Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold54
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: 3629595
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 8670 characters in sequence are not A, C, G, or T
File 3 of 20
Found at i:347432 original size:22 final size:19
Alignment explanation
Indices: 347404--347476 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 19
347394 ATGATGCAAC
347404 ATAAATATATATTTAAAATAT
1 ATAAATAT-TA-TTAAAATAT
*
347425 ATATAATATTAATTATTAATAT
1 ATA-AATATT-ATTA-AAATAT
*
347447 ATAAAAATTTATTAAAATAT
1 ATAAATA-TTATTAAAATAT
347467 A-AAATATTAT
1 ATAAATATTAT
347477 AAACATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
18 4 0.09
19 4 0.09
20 6 0.14
21 14 0.32
22 16 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAATATTATTAAAATAT
Found at i:347476 original size:18 final size:17
Alignment explanation
Indices: 347435--347476 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
347425 ATATAATATT
*
347435 AATTATTAATATATAAA
1 AATTATTAAAATATAAA
347452 AATTTATTAAAATATAAA
1 AA-TTATTAAAATATAAA
347470 ATATTAT
1 A-ATTAT
347477 AAACATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTATTAAAATATAAA
Found at i:347994 original size:22 final size:24
Alignment explanation
Indices: 347962--348012 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
347952 AAATTTATTA
* *
347962 AATATATTAAA-ATTTTAAA-TAT
1 AATATAATAAATATATTAAACTAT
347984 AATATAATAAATATATTAAACTAT
1 AATATAATAAATATATTAAACTAT
*
348008 TATAT
1 AATAT
348013 TATATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 7 0.29
24 7 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATAATAAATATATTAAACTAT
Found at i:347998 original size:31 final size:32
Alignment explanation
Indices: 347943--348003 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
347933 ATATTTTACG
* *
347943 TTTAAATATAAATTTATTAAATATATTAAAAT
1 TTTAAATATAAATATAATAAATATATTAAAAT
347975 TTTAAATAT-AATATAATAAATATATTAAA
1 TTTAAATATAAATATAATAAATATATTAAA
348004 CTATTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TTTAAATATAAATATAATAAATATATTAAAAT
Found at i:348023 original size:31 final size:31
Alignment explanation
Indices: 347944--348026 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 31
347934 TATTTTACGT
* *
347944 TTAAATATAAATTTATTAAATATATTAAAATT
1 TTAAATAT-AATTTAATAAATATATTAAAATA
* *
347976 TTAAATATAATATAATAAATATATTAAACTA
1 TTAAATATAATTTAATAAATATATTAAAATA
*
348007 TTATAT-TATATTTAATAAAT
1 TTAAATATA-ATTTAATAAAT
348027 GTGACTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.05
31 34 0.77
32 8 0.18
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
TTAAATATAATTTAATAAATATATTAAAATA
Found at i:351344 original size:15 final size:16
Alignment explanation
Indices: 351326--351364 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
351316 CCATTTGTTG
351326 TTTTTTTTTCTTT-TT
1 TTTTTTTTTCTTTCTT
*
351341 TTTTTCTTTCTTTCTT
1 TTTTTTTTTCTTTCTT
351357 TTGTTTTT
1 TT-TTTTT
351365 AGAAAGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 12 0.60
16 4 0.20
17 4 0.20
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTCTTTCTT
Found at i:352445 original size:23 final size:25
Alignment explanation
Indices: 352410--352456 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
352400 AAATATATAT
352410 ATAAAAAACAATTATAAT-TTAAAA
1 ATAAAAAACAATTATAATCTTAAAA
352434 ATAAAAAA-AATTATAATCTTAAA
1 ATAAAAAACAATTATAATCTTAAA
352457 TTTAAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAAAAAACAATTATAATCTTAAAA
Found at i:353753 original size:21 final size:21
Alignment explanation
Indices: 353718--353759 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
353708 AATTAATATT
*
353718 TTTTTAAAAAAATTATTTTAA
1 TTTTTAAAAAAATTATATTAA
**
353739 TTTTTAAAATTATTATATTAA
1 TTTTTAAAAAAATTATATTAA
353760 ATAAATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTAAAAAAATTATATTAA
Found at i:354131 original size:21 final size:20
Alignment explanation
Indices: 354091--354131 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
354081 TGGGATTTTT
*
354091 TTTTTATTTTTATAATTTAA
1 TTTTTATTTTTATAAATTAA
*
354111 TTTTTATTTTTTTAAAATTAA
1 TTTTTATTTTTAT-AAATTAA
354132 AATAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATTTTTATAAATTAA
Found at i:361119 original size:13 final size:13
Alignment explanation
Indices: 361101--361126 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
361091 CAATTTTTTG
361101 TGTATCGATACAT
1 TGTATCGATACAT
361114 TGTATCGATACAT
1 TGTATCGATACAT
361127 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:361212 original size:20 final size:20
Alignment explanation
Indices: 361187--361259 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
361177 ATCTTTTTTT
361187 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
361207 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
361228 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
361248 ATGTATCGATAC
1 ATGTATCGATAC
361260 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:361238 original size:41 final size:42
Alignment explanation
Indices: 361165--361259 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
361155 CTGCCAAGAA
*
361165 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
361207 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
361248 ATGTATCGATAC
1 ATGTATCGATAC
361260 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:361897 original size:16 final size:16
Alignment explanation
Indices: 361866--361911 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
361856 CTCTCCTTTG
361866 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
361884 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
361900 TCTCCCCCTTAA
1 TCTCCCCCTTAA
361912 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:363735 original size:13 final size:13
Alignment explanation
Indices: 363717--363755 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
363707 ATAATCACCC
*
363717 TGTATCGATACAG
1 TGTATCGATACAA
363730 TGTATCGATACAA
1 TGTATCGATACAA
363743 TGTATCGATACAA
1 TGTATCGATACAA
363756 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:363766 original size:20 final size:20
Alignment explanation
Indices: 363741--363819 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
363731 GTATCGATAC
363741 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
363761 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
363786 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
363805 ACATGTATCGATACA
1 A-ATGTATCGATACA
363820 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:365865 original size:15 final size:15
Alignment explanation
Indices: 365829--365866 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
365819 TACATCAATT
* *
365829 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
365844 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
365859 TCATTTTG
1 TCATTTTG
365867 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:369950 original size:13 final size:13
Alignment explanation
Indices: 369932--369957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
369922 CAATTTTTTG
369932 TGTATCGATACAT
1 TGTATCGATACAT
369945 TGTATCGATACAT
1 TGTATCGATACAT
369958 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:370043 original size:20 final size:20
Alignment explanation
Indices: 370018--370090 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
370008 ATCTTTTTTT
370018 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
370038 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
370059 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
370079 ATGTATCGATAC
1 ATGTATCGATAC
370091 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:370069 original size:41 final size:42
Alignment explanation
Indices: 369996--370090 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
369986 CTGCCAAGAA
*
369996 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
370038 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
370079 ATGTATCGATAC
1 ATGTATCGATAC
370091 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:371571 original size:68 final size:63
Alignment explanation
Indices: 371458--371584 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 63
371448 ATCTATAAAT
* *
371458 GAAGAAATCAACAATGGAATTATTAACATATTAGGGAAATCACCATATGGCTATAATTATCAA
1 GAAGAAATCAACAATGGAATTATTAACATATAAGGGAAATCACCATATGGCAATAATTATCAA
*
371521 GAAGAAATCAACAATGGAATTATCAAGTTAACATATAAGGGAAATCACCATCTGGCAATAATTA
1 GAAGAAATCAACAATGGAA-T-T--A-TTAACATATAAGGGAAATCACCATATGGCAATAATTA
371585 AACCAAGTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
63 19 0.34
64 1 0.02
65 1 0.02
67 1 0.02
68 34 0.61
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (63 bp):
GAAGAAATCAACAATGGAATTATTAACATATAAGGGAAATCACCATATGGCAATAATTATCAA
Found at i:372254 original size:2 final size:2
Alignment explanation
Indices: 372247--372272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
372237 GCAGAAGTGA
372247 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
372273 TAATAATAAT
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):
AT
Found at i:372694 original size:16 final size:16
Alignment explanation
Indices: 372661--372740 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
372651 TATTAAAATT
* * *
372661 AATTTATTTATATTTA
1 AATTTATATAAATATA
372677 AATTTATATAAATATAA
1 AATTTATATAAATAT-A
372694 AATATT-TA-AAATAT-
1 AAT-TTATATAAATATA
372708 AA-TTATAATATAATA-A
1 AATTTAT-ATA-AATATA
*
372724 AATATATATAAATATA
1 AATTTATATAAATATA
372740 A
1 A
372741 TATAAATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
12 2 0.04
13 1 0.02
14 3 0.06
15 5 0.10
16 29 0.57
17 9 0.18
18 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTATATAAATATA
Found at i:372714 original size:22 final size:21
Alignment explanation
Indices: 372682--372749 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
372672 ATTTAAATTT
*
372682 ATATAAATATAAAATATTTAAA
1 ATATAAATATAAAATA-ATAAA
* *
372704 ATATAATTATAATATAATAAA
1 ATATAAATATAAAATAATAAA
372725 ATAT--ATATAAATATAATATAA
1 ATATAAATATAAA-ATAATA-AA
372746 ATAT
1 ATAT
372750 TTAGCATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.13
20 6 0.15
21 14 0.36
22 14 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAAATATAAAATAATAAA
Found at i:372721 original size:5 final size:5
Alignment explanation
Indices: 372703--372745 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
372693 AAATATTTAA
*
372703 AATAT AATTAT AATAT AATAA AATAT -ATAT AAATAT AATAT AA
1 AATAT AA-TAT AATAT AATAT AATAT AATAT -AATAT AATAT AA
372746 ATATTTAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 4 0.12
5 20 0.61
6 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:372722 original size:25 final size:28
Alignment explanation
Indices: 372682--372752 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 28
372672 ATTTAAATTT
372682 ATATAAATATAAAATATTTAA-A-ATATAA
1 ATAT-AATAT-AAATATTTAATATATATAA
* *
372710 TTATAATAT-AATA--AAATATATATAA
1 ATATAATATAAATATTTAATATATATAA
372735 ATATAATATAAATATTTA
1 ATATAATATAAATATTTA
372753 GCATATGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 18 0.53
26 4 0.12
27 5 0.15
28 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATAATATAAATATTTAATATATATAA
Found at i:372746 original size:11 final size:11
Alignment explanation
Indices: 372702--372749 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
372692 AAAATATTTA
372702 AAATATAAT-T
1 AAATATAATAT
372712 ATAATATAATA-
1 A-AATATAATAT
372723 AAATAT-ATAT
1 AAATATAATAT
372733 AAATATAATAT
1 AAATATAATAT
372744 AAATAT
1 AAATAT
372750 TTAGCATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.09
10 12 0.35
11 19 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATATAATAT
Found at i:372749 original size:31 final size:30
Alignment explanation
Indices: 372683--372745 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
372673 TTTAAATTTA
*
372683 TATAA-AT-ATAAAATATTTAAAATATAAT
1 TATAATATAATAAAATATATAAAATATAAT
372711 TATAATATAATAAAATATATATAAATATAA-
1 TATAATATAATAAAATATATA-AAATATAAT
372741 TATAA
1 TATAA
372746 ATATTTAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.16
29 2 0.06
30 16 0.52
31 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
TATAATATAATAAAATATATAAAATATAAT
Found at i:373464 original size:32 final size:31
Alignment explanation
Indices: 373362--373478 Score: 130
Period size: 32 Copynumber: 3.8 Consensus size: 31
373352 TTAATATTGA
*
373362 TCATAAATTTAAT-AA-ATTAAACATAAATAT
1 TCATAAATTTAATAAATATTAAA-ATAATTAT
* *
373392 TCATAAATTTAATAGATATTAAAAAAATTAT
1 TCATAAATTTAATAAATATTAAAATAATTAT
* * *
373423 TTATGAATTTAATAAATATTAAATATAATTAA
1 TCATAAATTTAATAAATATTAAA-ATAATTAT
* *
373455 TCGTAAATTTAATAATTATTAAAA
1 TCATAAATTTAATAAATATTAAAA
373479 ATTTTATCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
30 13 0.18
31 28 0.39
32 31 0.43
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
TCATAAATTTAATAAATATTAAAATAATTAT
Found at i:378911 original size:66 final size:63
Alignment explanation
Indices: 378839--378977 Score: 154
Period size: 62 Copynumber: 2.2 Consensus size: 63
378829 TTTATGTCAA
* * * *
378839 AATTAATAATTTATCTAATAACAAAGAAATAATAAATGTAATCAATTTTAAAATTTTATATTTGA
1 AATTAATAATTAATCT-A-AA-AAA-AAATAATAAATATAATCAATTATAAAATTTTATATATGA
378904 T-
62 TG
* * * *
378905 AATTAATAATTAATCTAAATAATAATATTAAATATGATCAATTATAAAATTTTATATATGATG
1 AATTAATAATTAATCTAAAAAAAAATAATAAATATAATCAATTATAAAATTTTATATATGATG
*
378968 AATTGATAAT
1 AATTAATAAT
378978 CAATATTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 34 0.54
63 11 0.17
64 2 0.03
65 1 0.02
66 15 0.24
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (63 bp):
AATTAATAATTAATCTAAAAAAAAATAATAAATATAATCAATTATAAAATTTTATATATGATG
Found at i:380331 original size:23 final size:21
Alignment explanation
Indices: 380271--380331 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
380261 TTTATTTTTT
*
380271 TATATTAACATTATATAAATTTA
1 TATATT-ACTTTAT-TAAATTTA
*
380294 TATATT--TTTAATAAATTATA
1 TATATTACTTTATTAAATT-TA
380314 TGATATTACTTTATTAAA
1 T-ATATTACTTTATTAAA
380332 AAATATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 5 0.16
23 14 0.45
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (21 bp):
TATATTACTTTATTAAATTTA
Found at i:380355 original size:25 final size:23
Alignment explanation
Indices: 380289--380357 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 23
380279 CATTATATAA
*
380289 ATTTATA-TATTTTTAATAAATT
1 ATTTATATTATTTTTAAAAAATT
*
380311 ATATGATATTACTTTATTAAAAAATAT
1 AT-TTATATTA-TTT-TTAAAAAAT-T
380338 ATTTATATTTATTTTTAAAA
1 ATTTATA-TTATTTTTAAAA
380358 TTTTTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 4 0.11
24 2 0.05
25 9 0.24
26 15 0.39
27 6 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
ATTTATATTATTTTTAAAAAATT
Found at i:382144 original size:2 final size:2
Alignment explanation
Indices: 382137--382161 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
382127 TTCTGCATGT
382137 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
382162 GCAAGGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:384108 original size:23 final size:22
Alignment explanation
Indices: 384075--384117 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
384065 TCTTACGATC
*
384075 AAATTATTTATTTAATTTAATA
1 AAATTATTTATTTAAATTAATA
384097 AAATTAATTTATTTAAATTAA
1 AAATT-ATTTATTTAAATTAA
384118 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTATTTATTTAAATTAATA
Found at i:384119 original size:19 final size:19
Alignment explanation
Indices: 384084--384154 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 19
384074 CAAATTATTT
384084 ATTTAATTTAATAAAATTA
1 ATTTAATTTAATAAAATTA
*
384103 ATTT-ATTTAAATTAAATTTTAA
1 ATTTAATTT-AA-TAAA-ATT-A
* **
384125 ATATAATTTTTTAAAATTTA
1 ATTTAATTTAATAAAA-TTA
384145 ATTTAATTTA
1 ATTTAATTTA
384155 TTATTTAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 13 0.33
21 8 0.21
22 4 0.10
23 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATTTAATAAAATTA
Found at i:384125 original size:27 final size:27
Alignment explanation
Indices: 384097--384148 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
384087 TAATTTAATA
384097 AAAT-TAATTTATTT-AAATTAAATTTT
1 AAATATAATTT-TTTAAAATTAAATTTT
*
384123 AAATATAATTTTTTAAAATTTAATTT
1 AAATATAATTTTTTAAAATTAAATTT
384149 AATTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AAATATAATTTTTTAAAATTAAATTTT
Found at i:384146 original size:15 final size:14
Alignment explanation
Indices: 384084--384148 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
384074 CAAATTATTT
**
384084 ATTTAATTTAATAA
1 ATTTAATTTTTTAA
*
384098 AATTAATTTATTTAA
1 ATTTAATTT-TTTAA
*
384113 A-TTAA-ATTTTAA
1 ATTTAATTTTTTAA
*
384125 ATATAATTTTTTAAA
1 ATTTAATTTTTT-AA
384140 ATTTAATTT
1 ATTTAATTT
384149 AATTTATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
12 6 0.15
13 4 0.10
14 16 0.40
15 14 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTAATTTTTTAA
Found at i:384217 original size:14 final size:14
Alignment explanation
Indices: 384198--384225 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
384188 TAATAATAAA
384198 ATATAAAAATATTT
1 ATATAAAAATATTT
384212 ATATAAAAATATTT
1 ATATAAAAATATTT
384226 TTAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAAAAATATTT
Found at i:386884 original size:3 final size:3
Alignment explanation
Indices: 386876--386908 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
386866 CTTAAACAAA
386876 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
386909 TATGAAAAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:387723 original size:22 final size:23
Alignment explanation
Indices: 387667--387737 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 23
387657 TTTTTTCAAG
* *
387667 TATTATAAAAATATTTATTCTTCAAT
1 TATTA-AAAAA-ATTTATTATT-AAA
387693 TATT-AAAAAATTTATTATTAAA
1 TATTAAAAAAATTTATTATTAAA
*
387715 TATTGAAAACTAATTTATTATTA
1 TATT-AAAA-AAATTTATTATTA
387738 GACTGTTGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.15
23 9 0.23
24 8 0.21
25 12 0.31
26 4 0.10
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (23 bp):
TATTAAAAAAATTTATTATTAAA
Found at i:387723 original size:23 final size:22
Alignment explanation
Indices: 387672--387737 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 22
387662 TCAAGTATTA
* *
387672 TAAAAATATTTATTCTTCAATTAT
1 TAAAAA-ATTTATTATT-AAATAT
387696 TAAAAAATTTATTATTAAATAT
1 TAAAAAATTTATTATTAAATAT
387718 TGAAAACTAATTTATTATTA
1 T-AAAA--AATTTATTATTA
387738 GACTGTTGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.16
23 13 0.35
24 6 0.16
25 12 0.32
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAAAAATTTATTATTAAATAT
Found at i:388993 original size:23 final size:23
Alignment explanation
Indices: 388966--389012 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
388956 ATTTATAATT
*
388966 ATATATGTAAATAATAAT-AATAA
1 ATATAT-TAAAAAATAATAAATAA
388989 ATATATTAAAAAATAATAAATAA
1 ATATATTAAAAAATAATAAATAA
389012 A
1 A
389013 AAAGTAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
ATATATTAAAAAATAATAAATAA
Found at i:389987 original size:17 final size:17
Alignment explanation
Indices: 389950--390002 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
389940 ATGATGTTAT
*
389950 AATTATTTTATAATTTT-
1 AATTATTTTAT-TTTTTA
389967 AATTATTTTATTTTTTA
1 AATTATTTTATTTTTTA
*
389984 AATTTATATTTATTATTTA
1 AA-TTAT-TTTATTTTTTA
390003 TTATAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.13
17 13 0.42
18 4 0.13
19 10 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTATTTTATTTTTTA
Found at i:389999 original size:22 final size:22
Alignment explanation
Indices: 389946--390015 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
389936 ATGTATGATG
* *
389946 TTATAATTATTTTATAATTTTAA
1 TTAT-ATTATTTTTTAAATTTAA
*
389969 TTATTTTATTTTTTAAATTTATA
1 TTATATTATTTTTTAAATTTA-A
*
389992 TT-TATTATTTATTATAA-TTAA
1 TTATATTATTTTTTA-AATTTAA
390013 TTA
1 TTA
390016 AAATTAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.08
22 27 0.69
23 9 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATATTATTTTTTAAATTTAA
Found at i:391412 original size:2 final size:2
Alignment explanation
Indices: 391405--391435 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
391395 ATTGCCACCC
391405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
391436 GTCAGCTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:391963 original size:18 final size:18
Alignment explanation
Indices: 391935--392003 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
391925 ATTATATTTA
391935 AAATATTAAATATTTATAT
1 AAAT-TTAAATATTTATAT
391954 AAATTTAAATATATTA-AT
1 AAATTTAAATAT-TTATAT
391972 -AATTT--ATA-TTATAT
1 AAATTTAAATATTTATAT
391986 AAATTTAATATATTTATA
1 AAATTTAA-ATATTTATA
392004 ATTTATTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 8 0.19
17 5 0.12
18 13 0.30
19 12 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTTAAATATTTATAT
Found at i:391967 original size:27 final size:31
Alignment explanation
Indices: 391930--392015 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
391920 TCATAATTAT
391930 ATTTAAA-ATATT-A-AA-TAT-TTATATAA
1 ATTTAAATATATTAATAATTATATTATATAA
391956 ATTTAAATATATTAATAATTTATATTATATAA
1 ATTTAAATATATTAATAA-TTATATTATATAA
*
391988 ATTT-AATATATTTATAATT-TATTTATAT
1 ATTTAAATATATTAATAATTATA-TTATAT
392016 TATTCTTATC
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
26 7 0.13
27 5 0.10
28 1 0.02
29 4 0.08
30 8 0.15
31 15 0.29
32 12 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTAAATATATTAATAATTATATTATATAA
Found at i:391981 original size:13 final size:15
Alignment explanation
Indices: 391948--392015 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
391938 TATTAAATAT
391948 TTATATAAATTTA-A
1 TTATATAAATTTATA
*
391962 ATATATTAATAATTTATA
1 TTATA-T-A-AATTTATA
391980 TTATATAAATTTA-A
1 TTATATAAATTTATA
*
391994 TATATTTATAATTTAT-
1 T-TATATA-AATTTATA
392010 TTATAT
1 TTATAT
392016 TATTCTTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
14 6 0.14
15 16 0.37
16 9 0.21
17 7 0.16
18 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATATAAATTTATA
Found at i:391988 original size:26 final size:25
Alignment explanation
Indices: 391922--392003 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
391912 ATTTTATATC
391922 ATAA-TTATATT-TA-AAATATTAA
1 ATAATTTATATTATATAAATATTAA
* * *
391944 AT-ATTTATATAAATTTAAATATATTA
1 ATAATTTATAT-TATATAAATAT-TAA
391970 ATAATTTATATTATATAAAT-TT-A
1 ATAATTTATATTATATAAATATTAA
391993 ATATATTTATA
1 ATA-ATTTATA
392004 ATTTATTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
21 1 0.02
22 8 0.17
23 4 0.08
24 9 0.19
25 7 0.15
26 11 0.23
27 8 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATTTATATTATATAAATATTAA
Found at i:391999 original size:31 final size:31
Alignment explanation
Indices: 391945--392015 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
391935 AAATATTAAA
391945 TATTTATATAAATTTAAATATATTAATAATT
1 TATTTATATAAATTTAAATATATTAATAATT
*
391976 TATATTATATAAATTT-AATATATTTATAATT
1 TAT-TTATATAAATTTAAATATATTAATAATT
392007 TATTTATAT
1 TATTTATAT
392016 TATTCTTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 6 0.16
31 20 0.53
32 12 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TATTTATATAAATTTAAATATATTAATAATT
Found at i:394300 original size:2 final size:2
Alignment explanation
Indices: 394293--394329 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
394283 TTTTATATGC
394293 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 A
394330 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:394334 original size:2 final size:2
Alignment explanation
Indices: 394329--394364 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
394319 ATATATATAT
394329 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
394365 CAGCGGTCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:394855 original size:2 final size:2
Alignment explanation
Indices: 394848--394891 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
394838 AATCCAATTC
394848 AT AT AT AT AT AT AT 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 AT AT AT AT
394890 AT
1 AT
394892 GTTTTGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:398352 original size:13 final size:13
Alignment explanation
Indices: 398334--398358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
398324 AAATAATATA
398334 AAATTTATAAATT
1 AAATTTATAAATT
398347 AAATTTATAAAT
1 AAATTTATAAAT
398359 AACACATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATTTATAAATT
Found at i:399364 original size:12 final size:11
Alignment explanation
Indices: 399339--399370 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
399329 TATTTAAGTT
399339 AAAATTAAATA
1 AAAATTAAATA
*
399350 AAAATTTAATA
1 AAAATTAAATA
399361 AAAATTAAAT
1 AAAATTAAAT
399371 CGATTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATTAAATA
Found at i:402839 original size:12 final size:13
Alignment explanation
Indices: 402814--402856 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
402804 TATTTTTGAC
402814 AATAA-TAT-TAA
1 AATAATTATATAA
402825 AATAATT-TATAA
1 AATAATTATATAA
402837 AATAATTATATAA
1 AATAATTATATAA
402850 AA-AATTA
1 AATAATTA
402857 AACTAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.21
12 16 0.55
13 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAATTATATAA
Found at i:408675 original size:20 final size:20
Alignment explanation
Indices: 408650--408691 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
408640 TTACATATTT
*
408650 ATTTTTAAT-TCATTTTTAAA
1 ATTTTTAATAT-ATTTTAAAA
408670 ATTTTTAATATATTTTAAAA
1 ATTTTTAATATATTTTAAAA
408690 AT
1 AT
408692 ATATATTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTAATATATTTTAAAA
Found at i:408740 original size:2 final size:2
Alignment explanation
Indices: 408733--408758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
408723 AAATTTCATG
408733 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
408759 GCCTAAATTC
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):
AT
Found at i:409925 original size:20 final size:21
Alignment explanation
Indices: 409886--409926 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
409876 GTTAAATTTA
* *
409886 AATTAATTTAAAATTTTATAT
1 AATTAATTTAAAAATATATAT
409907 AATT-ATTTAAAAATATATAT
1 AATTAATTTAAAAATATATAT
409927 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAATTTAAAAATATATAT
Found at i:412825 original size:2 final size:2
Alignment explanation
Indices: 412818--412857 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
412808 ATATCCAAAC
412818 TA 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 TA
412858 GATGGTGCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:414597 original size:19 final size:20
Alignment explanation
Indices: 414566--414603 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
414556 TTATCGATAT
414566 TTATAATTAATATTTATTAA
1 TTATAATTAATATTTATTAA
414586 TTATAA-TAATATTTATTA
1 TTATAATTAATATTTATTA
414604 TATTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATAATTAATATTTATTAA
Found at i:419545 original size:2 final size:2
Alignment explanation
Indices: 419538--419591 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
419528 AAGGAGTGGG
419538 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
419580 GA GA GA GA GA GA
1 GA GA GA GA GA GA
419592 AAATCACTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:422237 original size:32 final size:31
Alignment explanation
Indices: 422163--422239 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
422153 TTTTTGATGC
* * *
422163 TATCAAATTTATAAATAATTTATCTAATATT
1 TATCAAATTTACAAATAATTTATCTAACATA
* *
422194 TATTAAATTTACAAATAA-TTATACTTAACGTA
1 TATCAAATTTACAAATAATTTAT-C-TAACATA
422226 TATCAAATTTACAA
1 TATCAAATTTACAA
422240 TCAATATCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 4 0.11
31 17 0.45
32 17 0.45
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
TATCAAATTTACAAATAATTTATCTAACATA
Found at i:426270 original size:23 final size:21
Alignment explanation
Indices: 426212--426272 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 21
426202 ACATAGAAAC
* *
426212 TATTAATTATGTTAATTAATA
1 TATTAATTATTTTAAATAATA
426233 TA-TAA-TATTTTAAATAATA
1 TATTAATTATTTTAAATAATA
*
426252 TATTAATTATTTTTAA-AATA
1 TATTAATTATTTTAAATAATA
426272 T
1 T
426273 TTTTTAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 14 0.40
20 11 0.31
21 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TATTAATTATTTTAAATAATA
Found at i:426365 original size:19 final size:21
Alignment explanation
Indices: 426322--426378 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
426312 ATAATGTTAC
426322 AAATTAAATAAATATTAATTT
1 AAATTAAATAAATATTAATTT
426343 -AATT-AATAAAT-TT-ATTT
1 AAATTAAATAAATATTAATTT
*
426360 AAAATTTAA-AAATATTAAT
1 -AAATTAAATAAATATTAAT
426379 AACATAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.13
18 2 0.06
19 15 0.48
20 8 0.26
21 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTAAATAAATATTAATTT
Found at i:426685 original size:4 final size:4
Alignment explanation
Indices: 426678--426709 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
426668 AGGATGATAA
*
426678 TATT TATT TATT TATT TATT TATT TTTT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
426710 GTTAGGGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:427903 original size:22 final size:23
Alignment explanation
Indices: 427878--427922 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
427868 TAGACAACTT
*
427878 AATATATTTTTTTA-ATATTTAA
1 AATATATTTTTATATATATTTAA
427900 AATATATTTTTATATATATTTAA
1 AATATATTTTTATATATATTTAA
427923 TTTTTACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AATATATTTTTATATATATTTAA
Found at i:428186 original size:15 final size:15
Alignment explanation
Indices: 428166--428195 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
428156 TTAACACAAA
*
428166 TATTAAATTATTTAT
1 TATTAAAATATTTAT
428181 TATTAAAATATTTAT
1 TATTAAAATATTTAT
428196 ATTTTTATAT
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:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTAAAATATTTAT
Found at i:428211 original size:23 final size:23
Alignment explanation
Indices: 428163--428266 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
428153 AAATTAACAC
*
428163 AAATATTAAATTATTTATTATTA
1 AAATATTATATTATTTATTATTA
428186 AAATATTTATATT-TTTA-TATTAA
1 AAATA-TTATATTATTTATTATT-A
** *
428209 AAATAGTTATTATTAAATATTTATAA
1 AAATA-TTA-TATTATTTA-TTATTA
*
428235 AATATAATTTATATAAATTTATTATTA
1 AA-AT-A-TTATAT-TATTTATTATTA
428262 AAATA
1 AAATA
428267 GTAACATAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
22 4 0.06
23 18 0.29
24 10 0.16
25 3 0.05
26 5 0.08
27 15 0.24
28 7 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
AAATATTATATTATTTATTATTA
Found at i:428433 original size:22 final size:22
Alignment explanation
Indices: 428390--428461 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
428380 TTCATTCAAA
* *
428390 TAATAAATTA-TATTAATCATAT
1 TAATAATTTATTATTAA-AATAT
428412 TAATAATTTATTATTAAAATATAT
1 TAATAATTTATTATT-AAA-ATAT
* *
428436 TAA-ATTTTATTATTGAAATAT
1 TAATAATTTATTATTAAAATAT
*
428457 AAATA
1 TAATA
428462 TGTATGTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.15
22 12 0.29
23 14 0.34
24 9 0.22
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (22 bp):
TAATAATTTATTATTAAAATAT
Found at i:428444 original size:23 final size:24
Alignment explanation
Indices: 428408--428457 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
428398 TATATTAATC
428408 ATATTAATAATTTATTATTAAAAT
1 ATATTAATAATTTATTATTAAAAT
* *
428432 ATATTAA-ATTTTATTATTGAAAT
1 ATATTAATAATTTATTATTAAAAT
428455 ATA
1 ATA
428458 AATATGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATTAATAATTTATTATTAAAAT
Found at i:428527 original size:16 final size:16
Alignment explanation
Indices: 428506--428565 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
428496 AGTATTATAT
428506 TATTAAAATAATTTAA
1 TATTAAAATAATTTAA
428522 TATTAAAAT--TTTAA
1 TATTAAAATAATTTAA
** *
428536 TATATTTAA-AATTAAA
1 TAT-TAAAATAATTTAA
428552 TATT-AAATAATTTA
1 TATTAAAATAATTTA
428566 TTAATAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAAAATAATTTAA
Found at i:428552 original size:22 final size:23
Alignment explanation
Indices: 428506--428565 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
428496 AGTATTATAT
* *
428506 TATTAAAATAATTTAATATTAAAA
1 TATTAATAT-ATTTAAAATTAAAA
*
428530 TTTTAATATATTTAAAATT-AAA
1 TATTAATATATTTAAAATTAAAA
428552 TATTAA-ATAATTTA
1 TATTAATAT-ATTTA
428566 TTAATAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 13 0.42
23 9 0.29
24 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTAATATATTTAAAATTAAAA
Found at i:428560 original size:23 final size:23
Alignment explanation
Indices: 428506--428565 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
428496 AGTATTATAT
*
428506 TATTAAA-ATAATTTAATATTAAA
1 TATTAAATAT-ATTTAAAATTAAA
*
428529 -ATTTTAATATATTTAAAATTAAA
1 TA-TTAAATATATTTAAAATTAAA
428552 TATTAAATA-ATTTA
1 TATTAAATATATTTA
428566 TTAATAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 6 0.19
23 22 0.71
24 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTAAATATATTTAAAATTAAA
Found at i:429301 original size:2 final size:2
Alignment explanation
Indices: 429294--429324 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
429284 ACATGTCTAC
429294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
429325 CCGGAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:429838 original size:2 final size:2
Alignment explanation
Indices: 429831--429863 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
429821 AGATCATCTT
429831 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
429864 TTTAAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:438469 original size:2 final size:2
Alignment explanation
Indices: 438462--438497 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
438452 TGTTTCCTTC
438462 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
438498 TATAAATTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:442519 original size:18 final size:18
Alignment explanation
Indices: 442496--442532 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
442486 CTTAAACAAT
*
442496 CAACAATTATGAATGGTA
1 CAACAATTATGAATAGTA
442514 CAACAATTATGAATAGTA
1 CAACAATTATGAATAGTA
442532 C
1 C
442533 TCCCTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (18 bp):
CAACAATTATGAATAGTA
Found at i:443030 original size:7 final size:6
Alignment explanation
Indices: 443008--443059 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
442998 CTCGATAATT
*
443008 ATTTAA ATTTAA ATTTAAA ATTTTA A-TTAA ATTT-- ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
443054 ATTTAA
1 ATTTAA
443060 CTTGATTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.10
5 4 0.10
6 26 0.65
7 6 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:443067 original size:22 final size:22
Alignment explanation
Indices: 443020--443067 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
443010 TTAAATTTAA
* *
443020 ATTTAAAATTTTAATTAAATTT
1 ATTTAAAATTTAAATTAAATTG
*
443042 ATTT-AAATTTAAATTTAACTTG
1 ATTTAAAATTTAAA-TTAAATTG
443064 ATTT
1 ATTT
443068 GATAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTTAAAATTTAAATTAAATTG
Found at i:443195 original size:21 final size:23
Alignment explanation
Indices: 443154--443197 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
443144 AAATGAGTCA
443154 AAATTAAAATGATTGAACTTAAT
1 AAATTAAAATGATTGAACTTAAT
*
443177 AAATT-AAAT-ATTTAACTTAAT
1 AAATTAAAATGATTGAACTTAAT
443198 TGACATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 4 0.20
23 5 0.25
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (23 bp):
AAATTAAAATGATTGAACTTAAT
Found at i:444176 original size:18 final size:18
Alignment explanation
Indices: 444153--444187 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
444143 TAAAATATAA
444153 TTTTAT-ATTAATATTTAT
1 TTTTATAATTAA-ATTTAT
444171 TTTTATAATTAAATTTA
1 TTTTATAATTAAATTTA
444188 AATAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATAATTAAATTTAT
Found at i:446127 original size:10 final size:10
Alignment explanation
Indices: 446105--446134 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
446095 TATAATATTA
446105 TATTATGTTTT
1 TATTAT-TTTT
446116 TATTATTTTT
1 TATTATTTTT
446126 TATTATTTT
1 TATTATTTT
446135 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (10 bp):
TATTATTTTT
Found at i:447454 original size:5 final size:5
Alignment explanation
Indices: 447444--447468 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
447434 CGTGTTTCAT
447444 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
447469 CTGAGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:455561 original size:19 final size:18
Alignment explanation
Indices: 455519--455610 Score: 112
Period size: 18 Copynumber: 5.1 Consensus size: 18
455509 AAATTATAGA
* * *
455519 TTTTAATAATCATAAATA
1 TTTTAAAAATTATAAATT
*
455537 TTTAAAAAATTATAAATT
1 TTTTAAAAATTATAAATT
455555 TTTTAAAAATTATTAAATT
1 TTTTAAAAATTA-TAAATT
* * *
455574 TTCTAAGAATAATAAATT
1 TTTTAAAAATTATAAATT
455592 TTTTAAAAATTATAAATT
1 TTTTAAAAATTATAAATT
455610 T
1 T
455611 CTGTAATCAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
18 47 0.76
19 15 0.24
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (18 bp):
TTTTAAAAATTATAAATT
Found at i:458437 original size:19 final size:19
Alignment explanation
Indices: 458397--458454 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
458387 GGATTACGGA
* *
458397 TTTTTTAAGAATCATTAAAT
1 TTTTTTAAAAATCA-TAGAT
458417 TTTTTTAAAAATCATAGAT
1 TTTTTTAAAAATCATAGAT
* *
458436 TTTCTAAAAAATCATAGAT
1 TTTTTTAAAAATCATAGAT
458455 ATATGTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTTTTAAAAATCATAGAT
Found at i:460970 original size:73 final size:74
Alignment explanation
Indices: 460845--460981 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 74
460835 ATTCTAATAA
* * *
460845 TAAAATTAAAATTAATAAAAAATTTATTTGAATTCAAAAGTATCATCAATTAATAATAATTAAAG
1 TAAAATTAAAATTAATAAAAAATTTATTTGAATTAAAAAGTATAATCAATTAAAAATAATTAAAG
460910 ATATTAAAT
66 ATATTAAAT
* * *
460919 TAAAATTAAAATT-A-AAAAAATTATATTT-ATATTAAATAATTATAAT-TATTAAAAATTATTA
1 TAAAATTAAAATTAATAAAAAATT-TATTTGA-ATTAAA-AAGTATAATCAATTAAAAATAATTA
460980 AA
63 AA
460982 ATTACACATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
72 9 0.17
73 25 0.46
74 20 0.37
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (74 bp):
TAAAATTAAAATTAATAAAAAATTTATTTGAATTAAAAAGTATAATCAATTAAAAATAATTAAAG
ATATTAAAT
Found at i:460974 original size:19 final size:19
Alignment explanation
Indices: 460929--460985 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
460919 TAAAATTAAA
*
460929 ATTAAAAA-AATTATATTT
1 ATTAAAAATAATTATAATT
*
460947 A-TATTAAATAATTATAATT
1 ATTA-AAAATAATTATAATT
* *
460966 ATTAAAAATTATTAAAATT
1 ATTAAAAATAATTATAATT
460985 A
1 A
460986 CACATATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.06
18 4 0.13
19 23 0.74
20 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAAAATAATTATAATT
Found at i:461794 original size:2 final size:2
Alignment explanation
Indices: 461789--461841 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
461779 TATATACTTT
* * *
461789 TA TA TA T- TA -A TA -A TA TA T- TA AA TA TA AA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
461827 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
461842 GAAAGTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:462261 original size:33 final size:32
Alignment explanation
Indices: 462190--462262 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
462180 TTTCAGTAAT
* * *
462190 TTTTAATTGTTATTTAATTTAATATACTTTAT
1 TTTTAATTGTTATATAATTTAATATAATTTAA
*
462222 TATTTAATATG-TATATATTTTAATATAAATTTAA
1 T-TTTAAT-TGTTATATAATTTAATAT-AATTTAA
462256 TTTTAAT
1 TTTTAAT
462263 CATTTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
32 1 0.03
33 25 0.74
34 8 0.24
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (32 bp):
TTTTAATTGTTATATAATTTAATATAATTTAA
Found at i:462470 original size:21 final size:21
Alignment explanation
Indices: 462446--462499 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
462436 TTTTATTGAT
*
462446 TTTAATTTTATCATTATAATA
1 TTTAATTTTATCATCATAATA
*
462467 TTTAATTTTATTATCATAATA
1 TTTAATTTTATCATCATAATA
* *
462488 ATTAATATTATC
1 TTTAATTTTATC
462500 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATTTTATCATCATAATA
Found at i:463297 original size:2 final size:2
Alignment explanation
Indices: 463290--463321 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
463280 TCCCTCATTG
463290 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
463322 ATTGACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:465525 original size:48 final size:46
Alignment explanation
Indices: 465475--465567 Score: 105
Period size: 49 Copynumber: 1.9 Consensus size: 46
465465 TAAAATATTA
*
465475 TTTATAAATTAATTTTAAATAAAAAATATATTTTTTATTAATTATTTATT
1 TTTATAAA-TAATTTTAAATAAAAAAT-TATTTTTAATT-ATTATTTA-T
* * * *
465525 TTTTTAAATATTTTTAATTATAAAATTATTTTTAATTATTATT
1 TTTATAAATAATTTTAAATAAAAAATTATTTTTAATTATTATT
465568 AAATTAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
47 6 0.16
48 10 0.26
49 15 0.39
50 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (46 bp):
TTTATAAATAATTTTAAATAAAAAATTATTTTTAATTATTATTTAT
Found at i:465557 original size:28 final size:27
Alignment explanation
Indices: 465525--465577 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
465515 ATTATTTATT
* *
465525 TTTTTAAATATTTTTAATTATAAAATTA
1 TTTTTAAATATTATTAAAT-TAAAATTA
*
465553 TTTTTAATTATTATTAAATTAAAAT
1 TTTTTAAATATTATTAAATTAAAAT
465578 ATAAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTAAATATTATTAAATTAAAATTA
Found at i:465618 original size:20 final size:22
Alignment explanation
Indices: 465579--465620 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
465569 AATTAAAATA
465579 TAAATTAAATTATATTTTTATT
1 TAAATTAAATTATATTTTTATT
*
465601 TAAA-TAAA-TATTTTTTTATT
1 TAAATTAAATTATATTTTTATT
465621 GTTTGAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAAATTAAATTATATTTTTATT
Found at i:466385 original size:24 final size:24
Alignment explanation
Indices: 466355--466403 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
466345 TTTTTAAATT
*
466355 TTAAGGGGATAAATATATCTTTTA
1 TTAAGGGAATAAATATATCTTTTA
*
466379 TTAAGGGAATAAGTATATCTTTTA
1 TTAAGGGAATAAATATATCTTTTA
466403 T
1 T
466404 AAAAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (24 bp):
TTAAGGGAATAAATATATCTTTTA
Found at i:467091 original size:30 final size:28
Alignment explanation
Indices: 467047--467106 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
467037 ATATTTAATA
467047 AATATATTATAATTT-TATTTAAAATTTT
1 AATATATTATAATTTATATTT-AAATTTT
*
467075 AATATATTTAATAATTTATATTTATATTTT
1 AATATA-TT-ATAATTTATATTTAAATTTT
467105 AA
1 AA
467107 AATTAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
29 2 0.07
30 15 0.54
31 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
AATATATTATAATTTATATTTAAATTTT
Found at i:467103 original size:37 final size:35
Alignment explanation
Indices: 467010--467110 Score: 91
Period size: 38 Copynumber: 2.7 Consensus size: 35
467000 AAAATAATAA
467010 AATAATTT-TATTTTTATTTAAAA--TAAAATATTT
1 AATAATTTATA-TTTTATTTAAAATTTAAAATATTT
*
467043 AATAAATATATTATAATTTTATTTAAAATTTTAATATATTT
1 AAT--A-AT-TTAT-ATTTTATTTAAAA-TTTAAAATATTT
467084 AATAATTTATATTTATATTTTAAAATT
1 AATAATTTATATTT-TA-TTTAAAATT
467111 AATTAAAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
33 3 0.05
35 1 0.02
36 6 0.11
37 10 0.18
38 22 0.39
39 2 0.04
41 12 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (35 bp):
AATAATTTATATTTTATTTAAAATTTAAAATATTT
Found at i:467110 original size:20 final size:17
Alignment explanation
Indices: 467062--467110 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 17
467052 ATTATAATTT
467062 TATTTAAAATTTTAATA
1 TATTTAAAATTTTAATA
*
467079 TATTTAATAATTTATATTTA
1 TATTTAA-AATTT-TA-ATA
467099 TATTTTAAAATT
1 TA-TTTAAAATT
467111 AATTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 2 0.07
20 8 0.30
21 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTAAAATTTTAATA
Found at i:467320 original size:21 final size:21
Alignment explanation
Indices: 467281--467321 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
467271 AAATAATTTA
*
467281 TATAAATTTAATTATAAAATT
1 TATAAATTTAATTAAAAAATT
467302 TATAAATATTAA-TAAAAAAT
1 TATAAAT-TTAATTAAAAAAT
467322 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAAATTTAATTAAAAAATT
Found at i:469648 original size:2 final size:2
Alignment explanation
Indices: 469641--469677 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
469631 TGGGTTATTT
469641 TA TA TA TA 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 TA TA TA TA T
469678 TTTGCTACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:469832 original size:14 final size:16
Alignment explanation
Indices: 469815--469846 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
469805 AAAAACTAAA
469815 ATATA-TTATAAA-AT
1 ATATATTTATAAAGAT
469829 ATATATTTATAAAGAT
1 ATATATTTATAAAGAT
469845 AT
1 AT
469847 TTATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
ATATATTTATAAAGAT
Found at i:470762 original size:21 final size:23
Alignment explanation
Indices: 470736--470784 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
470726 ATATATAATT
470736 TAAAAA-AATATATATTTTAACA
1 TAAAAATAATATATATTTTAACA
*
470758 TAAAAATAATATATGTTTTAACA
1 TAAAAATAATATATATTTTAACA
470781 TAAA
1 TAAA
470785 TTTAACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATATATTTTAACA
Found at i:476270 original size:34 final size:34
Alignment explanation
Indices: 476232--476298 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
476222 TTCATTAAGA
476232 TTAATTAATATATAATATTA-TTATTATATTAAAT
1 TTAATTAATA-ATAATATTATTTATTATATTAAAT
* * *
476266 TTAATTATTAATAATTTTATTTATTATTTTAAA
1 TTAATTAATAATAATATTATTTATTATATTAAA
476299 AATATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
TTAATTAATAATAATATTATTTATTATATTAAAT
Found at i:477140 original size:16 final size:16
Alignment explanation
Indices: 477119--477167 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
477109 ATGATGTAAC
477119 TTTTAAAATTTTAATT
1 TTTTAAAATTTTAATT
*
477135 TTTTAAAATTTAATATT
1 TTTTAAAATTTTA-ATT
477152 TTTAATAAAATTTTAA
1 TTT--TAAAATTTTAA
477168 AATATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 1 0.04
19 9 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAAAATTTTAATT
Found at i:479409 original size:33 final size:33
Alignment explanation
Indices: 479372--479436 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
479362 TTATATATTG
* *
479372 AATTTAATAATATTAAAAGTAAGTATTATTTTT
1 AATTTAATAATATTAAAAATAAATATTATTTTT
479405 AATTTAATAATATTAAAAATAAATATTATTTT
1 AATTTAATAATATTAAAAATAAATATTATTTT
479437 AAAATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (33 bp):
AATTTAATAATATTAAAAATAAATATTATTTTT
Found at i:479520 original size:17 final size:18
Alignment explanation
Indices: 479481--479523 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
479471 TACTTCAAAA
479481 ATTTTAAAAATAAATTTT
1 ATTTTAAAAATAAATTTT
*
479499 ATTTTAAAGAT-AATTATT
1 ATTTTAAAAATAAATT-TT
479517 -TTTTAAA
1 ATTTTAAA
479524 TTTTTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTTAAAAATAAATTTT
Found at i:481920 original size:3 final size:3
Alignment explanation
Indices: 481912--481944 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
481902 GGAAAGATAC
481912 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
481945 AGGATATGTC
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:483074 original size:22 final size:20
Alignment explanation
Indices: 483036--483077 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
483026 ATCTGGATTT
483036 AATTTAATTTTAATTTATTA
1 AATTTAATTTTAATTTATTA
*
483056 AATTTAAATATTTACTTTATTA
1 AATTT-AAT-TTTAATTTATTA
483078 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTAATTTTAATTTATTA
Found at i:483868 original size:27 final size:28
Alignment explanation
Indices: 483827--483907 Score: 128
Period size: 27 Copynumber: 2.9 Consensus size: 28
483817 TTATAATAAC
483827 AATAATTTTTAAAATAATTTTTTTAAAA
1 AATAATTTTTAAAATAATTTTTTTAAAA
* *
483855 AATAA-TTTTAAAATAATTTCTTAAAAA
1 AATAATTTTTAAAATAATTTTTTTAAAA
483882 AATAATTTTTAAAATATATTTTTTTA
1 AATAATTTTTAAAATA-ATTTTTTTA
483908 TGTATATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
27 25 0.53
28 15 0.32
29 7 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
AATAATTTTTAAAATAATTTTTTTAAAA
Found at i:483902 original size:13 final size:13
Alignment explanation
Indices: 483827--483904 Score: 70
Period size: 13 Copynumber: 5.8 Consensus size: 13
483817 TTATAATAAC
483827 AATA-ATTTTTAA
1 AATATATTTTTAA
*
483839 AATAATTTTTTTAA
1 AAT-ATATTTTTAA
* *
483853 AAAATAATTTTAA
1 AATATATTTTTAA
483866 AATA-ATTTCTTAAA
1 AATATATTT-TT-AA
*
483880 AAAATAATTTTTAA
1 AATAT-ATTTTTAA
483894 AATATATTTTT
1 AATATATTTTT
483905 TTATGTATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
12 6 0.12
13 20 0.38
14 20 0.38
15 2 0.04
16 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
AATATATTTTTAA
Found at i:484140 original size:21 final size:22
Alignment explanation
Indices: 484105--484145 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
484095 GTTAATGTAA
*
484105 GATAAAATTAATAAATAAATTT
1 GATAAAATAAATAAATAAATTT
484127 GATAAAA-AAATAAATAAAT
1 GATAAAATAAATAAATAAAT
484146 AATAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
GATAAAATAAATAAATAAATTT
Found at i:484693 original size:71 final size:70
Alignment explanation
Indices: 484535--484731 Score: 175
Period size: 71 Copynumber: 2.7 Consensus size: 70
484525 TTTGGATTTT
* * *
484535 ATAATCAAATTAAAAATTAAATCTTAAATTTTTATAAATAAAAATAAATTATACCATAAAAATTT
1 ATAATCAAA-TAAAAAAT-AAT-TTAAATTTTTAAAAATAAAAATAAATTATACCATAAAAATAT
* *
484600 AAATTCTT
63 AAATCCTC
* * * * * *
484608 ATGATATCTAAA-AAAACA-CATTTAAATTTTTACAAATCAAAATAAATTATATCTTAAAAATAT
1 AT-A-ATC-AAATAAAAAATAATTTAAATTTTTAAAAATAAAAATAAATTATACCATAAAAATAT
484671 AAA-CCTGC
63 AAATCCT-C
** *
484679 ATAATCAAATAAAAAATAATTTTAAGCTTTTAAAAATAAAAATAAATAATACC
1 ATAATCAAATAAAAAATAA-TTTAAATTTTTAAAAATAAAAATAAATTATACC
484732 TTTAATCAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
68 3 0.03
69 8 0.08
70 4 0.04
71 69 0.70
72 2 0.02
73 2 0.02
74 5 0.05
75 3 0.03
76 3 0.03
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (70 bp):
ATAATCAAATAAAAAATAATTTAAATTTTTAAAAATAAAAATAAATTATACCATAAAAATATAAA
TCCTC
Found at i:484863 original size:18 final size:19
Alignment explanation
Indices: 484841--484885 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
484831 CAAAAAATAC
*
484841 TTTAATAATTAAAAATAAA
1 TTTAATAATTAAAAAAAAA
* *
484860 TTAAAT-TTTAAAAAAAAA
1 TTTAATAATTAAAAAAAAA
484878 TTTAATAA
1 TTTAATAA
484886 AACTATTTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAATAATTAAAAAAAAA
Found at i:485142 original size:21 final size:21
Alignment explanation
Indices: 485113--485178 Score: 51
Period size: 22 Copynumber: 2.9 Consensus size: 21
485103 ATATAATTAT
*
485113 TAATATTTTAATTTATTAATA
1 TAATTTTTTAATTTATTAATA
485134 TAATTTTTTTAAAATTTAATTAAATA
1 TAA-TTTTTT--AATTT-ATT-AATA
* * *
485160 TTATTTCTTATTTTATTAA
1 TAATTTTTTAATTTATTAA
485179 AAAAATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 5 0.14
22 8 0.22
23 4 0.11
24 5 0.14
25 8 0.22
26 6 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTTTTTAATTTATTAATA
Found at i:485366 original size:28 final size:27
Alignment explanation
Indices: 485335--485391 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
485325 ATTTCTCAAC
485335 ATATATGTA-AAAATATATATTTTAAGAA
1 ATATATGTATAAAA-ATATATTTTAA-AA
* * *
485363 ATATTTTTATAAAAATTTATTTTAAAA
1 ATATATGTATAAAAATATATTTTAAAA
485390 AT
1 AT
485392 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 17 0.68
29 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
ATATATGTATAAAAATATATTTTAAAA
Found at i:485392 original size:13 final size:14
Alignment explanation
Indices: 485342--485391 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
485332 AACATATATG
485342 TAAAAATATATATTT
1 TAAAAATAT-TATTT
485357 TAAGAAATATT-TTT
1 TAA-AAATATTATTT
485371 ATAAAAAT-TTATTT
1 -TAAAAATATTATTT
485385 TAAAAAT
1 TAAAAAT
485392 TAAAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.28
14 10 0.31
15 7 0.22
16 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TAAAAATATTATTT
Found at i:487123 original size:2 final size:2
Alignment explanation
Indices: 487116--487150 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
487106 AAAATTTTGG
487116 AT AT AT AT -T 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 AT
487151 TGCAAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:488535 original size:25 final size:26
Alignment explanation
Indices: 488493--488555 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
488483 AATTAATTGA
* * *
488493 TAATACATAAATTTATATAAATT-AT
1 TAATAAATAAAATAATATAAATTCAT
* *
488518 TAATAAATAAAATAATATTATTTCAT
1 TAATAAATAAAATAATATAAATTCAT
488544 TAA-AAATAAAAT
1 TAATAAATAAAAT
488556 TATCTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (26 bp):
TAATAAATAAAATAATATAAATTCAT
Found at i:488618 original size:26 final size:27
Alignment explanation
Indices: 488570--488623 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
488560 TATTATTTAA
* *
488570 AATTTTTTAATAATTTAATATT-ATAT
1 AATTTATTAATAATATAATATTAATAT
488596 AATTTATTAATAATAT-ATAATTAATAT
1 AATTTATTAATAATATAAT-ATTAATAT
488623 A
1 A
488624 TTAAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 17 0.71
27 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTATTAATAATATAATATTAATAT
Found at i:488631 original size:18 final size:18
Alignment explanation
Indices: 488584--488633 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
488574 TTTTAATAAT
* *
488584 TTAATATTATATAATTTA
1 TTAATAATATATAATTAA
488602 TTAATAATATATAATTAA
1 TTAATAATATATAATTAA
*
488620 TATATTAA-ATATAA
1 T-TAATAATATATAA
488634 CTCTTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAATAATATATAATTAA
Done.