -TA-A TTATA TTTTA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TT
122318 TAAAATTGAC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
3 1 0.02
4 7 0.11
5 43 0.70
6 10 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:122254 original size:32 final size:31
Alignment explanation
Indices: 122208--122284 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
122198 TTTATATATT
* *
122208 TATTATAAAAATTTTAATAAATTAATGACTTA
1 TATTATATATATTTTAATAAATTAAT-ACTTA
* * *
122240 TATTATATATATTTTAATATATTTATATTTA
1 TATTATATATATTTTAATAAATTAATACTTA
122271 TATTATATTATATT
1 TATTATA-TATATT
122285 ATATTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 11 0.28
32 28 0.72
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTATATATATTTTAATAAATTAATACTTA
Found at i:122268 original size:16 final size:16
Alignment explanation
Indices: 122237--122284 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
122227 AATTAATGAC
*
122237 TTATATTATA-TATAT
1 TTATAATATATTATAT
122252 TT-TAATATATTTATAT
1 TTATAATATA-TTATAT
*
122268 TTATATTATATTATAT
1 TTATAATATATTATAT
122284 T
1 T
122285 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.21
15 2 0.07
16 14 0.50
17 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATAATATATTATAT
Found at i:122897 original size:20 final size:20
Alignment explanation
Indices: 122868--122913 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
122858 ATTCGATCTA
122868 ATTT-AAATAAT-TATTTATT
1 ATTTAAAATAATATATTT-TT
122887 ATTTAAAATAATATATTTTT
1 ATTTAAAATAATATATTTTT
122907 ATTTAAA
1 ATTTAAA
122914 TTTATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAAAATAATATATTTTT
Found at i:124037 original size:23 final size:21
Alignment explanation
Indices: 124011--124061 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 21
124001 AAATTTTAAA
*
124011 TAATATAATATTATATGATCTAT
1 TAATATAAT-GTAT-TGATCTAT
124034 T-A-ATAATGTATTGATCTAT
1 TAATATAATGTATTGATCTAT
124053 TAAATATAA
1 T-AATATAA
124062 ATACTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 9 0.38
20 3 0.12
21 6 0.25
22 5 0.21
23 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
TAATATAATGTATTGATCTAT
Done.