Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 123 of 131
Found at i:22240077 original size:6 final size:7
Alignment explanation
Indices: 22240050--22240079 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
22240040 GATTCGATTC
22240050 AATTTATT
1 AATTT-TT
22240058 AATTTTT
1 AATTTTT
22240065 AATTTTT
1 AATTTTT
22240072 AATTTTT
1 AATTTTT
22240079 A
1 A
22240080 TATATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:22240089 original size:13 final size:13
Alignment explanation
Indices: 22240073--22240111 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
22240063 TTAATTTTTA
*
22240073 ATTTTTATATATT
1 ATTTTAATATATT
**
22240086 ATTTTAATATAAA
1 ATTTTAATATATT
22240099 ATTTTAATATATT
1 ATTTTAATATATT
22240112 TAAATAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:22240102 original size:33 final size:32
Alignment explanation
Indices: 22240065--22240145 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
22240055 ATTAATTTTT
*
22240065 AATTTTTAATTTTTATATATTATTTTAATATAA
1 AATTTTTAATTTTTATATA-AATTTTAATATAA
* *
22240098 AA-TTTTAATATATTTAAATAAATTTTGATATAA
1 AATTTTTAAT-T-TTTATATAAATTTTAATATAA
*
22240131 AATTATT-ATTTTTAT
1 AATTTTTAATTTTTAT
22240146 TTTATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
31 4 0.10
32 8 0.20
33 18 0.45
34 10 0.25
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (32 bp):
AATTTTTAATTTTTATATAAATTTTAATATAA
Found at i:22240172 original size:19 final size:19
Alignment explanation
Indices: 22240148--22240190 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22240138 ATTTTTATTT
* * *
22240148 TATAAAAATTTAAAATATA
1 TATAAAAACTAAAAAAATA
22240167 TATAAAAACTAAAAAAATA
1 TATAAAAACTAAAAAAATA
22240186 TATAA
1 TATAA
22240191 TTCGGTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAACTAAAAAAATA
Found at i:22241008 original size:12 final size:12
Alignment explanation
Indices: 22240986--22241015 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
22240976 TATAATATAA
22240986 TTATCATATTATT
1 TTAT-ATATTATT
22240999 TTATATATTATT
1 TTATATATTATT
22241011 TTATA
1 TTATA
22241016 CACCAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATATATTATT
Found at i:22241263 original size:22 final size:22
Alignment explanation
Indices: 22241222--22241264 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22241212 ATTTATTTAA
* *
22241222 TTATATATATATTTATATAATT
1 TTATATATATATTAAAATAATT
*
22241244 TTATATTTATATTAAAATAAT
1 TTATATATATATTAAAATAAT
22241265 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATATATATTAAAATAATT
Found at i:22241277 original size:15 final size:15
Alignment explanation
Indices: 22241257--22241291 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
22241247 TATTTATATT
22241257 AAAATAATATTTTAA
1 AAAATAATATTTTAA
22241272 AAAATAATATTTTAA
1 AAAATAATATTTTAA
*
22241287 TAAAT
1 AAAAT
22241292 TTGAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATAATATTTTAA
Found at i:22242666 original size:20 final size:22
Alignment explanation
Indices: 22242618--22242666 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
22242608 AAATTTCGAA
22242618 TTATAATTTATATTAATATAAT
1 TTATAATTTATATTAATATAAT
*
22242640 TT-T-ATTTATATTAA-AT-TT
1 TTATAATTTATATTAATATAAT
22242658 TTATAATTT
1 TTATAATTT
22242667 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 15 0.62
21 1 0.04
22 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATAATTTATATTAATATAAT
Found at i:22245077 original size:15 final size:15
Alignment explanation
Indices: 22245059--22245088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22245049 TCTTTCTTTC
22245059 CTATCAAATACGGTG
1 CTATCAAATACGGTG
*
22245074 CTATCAAATTCGGTG
1 CTATCAAATACGGTG
22245089 TTAGTGTTTT
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:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (15 bp):
CTATCAAATACGGTG
Found at i:22247824 original size:22 final size:22
Alignment explanation
Indices: 22247811--22247854 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22247801 TATGTATTTA
22247811 TATTTGTATATCTAGAATTAAG
1 TATTTGTATATCTAGAATTAAG
*
22247833 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATATCTAGAATTAAG
22247855 GACAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATATCTAGAATTAAG
Found at i:22248141 original size:25 final size:25
Alignment explanation
Indices: 22248113--22248175 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
22248103 TGACTTCTAT
*
22248113 TTTAGGCTTTCATTGTCGAA-CCTTG
1 TTTAGGCCTTCATTGTCGAATCC-TG
*
22248138 TTTAGACCTTCATTGTCGAATCCTG
1 TTTAGGCCTTCATTGTCGAATCCTG
*
22248163 TTAAGGCCTTCAT
1 TTTAGGCCTTCAT
22248176 AGCCATTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (25 bp):
TTTAGGCCTTCATTGTCGAATCCTG
Found at i:22250369 original size:25 final size:25
Alignment explanation
Indices: 22250335--22250421 Score: 140
Period size: 25 Copynumber: 3.5 Consensus size: 25
22250325 ATATCCAGTA
*
22250335 AGAAATGGAGACAAGCCATGAAAAT
1 AGAAATGGAGGCAAGCCATGAAAAT
22250360 AGAAATGGAGGCAAGCCATGAAAAT
1 AGAAATGGAGGCAAGCCATGAAAAT
*
22250385 AGAAATGGAGGCAA-CTCATAAAAAT
1 AGAAATGGAGGCAAGC-CATGAAAAT
22250410 AGAAATGGAGGC
1 AGAAATGGAGGC
22250422 CTTAGAGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 1 0.02
25 58 0.98
ACGTcount: A:0.49, C:0.11, G:0.26, T:0.13
Consensus pattern (25 bp):
AGAAATGGAGGCAAGCCATGAAAAT
Found at i:22251974 original size:22 final size:22
Alignment explanation
Indices: 22251949--22251992 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22251939 TATGTATTTA
*
22251949 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
22251971 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
22251993 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:22252574 original size:22 final size:22
Alignment explanation
Indices: 22252547--22252590 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22252537 CTATGTATTT
*
22252547 ATATTTGTATCTATAGAATTAA
1 ATATTTGTATCCATAGAATTAA
*
22252569 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCATAGAATTAA
22252591 TGACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (22 bp):
ATATTTGTATCCATAGAATTAA
Found at i:22252943 original size:599 final size:598
Alignment explanation
Indices: 22251806--22253002 Score: 1939
Period size: 599 Copynumber: 2.0 Consensus size: 598
22251796 CTTGCATATA
*
22251806 TGTTGACTAAAGGTCTCAGTAGTGTAACATTTCAAGAAATTATTTTCAAAATGAGAATGAAAAAC
1 TGTTGACTAAAGGTCTCAGTAGTGCAACATTTCAAGAAATTATTTTCAAAATGAGAATGAAAAAC
*
22251871 ACCTATTCACCAGCTTGAGGGATAGTGTAAGAAAATATTTATTTACAGCTGGTTGTAATATTGTA
66 ACCTATTCACCAGCTTGAGGGA-AGTGTAAGAAAACATTTATTTACAGCTGGTTGTAATATTGTA
* *
22251936 ATCTATGTATTTATATTTGTATCTCTAGAATTAAGTATTTGTATCCCTAGAATTAAGGACAAAAA
130 ATCTATGTATTTATATTTGTATCTATAGAATTAAATATTTGTATCCCTAGAATTAAGGACAAAAA
* * *
22252001 ATTAGGATAGACAATCCCTCAATTATAAGATCAGTTTTTAAGAAGATTTAGTTTCCTAGTTTAAC
195 ATTAGGATAAACAATCCCTCAATTATAAGAACAATTTTTAAGAAGATTTAGTTTCCTAGTTTAAC
* * * * *
22252066 CCTTATTTAGTTGTATATAAACCTAAGGTGCTTGTATAATTCTTAATGAGCAGTTTTTCAATATA
260 CCCTATTTAGTTGTATATAAACCTAAGATGCTTATATAATTCTTAATGAACAATTTTTCAATATA
* * * *
22252131 CATTTAATTTTTCCTCTTACATTTTCACACAAATTTATTTCTTAGTTTTTTCACAATAATTTTTA
325 CATTCAATTTTTCCTCTTACATTTTCACACAAATTTATTTCTTAATTTTTTCACAACAATTCTTA
* * *
22252196 AAGCTCAAGGTTATGCATGGTTGTCTAAGCAGAAGTATTCTTTCTTTAATGGTTTCTATATTTGC
390 AAGCTCAAGGTTATGCATGGCTGTCTAAGCAGAAGTATTCTTTCTTTAACGGTTTCTAGATTTGC
22252261 TAGTGTTGTCAAGAAGTTGTGAAGCAATTTTTTCGATTAGTAACTGTTTCACCATCAATGATTTT
455 TAGTGTTGTCAAGAAGTTGTGAAGCAATTTTTTCGATTAGTAACTGTTTCACCATCAATGATTTT
*
22252326 CTTTCTTATCTACCTAATCTTGCATTATTTTAGCATATTTTATTCTTTGTTACTTCGTTTTGTCT
520 CTTTCTTATCTACCTAATCTTGCATTATTTTAGCATATTTTATTCTTTGTTACTTCGTCTTGTCT
22252391 CTTATTATTCTAAG
585 CTTATTATTCTAAG
**
22252405 TGTTGACTAAAGGTCTCAGT-GATGCAACATTTCAAGAAATTATTTTCAAGCTGAGAATGAAAAA
1 TGTTGACTAAAGGTCTCAGTAG-TGCAACATTTCAAGAAATTATTTTCAAAATGAGAATGAAAAA
* * * * * *
22252469 TATCTATTCACCAGCTTAAGAGGG-AGTGTGAGAAAACATTTATTTATAGTTGGTTGTAATCTTG
65 CACCTATTCACCAGCTT--GAGGGAAGTGTAAGAAAACATTTATTTACAGCTGGTTGTAATATTG
*
22252533 TAATCTATGTATTTATATTTGTATCTATAGAATTAAATATTTGTATCCCTAGAATTAATGACAAA
128 TAATCTATGTATTTATATTTGTATCTATAGAATTAAATATTTGTATCCCTAGAATTAAGGACAAA
* *
22252598 AAATTAGGATAAACAATCCCTCAATTATAAGAACAATTTTTAATAAGATTTAGTTTCTTAGTTTA
193 AAATTAGGATAAACAATCCCTCAATTATAAGAACAATTTTTAAGAAGATTTAGTTTCCTAGTTTA
* * * * *
22252663 TCCCCTATTTAGTTGTATATAAACCTAAGATTCTTATATAATTCTTGATGAATAATTTTTTAATA
258 ACCCCTATTTAGTTGTATATAAACCTAAGATGCTTATATAATTCTTAATGAACAATTTTTCAATA
** *
22252728 TACATTCAATTTTTCCTCTTACATTTTCGTACAAATTTATTTCTTAATTTTTTTACAACAATTCT
323 TACATTCAATTTTTCCTCTTACATTTTCACACAAATTTATTTCTTAATTTTTTCACAACAATTCT
* *
22252793 TAAGGCTCAAGGTTATGCATGGCTGTCTAAGCATAAGTATTCTTTCTTTAACGGTTTCTAGATTT
388 TAAAGCTCAAGGTTATGCATGGCTGTCTAAGCAGAAGTATTCTTTCTTTAACGGTTTCTAGATTT
* * *
22252858 GCTAGTGTTGTCAAGAAGTTGTGAAGCAGTTTTTTCGGTTAGTAATTGTTTCACCATCAATGATT
453 GCTAGTGTTGTCAAGAAGTTGTGAAGCAATTTTTTCGATTAGTAACTGTTTCACCATCAATGATT
*
22252923 TTCTTTCTTATCTGCCTAATCTTGCATTATTTTAGCATATTTTATTCTTTGTTACTTCGTCTTGT
518 TTCTTTCTTATCTACCTAATCTTGCATTATTTTAGCATATTTTATTCTTTGTTACTTCGTCTTGT
22252988 CTCTTATTATTCTAA
583 CTCTTATTATTCTAA
22253003 TGATGACAAT
Statistics
Matches: 550, Mismatches: 45, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
598 1 0.00
599 544 0.99
601 5 0.01
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (598 bp):
TGTTGACTAAAGGTCTCAGTAGTGCAACATTTCAAGAAATTATTTTCAAAATGAGAATGAAAAAC
ACCTATTCACCAGCTTGAGGGAAGTGTAAGAAAACATTTATTTACAGCTGGTTGTAATATTGTAA
TCTATGTATTTATATTTGTATCTATAGAATTAAATATTTGTATCCCTAGAATTAAGGACAAAAAA
TTAGGATAAACAATCCCTCAATTATAAGAACAATTTTTAAGAAGATTTAGTTTCCTAGTTTAACC
CCTATTTAGTTGTATATAAACCTAAGATGCTTATATAATTCTTAATGAACAATTTTTCAATATAC
ATTCAATTTTTCCTCTTACATTTTCACACAAATTTATTTCTTAATTTTTTCACAACAATTCTTAA
AGCTCAAGGTTATGCATGGCTGTCTAAGCAGAAGTATTCTTTCTTTAACGGTTTCTAGATTTGCT
AGTGTTGTCAAGAAGTTGTGAAGCAATTTTTTCGATTAGTAACTGTTTCACCATCAATGATTTTC
TTTCTTATCTACCTAATCTTGCATTATTTTAGCATATTTTATTCTTTGTTACTTCGTCTTGTCTC
TTATTATTCTAAG
Found at i:22260969 original size:51 final size:50
Alignment explanation
Indices: 22260893--22261016 Score: 167
Period size: 51 Copynumber: 2.5 Consensus size: 50
22260883 ACCAAGAGCC
* * * *
22260893 TTTTTCAGATAAGAATTTTTAAAGTTATTAAGCCTTTATCTAGAGAAGTCT
1 TTTTTAAGATGAGAATTTTTAAAGTTATTAAGCCTTTACCAAGAGAAGT-T
* *
22260944 TTTTTAAGATGAGAATTTTTTAAGTTATTGAGCCTTTACCAAGAGAAGTT
1 TTTTTAAGATGAGAATTTTTAAAGTTATTAAGCCTTTACCAAGAGAAGTT
* *
22260994 TTTTTTATATGAGAATTTTTAAA
1 TTTTTAAGATGAGAATTTTTAAA
22261017 ATTGTTGAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 21 0.33
51 43 0.67
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (50 bp):
TTTTTAAGATGAGAATTTTTAAAGTTATTAAGCCTTTACCAAGAGAAGTT
Found at i:22261047 original size:50 final size:50
Alignment explanation
Indices: 22260893--22261049 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 50
22260883 ACCAAGAGCC
* * * * * * *
22260893 TTTTTCAGATAAGAATTTTTAAAGTTATT-AAGCCTTTATCTAGAGAAGTCT
1 TTTTTTAGATGAGAATTTTTAAAATTATTGAA-CATTTACCAAAAGAAG-CT
* * * * * * *
22260944 TTTTTAAGATGAGAATTTTTTAAGTTATTGAGCCTTTACCAAGAGAAGTT
1 TTTTTTAGATGAGAATTTTTAAAATTATTGAACATTTACCAAAAGAAGCT
* * * *
22260994 TTTTTTATATGAGAATTTTTAAAATTGTTGAACATTTATCAAAAGGAGCT
1 TTTTTTAGATGAGAATTTTTAAAATTATTGAACATTTACCAAAAGAAGCT
22261044 TTTTTT
1 TTTTTT
22261050 CAAATTTTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
50 46 0.53
51 40 0.46
52 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (50 bp):
TTTTTTAGATGAGAATTTTTAAAATTATTGAACATTTACCAAAAGAAGCT
Found at i:22266306 original size:10 final size:11
Alignment explanation
Indices: 22266293--22266322 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22266283 AAAAATTAGG
22266293 AAAAA-AAATC
1 AAAAACAAATC
22266303 AAAAACAAATC
1 AAAAACAAATC
22266314 AAAAACAAA
1 AAAAACAAA
22266323 AGGAAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAACAAATC
Found at i:22276525 original size:21 final size:22
Alignment explanation
Indices: 22276486--22276526 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22276476 ACATAAAAAA
**
22276486 ATTTAAAAAATTATTTTAATTT
1 ATTTAAAAAATTAAATTAATTT
22276508 ATTTAAAAAA-TAAATTAAT
1 ATTTAAAAAATTAAATTAAT
22276527 AATCATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTAAAAAATTAAATTAATTT
Found at i:22276662 original size:19 final size:19
Alignment explanation
Indices: 22276640--22276676 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22276630 AATGAATTAG
22276640 TTGTATATAATCGTGTTAT
1 TTGTATATAATCGTGTTAT
22276659 TTGTATATAATCGTGTTA
1 TTGTATATAATCGTGTTA
22276677 ATTATGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (19 bp):
TTGTATATAATCGTGTTAT
Found at i:22280951 original size:2 final size:2
Alignment explanation
Indices: 22280944--22280971 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22280934 TACCTCAAAA
22280944 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
22280972 CCCAACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22282146 original size:17 final size:17
Alignment explanation
Indices: 22282098--22282138 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
22282088 ATTTTGATTT
*
22282098 TTTTAAATTAT-AATTA
1 TTTTATATTATAAATTA
22282114 TTTTATATTATAAATT-
1 TTTTATATTATAAATTA
22282130 TTTTATATT
1 TTTTATATT
22282139 TTTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATATTATAAATTA
Found at i:22283575 original size:18 final size:17
Alignment explanation
Indices: 22283542--22283583 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
22283532 ATACATATAA
*
22283542 ATATATTTTTATTATTT
1 ATATAATTTTATTATTT
*
22283559 ATTTAATTTTATATATTT
1 ATATAATTTTAT-TATTT
22283577 ATATAAT
1 ATATAAT
22283584 AAAATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATAATTTTATTATTT
Found at i:22283703 original size:25 final size:24
Alignment explanation
Indices: 22283668--22283715 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
22283658 ATGATCTATC
* *
22283668 TTTTCTTTTTTTTTCTTTGTTTATA
1 TTTTCTCTTTTTTTATTT-TTTATA
22283693 TTTTCTCTTTTTTTATTTTTTAT
1 TTTTCTCTTTTTTTATTTTTTAT
22283716 TAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTCTCTTTTTTTATTTTTTATA
Found at i:22284714 original size:14 final size:15
Alignment explanation
Indices: 22284666--22284714 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
22284656 TTTTGTTTTT
22284666 ATTATAATTATTTTAA
1 ATTAT-ATTATTTTAA
*
22284682 A-TATATTA-TTTAT
1 ATTATATTATTTTAA
22284695 ATT-TATTTATTTTAA
1 ATTATA-TTATTTTAA
22284710 ATTAT
1 ATTAT
22284715 CGAATATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 10 0.37
16 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATATTATTTTAA
Found at i:22285488 original size:12 final size:12
Alignment explanation
Indices: 22285461--22285523 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 12
22285451 TTTTAATCAT
22285461 ATTTTATATATATA
1 ATTTTATAT-T-TA
22285475 ATTATT-TATTTA
1 ATT-TTATATTTA
22285487 ATTTTATATTTA
1 ATTTTATATTTA
22285499 TATATTT-TA-TTA
1 -AT-TTTATATTTA
22285511 GATTTTATATTTA
1 -ATTTTATATTTA
22285524 TATTAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 5 0.12
12 18 0.43
13 8 0.19
14 9 0.21
15 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:22285515 original size:25 final size:27
Alignment explanation
Indices: 22285461--22285526 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
22285451 TTTTAATCAT
*
22285461 ATTTTATATATATA-ATTATTTATTTA
1 ATTTTATATTTATATATTATTTATTTA
22285487 ATTTTATATTTATATA-T-TTTA-TTA
1 ATTTTATATTTATATATTATTTATTTA
22285511 GATTTTATATTTATAT
1 -ATTTTATATTTATAT
22285527 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 3 0.08
25 19 0.51
26 14 0.38
27 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
ATTTTATATTTATATATTATTTATTTA
Found at i:22285527 original size:18 final size:18
Alignment explanation
Indices: 22285494--22285528 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22285484 TTAATTTTAT
22285494 ATTTATATATTTTATTAG
1 ATTTATATATTTTATTAG
22285512 ATTT-TATATTTATATTA
1 ATTTATATATTT-TATTA
22285529 AAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTATATATTTTATTAG
Found at i:22285777 original size:12 final size:12
Alignment explanation
Indices: 22285750--22285812 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 12
22285740 TTTTAATCAT
22285750 ATTTTATATATATA
1 ATTTTATAT-T-TA
22285764 ATTATT-TATTTA
1 ATT-TTATATTTA
22285776 ATTTTATATTTA
1 ATTTTATATTTA
22285788 TATATTT-TA-TTA
1 -AT-TTTATATTTA
22285800 GATTTTATATTTA
1 -ATTTTATATTTA
22285813 TATTAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 5 0.12
12 18 0.43
13 8 0.19
14 9 0.21
15 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:22285804 original size:25 final size:27
Alignment explanation
Indices: 22285750--22285815 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
22285740 TTTTAATCAT
*
22285750 ATTTTATATATATA-ATTATTTATTTA
1 ATTTTATATTTATATATTATTTATTTA
22285776 ATTTTATATTTATATA-T-TTTA-TTA
1 ATTTTATATTTATATATTATTTATTTA
22285800 GATTTTATATTTATAT
1 -ATTTTATATTTATAT
22285816 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 3 0.08
25 19 0.51
26 14 0.38
27 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
ATTTTATATTTATATATTATTTATTTA
Found at i:22285816 original size:18 final size:18
Alignment explanation
Indices: 22285783--22285817 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22285773 TTAATTTTAT
22285783 ATTTATATATTTTATTAG
1 ATTTATATATTTTATTAG
22285801 ATTT-TATATTTATATTA
1 ATTTATATATTT-TATTA
22285818 AAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTATATATTTTATTAG
Found at i:22285951 original size:289 final size:289
Alignment explanation
Indices: 22285423--22286013 Score: 1155
Period size: 289 Copynumber: 2.0 Consensus size: 289
22285413 TGTAAAATAA
22285423 AATAGAGATTAAATTTTAAGTAAATTTGTTTTAATCATATTTTATATATATAATTATTTATTTAA
1 AATAG-GA-TAAATTTTAAGTAAATTTGTTTTAATCATATTTTATATATATAATTATTTATTTAA
22285488 TTTTATATTTATATATTTTATTAGATTTTATATTTATATTAAAAAATAATATTTTATTAATTTCG
64 TTTTATATTTATATATTTTATTAGATTTTATATTTATATTAAAAAATAATATTTTATTAATTTCG
22285553 AGTAAAATCATATGTAATTTTATATAATATCAAATTGAGTATTATGAATATAAAATTAAATCAAA
129 AGTAAAATCATATGTAATTTTATATAATATCAAATTGAGTATTATGAATATAAAATTAAATCAAA
*
22285618 TTCGAAGACAAACAAAAATTTATTTCGTCTCTATCCGTTGTCATCTCTACATATATAATCTTAAA
194 TTCGAAGACAAACAAAAATCTATTTCGTCTCTATCCGTTGTCATCTCTACATATATAATCTTAAA
22285683 TTTTTGAGATATGTTTAGTGTAAAATATTAT
259 TTTTTGAGATATGTTTAGTGTAAAATATTAT
22285714 AATAGGATAAATTTTAAGTAAATTTGTTTTAATCATATTTTATATATATAATTATTTATTTAATT
1 AATAGGATAAATTTTAAGTAAATTTGTTTTAATCATATTTTATATATATAATTATTTATTTAATT
22285779 TTATATTTATATATTTTATTAGATTTTATATTTATATTAAAAAATAATATTTTATTAATTTCGAG
66 TTATATTTATATATTTTATTAGATTTTATATTTATATTAAAAAATAATATTTTATTAATTTCGAG
22285844 TAAAATCATATGTAATTTTATATAATATCAAATTGAGTATTATGAATATAAAATTAAATCAAATT
131 TAAAATCATATGTAATTTTATATAATATCAAATTGAGTATTATGAATATAAAATTAAATCAAATT
22285909 CGAAGACAAACAAAAATCTATTTCGTCTCTATCCGTTGTCATCTCTACATATATAATCTTAAATT
196 CGAAGACAAACAAAAATCTATTTCGTCTCTATCCGTTGTCATCTCTACATATATAATCTTAAATT
22285974 TTTGAGATATGTTTAGTGTAAAATATTAT
261 TTTGAGATATGTTTAGTGTAAAATATTAT
22286003 AATAGGATAAA
1 AATAGGATAAA
22286014 ATAAAATAAT
Statistics
Matches: 299, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
289 292 0.98
290 2 0.01
291 5 0.02
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (289 bp):
AATAGGATAAATTTTAAGTAAATTTGTTTTAATCATATTTTATATATATAATTATTTATTTAATT
TTATATTTATATATTTTATTAGATTTTATATTTATATTAAAAAATAATATTTTATTAATTTCGAG
TAAAATCATATGTAATTTTATATAATATCAAATTGAGTATTATGAATATAAAATTAAATCAAATT
CGAAGACAAACAAAAATCTATTTCGTCTCTATCCGTTGTCATCTCTACATATATAATCTTAAATT
TTTGAGATATGTTTAGTGTAAAATATTAT
Found at i:22286047 original size:27 final size:26
Alignment explanation
Indices: 22285995--22286055 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
22285985 TTTAGTGTAA
*
22285995 AATATTATAATAGGATAAAATAAAAT
1 AATATTATAATAGAATAAAATAAAAT
* * *
22286021 AATATTATGAATAGAATTATATTAAAT
1 AATATTAT-AATAGAATAAAATAAAAT
22286048 AATATTAT
1 AATATTAT
22286056 TTTATTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (26 bp):
AATATTATAATAGAATAAAATAAAAT
Found at i:22286593 original size:21 final size:19
Alignment explanation
Indices: 22286568--22286611 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
22286558 CATATATATT
22286568 TTTAATTAAATTTAAAAAAAA
1 TTTAA-TAAATTT-AAAAAAA
* *
22286589 TTTAATATATTTTAAAAAA
1 TTTAATAAATTTAAAAAAA
22286608 TTTA
1 TTTA
22286612 TGTGTCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 6 0.29
21 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAATAAATTTAAAAAAA
Found at i:22288517 original size:15 final size:13
Alignment explanation
Indices: 22288492--22288534 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
22288482 ATATTTGCCA
22288492 TGAAATATTTTCT
1 TGAAATATTTTCT
*
22288505 TAGAAAGTATTTTGGT
1 T-GAAA-TATTTT-CT
22288521 TGAAATATTTTCT
1 TGAAATATTTTCT
22288534 T
1 T
22288535 TGCCACTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 10 0.40
15 10 0.40
16 2 0.08
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (13 bp):
TGAAATATTTTCT
Found at i:22288687 original size:22 final size:22
Alignment explanation
Indices: 22288662--22288705 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22288652 ATTTTCTGTC
*
22288662 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22288684 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22288706 TAAATATGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22292730 original size:22 final size:22
Alignment explanation
Indices: 22292705--22292747 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22292695 ATTTTTTGTC
*
22292705 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22292727 CTTAATTCTAGAGATACAAAT
1 CTTAATTCTAGAGATACAAAT
22292748 GTAAATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22297828 original size:110 final size:108
Alignment explanation
Indices: 22297627--22297845 Score: 316
Period size: 110 Copynumber: 2.0 Consensus size: 108
22297617 AATTTACATT
* * *
22297627 CCTCGTCCTCACCCTTTCCCAAAAGAAAAAAATCGGGATATACTGTTTTCTGTAAATTAATGTGC
1 CCTCGTCCTCACCCTTCCCCAAAAGAAAAAAATCGGGAGATAC-GTTTTCTGTAAAGTAATGTGC
*
22297692 ATTCCCTTATGTTTCCATTATTTTATGCAAC-TTTTTTGGATGA
65 ATTCCCTTATGTTTCCATTATCTTATGCAACTTTTTTTGGATGA
* *
22297735 CCTCTTCCTCACCCTTCCCCAAAAGAAAAAAAAAATGGGGAGATA-GTATTTCTGTAAAGTAATG
1 CCTCGTCCTCACCCTTCCCCAAAAG---AAAAAAATCGGGAGATACGT-TTTCTGTAAAGTAATG
*
22297799 TGCATTCCCTTATGTTTCCGTTATCTTATGCAACTTTTTTTGGATGA
62 TGCATTCCCTTATGTTTCCATTATCTTATGCAACTTTTTTTGGATGA
22297846 TACTGCATGT
Statistics
Matches: 99, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
108 23 0.23
109 2 0.02
110 47 0.47
111 27 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (108 bp):
CCTCGTCCTCACCCTTCCCCAAAAGAAAAAAATCGGGAGATACGTTTTCTGTAAAGTAATGTGCA
TTCCCTTATGTTTCCATTATCTTATGCAACTTTTTTTGGATGA
Found at i:22301447 original size:2 final size:2
Alignment explanation
Indices: 22301440--22301467 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22301430 TAGGACGTTA
22301440 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
22301468 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22311832 original size:121 final size:120
Alignment explanation
Indices: 22311610--22311844 Score: 339
Period size: 121 Copynumber: 1.9 Consensus size: 120
22311600 AACACGAAGG
* * ** *
22311610 GCTTCATTCCTAATAAAAAAAAAAACCAAAATACCAATGTCATAAGGGCCATAACATGGTACAAT
1 GCTTCATTCCTAATAAAAAAAAAAACAAAAAAACCAATGTCATAAAAGCCATAACATGGCACAAT
* *
22311675 TAATCAAGGATCATGAGTACATTAAACATGTTAATATCCAGGCAGACAGAAAAAT
66 TAATCAAGGATCATGAGTACATTAAACATGTCAATATCCAGGCAAACAGAAAAAT
22311730 GCTTCATTCCTAATTAATAAAAAAAAA-AAAAAAACCAATGTCATAAAAGCCATAACATGGCACA
1 GCTTCATTCCTAA-TAA-AAAAAAAAACAAAAAAACCAATGTCATAAAAGCCATAACATGGCACA
* * *
22311794 ATTAATCAAGGATCGTGAGTACATTATACAAT-TCAATATCCATGCAAACAG
64 ATTAATCAAGGATCATGAGTACATTAAAC-ATGTCAATATCCAGGCAAACAG
22311845 GAGCAAAGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
120 13 0.13
121 78 0.76
122 11 0.11
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (120 bp):
GCTTCATTCCTAATAAAAAAAAAAACAAAAAAACCAATGTCATAAAAGCCATAACATGGCACAAT
TAATCAAGGATCATGAGTACATTAAACATGTCAATATCCAGGCAAACAGAAAAAT
Found at i:22331040 original size:38 final size:38
Alignment explanation
Indices: 22330998--22331073 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
22330988 ACTCGACAAT
*
22330998 AGTTCGATTATTTATGCTCGAACTCGAACTCGAATTCA
1 AGTTCGATTATTCATGCTCGAACTCGAACTCGAATTCA
*
22331036 AGTTCGATTATTCATGCTCGAACTTGAACTCGAATTCA
1 AGTTCGATTATTCATGCTCGAACTCGAACTCGAATTCA
22331074 TACTCGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (38 bp):
AGTTCGATTATTCATGCTCGAACTCGAACTCGAATTCA
Found at i:22331254 original size:22 final size:22
Alignment explanation
Indices: 22331229--22331289 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
22331219 TCGATAATAA
*
22331229 TCGAACCGAATTCTAATTTTCT
1 TCGAACCGAATTCGAATTTTCT
22331251 TCGAACCGAATTCGAATTTTCT
1 TCGAACCGAATTCGAATTTTCT
* *
22331273 TCGAATCGAATCCGAAT
1 TCGAACCGAATTCGAAT
22331290 AATTTACGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (22 bp):
TCGAACCGAATTCGAATTTTCT
Found at i:22336030 original size:24 final size:24
Alignment explanation
Indices: 22336003--22336048 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22335993 TTATACAAAA
*
22336003 ATTAAAATATATATTTTAATTTTT
1 ATTAAAATATATATTATAATTTTT
* *
22336027 ATTAAATTATATGTTATAATTT
1 ATTAAAATATATATTATAATTT
22336049 ACATGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTAAAATATATATTATAATTTTT
Found at i:22336544 original size:7 final size:7
Alignment explanation
Indices: 22336534--22336574 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
22336524 ATTATAATTC
22336534 ATAAATA
1 ATAAATA
22336541 ATAAATA
1 ATAAATA
22336548 ATAAAT-
1 ATAAATA
*
22336554 AT-TATA
1 ATAAATA
*
22336560 ATCAATA
1 ATAAATA
22336567 ATAAATA
1 ATAAATA
22336574 A
1 A
22336575 ACATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 2 0.07
6 4 0.14
7 23 0.79
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (7 bp):
ATAAATA
Found at i:22337837 original size:7 final size:7
Alignment explanation
Indices: 22337808--22337844 Score: 56
Period size: 8 Copynumber: 5.0 Consensus size: 7
22337798 GCTTGAATCA
22337808 ATAAAAT
1 ATAAAAT
22337815 ATTAAAAT
1 A-TAAAAT
22337823 ATTAAAAT
1 A-TAAAAT
22337831 ATAAAAT
1 ATAAAAT
22337838 ATAAAAT
1 ATAAAAT
22337845 TAATAATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATAAAAT
Found at i:22354002 original size:26 final size:26
Alignment explanation
Indices: 22353973--22354034 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
22353963 GTATTAAACG
*
22353973 AATATATTTATCAATACATATAAATA
1 AATATATTTATAAATACATATAAATA
* * *
22353999 AATATGTTCATAAATATATATAAATA
1 AATATATTTATAAATACATATAAATA
22354025 AATATATTTA
1 AATATATTTA
22354035 AGAATAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (26 bp):
AATATATTTATAAATACATATAAATA
Found at i:22354021 original size:10 final size:10
Alignment explanation
Indices: 22354008--22354147 Score: 56
Period size: 10 Copynumber: 13.5 Consensus size: 10
22353998 AAATATGTTC
*
22354008 ATAAATATAT
1 ATAAATAAAT
22354018 ATAAATAAAT
1 ATAAATAAAT
**
22354028 ATATTTAAGAAT
1 ATAAAT-A-AAT
22354040 AATAAATAAATT
1 -ATAAATAAA-T
*
22354052 ATAACTAAAT
1 ATAAATAAAT
* *
22354062 A-AATTTAA-
1 ATAAATAAAT
*
22354070 ACAAAT-AAT
1 ATAAATAAAT
* *
22354079 CACAAATGAAT
1 -ATAAATAAAT
*
22354090 ATAAACAAACT
1 ATAAATAAA-T
22354101 -TAAATAAAT
1 ATAAATAAAT
22354110 ATAAATAAAT
1 ATAAATAAAT
*
22354120 TTAAAATAAGAT
1 AT-AAATAA-AT
22354132 -TAAAATAAAT
1 AT-AAATAAAT
22354142 AATAAA
1 -ATAAA
22354148 AATATAATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
8 3 0.03
9 9 0.09
10 46 0.45
11 32 0.31
12 8 0.08
13 4 0.04
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:22354040 original size:26 final size:25
Alignment explanation
Indices: 22353973--22354050 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 25
22353963 GTATTAAACG
* *
22353973 AATATATTTATCAATACATATAAATA
1 AATATATTTA-AAATATATATAAATA
* *
22353999 AATATGTTCATAAATATATATAAATA
1 AATATATTTA-AAATATATATAAATA
*
22354025 AATATATTTAAGA-ATA-ATAAATA
1 AATATATTTAAAATATATATAAATA
22354048 AAT
1 AAT
22354051 TATAACTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 10 0.22
24 3 0.07
25 2 0.04
26 30 0.67
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (25 bp):
AATATATTTAAAATATATATAAATA
Found at i:22354077 original size:14 final size:15
Alignment explanation
Indices: 22354038--22354066 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22354028 ATATTTAAGA
22354038 ATAA-TAAATAAATT
1 ATAACTAAATAAATT
22354052 ATAACTAAATAAATT
1 ATAACTAAATAAATT
22354067 TAAACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTAAATAAATT
Found at i:22354588 original size:30 final size:30
Alignment explanation
Indices: 22354515--22354598 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
22354505 TTGTTCAATG
* * *
22354515 AGAACTTAATTAAGTCAAAAT-AAATATTTA
1 AGAATTTAATTAA-TTAAAATAAAAAATTTA
22354545 AGAATTTAATTAATTTAAAATAAAAAATTTA
1 AGAATTTAATTAA-TTAAAATAAAAAATTTA
* *
22354576 AG-ATTTGATTAATTATAATAAAA
1 AGAATTTAATTAATTAAAATAAAA
22354599 TAAAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 10 0.21
30 27 0.57
31 10 0.21
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (30 bp):
AGAATTTAATTAATTAAAATAAAAAATTTA
Found at i:22358150 original size:15 final size:15
Alignment explanation
Indices: 22358127--22358169 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22358117 AATAATAAAA
*
22358127 TATTATATTTTTTAT
1 TATTATATTTATTAT
*
22358142 TATTTTATTTATTAT
1 TATTATATTTATTAT
22358157 TGA-TATATTTATT
1 T-ATTATATTTATT
22358170 TACATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TATTATATTTATTAT
Found at i:22358276 original size:20 final size:20
Alignment explanation
Indices: 22358253--22358296 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
22358243 TTTTTTACTG
* *
22358253 TTTACAAACTTTTTTAATTA
1 TTTACAAACATATTTAATTA
*
22358273 TTTATAAACATATTTAATTA
1 TTTACAAACATATTTAATTA
22358293 TTTA
1 TTTA
22358297 TTTATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTACAAACATATTTAATTA
Found at i:22358339 original size:23 final size:23
Alignment explanation
Indices: 22358295--22358341 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22358285 TTTAATTATT
* * **
22358295 TATTTATAAATATATTCTTTTAA
1 TATTTACAAATAAATTAATTTAA
22358318 TATTTACAAATAAATTAATTTAA
1 TATTTACAAATAAATTAATTTAA
22358341 T
1 T
22358342 TTAAACAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTTACAAATAAATTAATTTAA
Found at i:22358636 original size:21 final size:21
Alignment explanation
Indices: 22358606--22358654 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22358596 AATTTTTTAT
22358606 TAAAAA-TGATTAAAT-AAAAA
1 TAAAAATTGA-TAAATGAAAAA
* *
22358626 TAAAAATTGATAATTGAAAAT
1 TAAAAATTGATAAATGAAAAA
22358647 TAAAAATT
1 TAAAAATT
22358655 AAAAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAAAATTGATAAATGAAAAA
Found at i:22358640 original size:7 final size:7
Alignment explanation
Indices: 22358628--22358668 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
22358618 AATAAAAATA
22358628 AAAATTG
1 AAAATTG
*
22358635 ATAATTG
1 AAAATTG
*
22358642 AAAATTA
1 AAAATTG
*
22358649 AAAATTA
1 AAAATTG
22358656 AAAATTG
1 AAAATTG
22358663 AAAATT
1 AAAATT
22358669 TTCATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (7 bp):
AAAATTG
Found at i:22358645 original size:14 final size:14
Alignment explanation
Indices: 22358621--22358668 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
22358611 ATGATTAAAT
*
22358621 AAAAATAAAAATTG
1 AAAATTAAAAATTG
* * *
22358635 ATAATTGAAAATTA
1 AAAATTAAAAATTG
22358649 AAAATTAAAAATTG
1 AAAATTAAAAATTG
22358663 AAAATT
1 AAAATT
22358669 TTCATTATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATTAAAAATTG
Found at i:22358661 original size:21 final size:21
Alignment explanation
Indices: 22358621--22358668 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
22358611 ATGATTAAAT
* * *
22358621 AAAAATAAAAATTGATAATTG
1 AAAATTAAAAATTAAAAATTG
22358642 AAAATTAAAAATTAAAAATTG
1 AAAATTAAAAATTAAAAATTG
22358663 AAAATT
1 AAAATT
22358669 TTCATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AAAATTAAAAATTAAAAATTG
Found at i:22359590 original size:63 final size:63
Alignment explanation
Indices: 22359456--22359590 Score: 166
Period size: 63 Copynumber: 2.1 Consensus size: 63
22359446 CAAAACTATG
* * *
22359456 ACAACCGATCCAATGAAGGCCCACAATCTATAGTGGCACATTGCTAATACCCCACTCTAGTAT
1 ACAATCGATCCAATGAAGGCCCACAATCTATAGTGGCACATTGCTAATACCCCACTCTAATAC
* * * * *
22359519 ACAGTCGATCCAATGAAGGCCCATC-ATCT-TCGGTGGCACATTGCTAGTACCCTATTCTAATAC
1 ACAATCGATCCAATGAAGGCCCA-CAATCTAT-AGTGGCACATTGCTAATACCCCACTCTAATAC
22359582 ACAATCGAT
1 ACAATCGAT
22359591 GTGGGATTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
62 1 0.02
63 59 0.97
64 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (63 bp):
ACAATCGATCCAATGAAGGCCCACAATCTATAGTGGCACATTGCTAATACCCCACTCTAATAC
Found at i:22359854 original size:108 final size:108
Alignment explanation
Indices: 22359665--22359863 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 108
22359655 CAATAACTCT
*
22359665 TCACCAGGACTATGACATATTTCCCACTCCAATGAAGACCCACCATCCTAAATGACACATCGCTA
1 TCACCAGGACTATGACATATTGCCCACTCCAATGAAGACCCACCATCCTAAATGACACATCGCTA
* *
22359730 GTGCCCCATTTTAGTACACAACTGATGTGGGATTCATGGTTCC
66 GTGCCCCACTCTAGTACACAACTGATGTGGGATTCATGGTTCC
* * * *
22359773 TCACCAGGACTATGACAT-TTGCCTCACTCCAATGAAGGCCTACCATCCCT-AGTGGCACATCGC
1 TCACCAGGACTATGACATATTGCC-CACTCCAATGAAGACCCACCAT-CCTAAATGACACATCGC
22359836 TAGTGCCCCACTCTAGTACACAACTGAT
64 TAGTGCCCCACTCTAGTACACAACTGAT
22359864 CTAACAAAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 4 0.05
108 75 0.91
109 3 0.04
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (108 bp):
TCACCAGGACTATGACATATTGCCCACTCCAATGAAGACCCACCATCCTAAATGACACATCGCTA
GTGCCCCACTCTAGTACACAACTGATGTGGGATTCATGGTTCC
Found at i:22361907 original size:58 final size:58
Alignment explanation
Indices: 22361780--22361907 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 58
22361770 TATGACATGG
* * *
22361780 TACATCACTAGTGTGAACACTTATATCCCTACTTTAGTATACACACTATCCTCGATGG
1 TACATCACTAGTGTGAACACTTATATCCCTACTTTAGTATACACACCATCATCGATGA
* * * *
22361838 TACATCACTAGTGTGAACACTTATATTCTTACTTTAGTATACACACCATTATCGGTGA
1 TACATCACTAGTGTGAACACTTATATCCCTACTTTAGTATACACACCATCATCGATGA
* *
22361896 TATATCGCTAGT
1 TACATCACTAGT
22361908 ATCTCACTCT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (58 bp):
TACATCACTAGTGTGAACACTTATATCCCTACTTTAGTATACACACCATCATCGATGA
Found at i:22362919 original size:112 final size:112
Alignment explanation
Indices: 22362651--22362929 Score: 317
Period size: 112 Copynumber: 2.5 Consensus size: 112
22362641 CCATGATTCT
* * * * * * *
22362651 TGATGGTACATTGCTAGTATGAACACTTATATTTCAAGACCAACTCTAGTATATATTTTAAGGCC
1 TGATGGTACATTGCTAGTATGAACATTTATATTTCAAAACCAATTCTAGTACACACTTCAAGGCC
* * * * * * *
22362716 TATTATCTTTGAGATTTATTTTTTCTCACTCTAAGGCCTACCATCTC
66 TATCATCCTTAAGATTCATTTTTTCTCACTCTAACGCCCACCATCCC
* * *
22362763 TGTTGGTACATTGCTAGTATGAACATTTATATTTTAAAACCAATTCTAATACACACTTCAAGGCC
1 TGATGGTACATTGCTAGTATGAACATTTATATTTCAAAACCAATTCTAGTACACACTTCAAGGCC
* *
22362828 TATCATCCTTAAGATTCATTTTTTTTCACT-TCAACGCCCACTATCCC
66 TATCATCCTTAAGATTCATTTTTTCTCACTCT-AACGCCCACCATCCC
** * * * *
22362875 TGATGGTACATCACTAATGTGAACATTTATATTTCAAAATCAATTTTAGTACACA
1 TGATGGTACATTGCTAGTATGAACATTTATATTTCAAAACCAATTCTAGTACACA
22362930 GCCAATATAA
Statistics
Matches: 138, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
111 1 0.01
112 137 0.99
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (112 bp):
TGATGGTACATTGCTAGTATGAACATTTATATTTCAAAACCAATTCTAGTACACACTTCAAGGCC
TATCATCCTTAAGATTCATTTTTTCTCACTCTAACGCCCACCATCCC
Found at i:22363073 original size:74 final size:74
Alignment explanation
Indices: 22362989--22363132 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 74
22362979 CCGTTCTTGA
* * * * * * * * *
22362989 TGGTACATCGTTAGTGTAAATATTTATATTTTAAGATCAACTCTAGTATACATTTTAAGGCCTAT
1 TGGTACATCGTTAGTGTAAATACTTATATCTCAAAATCAACTATAGTACACATTCTAAAGCCCAT
22363054 CATTTTTGG
66 CATTTTTGG
*
22363063 TGGTACATCGTTAGTGTGAATACTTATATCTCAAAATCAACTATAGTACACATTCTAAAGCCCAT
1 TGGTACATCGTTAGTGTAAATACTTATATCTCAAAATCAACTATAGTACACATTCTAAAGCCCAT
22363128 CATTT
66 CATTT
22363133 CTGTGATTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (74 bp):
TGGTACATCGTTAGTGTAAATACTTATATCTCAAAATCAACTATAGTACACATTCTAAAGCCCAT
CATTTTTGG
Found at i:22364452 original size:62 final size:64
Alignment explanation
Indices: 22364376--22364533 Score: 189
Period size: 62 Copynumber: 2.5 Consensus size: 64
22364366 TGGTATATTA
* * *
22364376 CTAGTATGACATCTTTTCCCACTTTAATGAAGGCCTAAACCCATCATT-TTTATGGTACATC-T
1 CTAGTATAACATCTTTTCCCACTTTAATGAAGGCCTAAACCCATAATTCTTGATGGTACATCAT
* * * *
22364438 CTAGTATAATATCTTTTCCCA-TTTCAATGAAAGCTTAAACCTATAATTCTTGATGGTACATCAT
1 CTAGTATAACATCTTTTCCCACTTT-AATGAAGGCCTAAACCCATAATTCTTGATGGTACATCAT
* **
22364502 -TAGTATAACATTTTTTTTCACTTTAATGAAGG
1 CTAGTATAACATCTTTTCCCACTTTAATGAAGG
22364534 TTTGAGACTA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
61 3 0.04
62 38 0.47
63 35 0.44
64 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (64 bp):
CTAGTATAACATCTTTTCCCACTTTAATGAAGGCCTAAACCCATAATTCTTGATGGTACATCAT
Found at i:22368283 original size:46 final size:46
Alignment explanation
Indices: 22368230--22368320 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
22368220 AATATTTCTT
* * *
22368230 CATAATACTACTTTATTTTTATCTTTATAAAATGGGTTTCCCTTCC
1 CATAATACTACTTTAATTTTATCTCTATAAAAAGGGTTTCCCTTCC
*
22368276 CATAATACTACTTTAATTTTATCTCTATAAAAAGGGTTTCTCTTC
1 CATAATACTACTTTAATTTTATCTCTATAAAAAGGGTTTCCCTTC
22368321 TCTCAAGTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.46
Consensus pattern (46 bp):
CATAATACTACTTTAATTTTATCTCTATAAAAAGGGTTTCCCTTCC
Found at i:22375141 original size:22 final size:22
Alignment explanation
Indices: 22375116--22375159 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22375106 CTATATATTT
* *
22375116 ATATTTGTATTTCTAGAATTAA
1 ATATTTATATTCCTAGAATTAA
22375138 ATATTTATATTCCTAGAATTAA
1 ATATTTATATTCCTAGAATTAA
22375160 GGACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (22 bp):
ATATTTATATTCCTAGAATTAA
Found at i:22379539 original size:25 final size:25
Alignment explanation
Indices: 22379511--22379559 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22379501 TTTAACTAAA
22379511 CAATCAGCCGAACCAGAATCGGAAG
1 CAATCAGCCGAACCAGAATCGGAAG
* **
22379536 CAATCGGCCGAACTGGAATCGGAA
1 CAATCAGCCGAACCAGAATCGGAA
22379560 TCTTAGGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.27, G:0.27, T:0.10
Consensus pattern (25 bp):
CAATCAGCCGAACCAGAATCGGAAG
Found at i:22385781 original size:20 final size:20
Alignment explanation
Indices: 22385756--22385797 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22385746 AAAAATTTTT
22385756 TTTATTACACTTTTTA-TTAA
1 TTTATTACA-TTTTTATTTAA
*
22385776 TTTATTATATTTTTATTTAA
1 TTTATTACATTTTTATTTAA
22385796 TT
1 TT
22385798 ATATAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATTACATTTTTATTTAA
Found at i:22385939 original size:11 final size:10
Alignment explanation
Indices: 22385919--22385967 Score: 73
Period size: 10 Copynumber: 4.8 Consensus size: 10
22385909 TATTAATAAT
22385919 AAAA-TTTAA
1 AAAATTTTAA
22385928 AATAATTTTAA
1 AA-AATTTTAA
22385939 AAAATTTTAA
1 AAAATTTTAA
22385949 AAAATTTTAAA
1 AAAATTTT-AA
22385960 AAAATTTT
1 AAAATTTT
22385968 TTTTCCTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.05
10 18 0.49
11 17 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:22385942 original size:20 final size:20
Alignment explanation
Indices: 22385919--22385967 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
22385909 TATTAATAAT
22385919 AAAA-TTTAAAATAATTTTAA
1 AAAATTTTAAAA-AATTTTAA
22385939 AAAATTTTAAAAAATTTTAAA
1 AAAATTTTAAAAAATTTT-AA
22385960 AAAATTTT
1 AAAATTTT
22385968 TTTTCCTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATTTTAAAAAATTTTAA
Found at i:22386358 original size:13 final size:14
Alignment explanation
Indices: 22386334--22386362 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22386324 ATCAAATTTT
22386334 TTTTTGTGTTGGTG
1 TTTTTGTGTTGGTG
22386348 TTTTTGT-TTGGTG
1 TTTTTGTGTTGGTG
22386361 TT
1 TT
22386363 GTTGCCCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (14 bp):
TTTTTGTGTTGGTG
Found at i:22390915 original size:18 final size:18
Alignment explanation
Indices: 22390892--22390928 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22390882 ACCTTTGAGG
22390892 TGGAAGGATATTGGTTGT
1 TGGAAGGATATTGGTTGT
22390910 TGGAAGGATATTGGTTGT
1 TGGAAGGATATTGGTTGT
22390928 T
1 T
22390929 TACATATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (18 bp):
TGGAAGGATATTGGTTGT
Found at i:22393557 original size:16 final size:16
Alignment explanation
Indices: 22393532--22393565 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22393522 CGAGGATGTT
*
22393532 AGAATCAATTTTTAAA
1 AGAATAAATTTTTAAA
22393548 AGAATAAATTTTTAAA
1 AGAATAAATTTTTAAA
22393564 AG
1 AG
22393566 GATATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (16 bp):
AGAATAAATTTTTAAA
Found at i:22393685 original size:141 final size:140
Alignment explanation
Indices: 22393406--22393675 Score: 416
Period size: 141 Copynumber: 1.9 Consensus size: 140
22393396 AGTTTTTATT
* * * *
22393406 AAAGAATCATTTTTTAAAGGATATTTTAATTAAACTTAACCATTGATGACAGCTTAATATTTAGA
1 AAAGAATAATTTTTAAAAGGATATTTTAATTAAACTTAACCATGGATGACAACTTAATATTTAGA
* * * * *
22393471 CATACCAACTAAATTTGACTTGATTTTGTTTATTATTAGATTTTTTATATTCGAGGATGTTAGAA
66 CAAACCAACTAAATTTGACTTAATTTTGTTTATTATTAGATTTTTTATATTCAAAGATGTTAAAA
22393536 TCAATTTTTA
131 TCAATTTTTA
**
22393546 AAAGAATAAATTTTTAAAAGGATATTTTAATTAAACTTTGCCATGGATGACAACTTAATATTTAG
1 AAAGAAT-AATTTTTAAAAGGATATTTTAATTAAACTTAACCATGGATGACAACTTAATATTTAG
*
22393611 ACAAACCAACTAAATTTGACTTAATTTTGTTTATTGTTAGA-TTTTTATATTCAAAGATGTTAAA
65 ACAAACCAACTAAATTTGACTTAATTTTGTTTATTATTAGATTTTTTATATTCAAAGATGTTAAA
22393675 A
130 A
22393676 ATGGATTTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
140 28 0.24
141 89 0.76
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (140 bp):
AAAGAATAATTTTTAAAAGGATATTTTAATTAAACTTAACCATGGATGACAACTTAATATTTAGA
CAAACCAACTAAATTTGACTTAATTTTGTTTATTATTAGATTTTTTATATTCAAAGATGTTAAAA
TCAATTTTTA
Found at i:22394310 original size:16 final size:16
Alignment explanation
Indices: 22394278--22394310 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22394268 TGATGAAATC
*
22394278 TTTTAATTTATCATTT
1 TTTTAATTTATAATTT
22394294 TTTTAATTT-TAATTT
1 TTTTAATTTATAATTT
22394309 TT
1 TT
22394311 ATTTACTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTAATTTATAATTT
Found at i:22403427 original size:23 final size:22
Alignment explanation
Indices: 22403393--22403435 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
22403383 ACTCAATTTT
22403393 TTTATATATTTCTATTATTTAA
1 TTTATATATTTCTATTATTTAA
*
22403415 TTTATGATTTTTCTATTATTT
1 TTTAT-ATATTTCTATTATTT
22403436 TTATTTTATT
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:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATATATTTCTATTATTTAA
Found at i:22403448 original size:23 final size:22
Alignment explanation
Indices: 22403388--22403448 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
22403378 TTTCTACTCA
*
22403388 ATTT-TTTTATATATTTCTATT
1 ATTTATTTTATATTTTTCTATT
*
22403409 ATTTAATTTATGATTTTTCTATT
1 ATTTATTTTAT-ATTTTTCTATT
*
22403432 ATTT-TTATTTTATTTTT
1 ATTTATT-TTATATTTTT
22403449 GTATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 12 0.36
23 17 0.52
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTATTTTATATTTTTCTATT
Found at i:22403611 original size:21 final size:20
Alignment explanation
Indices: 22403587--22403637 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
22403577 ACAACAATTG
22403587 ATAAAAATTAATTAATA-AAAA
1 ATAAAAATTAA--AATATAAAA
*
22403608 ATAATAATTTAAAATATAAAA
1 ATAA-AAATTAAAATATAAAA
*
22403629 AAAAAAATT
1 ATAAAAATT
22403638 TATCCGACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.32
21 11 0.44
22 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAAATTAAAATATAAAA
Found at i:22408541 original size:19 final size:19
Alignment explanation
Indices: 22408517--22408554 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22408507 TTTTCCTCAG
22408517 AACAAGTGAGTAGAATTAA
1 AACAAGTGAGTAGAATTAA
22408536 AACAAGTGAGTAGAATTAA
1 AACAAGTGAGTAGAATTAA
22408555 GATGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AACAAGTGAGTAGAATTAA
Found at i:22410848 original size:20 final size:20
Alignment explanation
Indices: 22410802--22410858 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
22410792 TGACTCGAAA
**
22410802 TTAATA-AAAT-ATTTATTT
1 TTAATATAAATAATTTAAAT
22410820 TTAATATAAATAATTATAAAT
1 TTAATATAAATAATT-TAAAT
*
22410841 TTAA-ATAATTAATTTAAA
1 TTAATATAAATAATTTAAA
22410859 AAATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 12 0.36
21 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATATAAATAATTTAAAT
Found at i:22411795 original size:14 final size:13
Alignment explanation
Indices: 22411772--22411805 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
22411762 TAATTTGATT
22411772 TAAATTAATTTAA
1 TAAATTAATTTAA
22411785 TAAACTTAATTTAA
1 TAAA-TTAATTTAA
22411799 TATAATT
1 TA-AATT
22411806 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 13 0.68
15 2 0.11
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATTAATTTAA
Found at i:22411811 original size:14 final size:15
Alignment explanation
Indices: 22411794--22411832 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
22411784 ATAAACTTAA
22411794 TTTAATATAAT-TTT
1 TTTAATATAATATTT
* *
22411808 TTTAAAATATTATTT
1 TTTAATATAATATTT
22411823 TTTAATATAA
1 TTTAATATAA
22411833 ATTATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATATAATATTT
Found at i:22411840 original size:19 final size:19
Alignment explanation
Indices: 22411812--22411865 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
22411802 AATTTTTTTA
*
22411812 AAATATTATTTT-TTAATAT
1 AAATAATATTTTATT-ATAT
*
22411831 AAATTATATTTTATTATAT
1 AAATAATATTTTATTATAT
*
22411850 ATATAATATTTTATTA
1 AAATAATATTTTATTA
22411866 CATTAATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATAATATTTTATTATAT
Found at i:22412076 original size:20 final size:20
Alignment explanation
Indices: 22412053--22412091 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22412043 TTTAAATAAA
22412053 TTTA-TATATAAAATATTTTT
1 TTTATTATATAAAA-ATTTTT
*
22412073 TTTATTTTATAAAAATTTT
1 TTTATTATATAAAAATTTT
22412092 AAAATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATTATATAAAAATTTTT
Found at i:22412752 original size:10 final size:10
Alignment explanation
Indices: 22412729--22412771 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
22412719 GTTTTTATTT
22412729 TATAAAAAT-
1 TATAAAAATA
22412738 T-TAAAAATA
1 TATAAAAATA
22412747 TATAAAAACTA
1 TATAAAAA-TA
22412758 -ATAAAAATA
1 TATAAAAATA
22412767 TATAA
1 TATAA
22412772 TTCGATTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.23
9 4 0.13
10 17 0.57
11 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
TATAAAAATA
Found at i:22412949 original size:12 final size:12
Alignment explanation
Indices: 22412928--22412979 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
22412918 ATATTAAAAT
22412928 TTATATATTTATA
1 TTATA-ATTTATA
22412941 TTATAATTTATA
1 TTATAATTTATA
* * *
22412953 TAAAAAATTATATG
1 T-TATAATT-TATA
22412967 TTATAATTTATA
1 TTATAATTTATA
22412979 T
1 T
22412980 CAAAATAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
12 12 0.39
13 15 0.48
14 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
TTATAATTTATA
Found at i:22412957 original size:39 final size:37
Alignment explanation
Indices: 22412898--22412979 Score: 94
Period size: 39 Copynumber: 2.2 Consensus size: 37
22412888 GAATTAAATA
* * *
22412898 TTATATTTATTTTATGTAAAATATTAAAAT-TTATATAT
1 TTATATTTAATTTATATAAAAAATT-AAATGTTATA-AT
*
22412936 TTATATTATAATTTATATAAAAAATTATATGTTATAAT
1 TTATATT-TAATTTATATAAAAAATTAAATGTTATAAT
22412974 TTATAT
1 TTATAT
22412980 CAAAATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 18 0.47
39 20 0.53
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (37 bp):
TTATATTTAATTTATATAAAAAATTAAATGTTATAAT
Found at i:22412964 original size:24 final size:25
Alignment explanation
Indices: 22412936--22412984 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
22412926 ATTTATATAT
22412936 TTATA-TTATAATTTATATAAAAAA
1 TTATAGTTATAATTTATATAAAAAA
*
22412960 TTATATGTTATAATTTATATCAAAA
1 TTATA-GTTATAATTTATATAAAAA
22412985 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
26 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TTATAGTTATAATTTATATAAAAAA
Found at i:22413980 original size:24 final size:23
Alignment explanation
Indices: 22413918--22413981 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
22413908 TATAGTACTT
*
22413918 ATAAAATATTATTTTTTAATATAA
1 ATAAAATATT-TTTATTAATATAA
* * *
22413942 AT--TATATCTTAATTATATATAA
1 ATAAAATATTTTTATTA-ATATAA
22413964 ATAAAATATTTTTATTAA
1 ATAAAATATTTTTATTAA
22413982 ATTAATATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
21 5 0.17
22 12 0.40
23 1 0.03
24 12 0.40
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAAAATATTTTTATTAATATAA
Found at i:22414844 original size:31 final size:32
Alignment explanation
Indices: 22414755--22414849 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 32
22414745 AATTCATATC
*
22414755 ATATAAAATATTAAAATATAT-ATTTATATTAA
1 ATATAAAA-AATAAAATATATAATTTATATTAA
*
22414787 ATTTTATATAAAAACT-ATATATTATAATTTATATT-A
1 A---TATA-AAAAA-TAAAATA-TATAATTTATATTAA
22414823 ATATAAAAAATAAAATATATAAATTTA
1 ATATAAAAAATAAAATATAT-AATTTA
22414850 ATTTTATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
31 4 0.08
32 16 0.31
33 4 0.08
35 9 0.18
36 9 0.18
37 9 0.18
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATAAAAAATAAAATATATAATTTATATTAA
Found at i:22414911 original size:17 final size:17
Alignment explanation
Indices: 22414889--22414927 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
22414879 AAATTTTAAA
**
22414889 TTATATTTTTTTATATC
1 TTATATTTAATTATATC
22414906 TTATATTTAATTATATC
1 TTATATTTAATTATATC
22414923 -TATAT
1 TTATAT
22414928 CGTATCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTAATTATATC
Found at i:22416280 original size:21 final size:21
Alignment explanation
Indices: 22416243--22416287 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
22416233 TTAGTTAATA
22416243 TTTATAAAATTAATAAATTAT
1 TTTATAAAATTAATAAATTAT
*
22416264 TTTA-AAAAGTTATTAAATTAT
1 TTTATAAAA-TTAATAAATTAT
22416285 TTT
1 TTT
22416288 TATATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTATAAAATTAATAAATTAT
Found at i:22416348 original size:22 final size:24
Alignment explanation
Indices: 22416323--22416372 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
22416313 AAATAATTAA
* *
22416323 AATATATTTAAT-GTTT-TTATAT
1 AATAAATTTAATAATTTATTATAT
*
22416345 AATAAATTTATTAATTTATTATAT
1 AATAAATTTAATAATTTATTATAT
22416369 AATA
1 AATA
22416373 GTAAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 3 0.13
24 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
AATAAATTTAATAATTTATTATAT
Found at i:22416759 original size:26 final size:25
Alignment explanation
Indices: 22416715--22416764 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
22416705 AATATTTTTA
* *
22416715 TAAAATTTTTTAATTATAATTATAG
1 TAAAATTTTTCAATCATAATTATAG
22416740 TAAAATGTTTTCAATCATAATTATA
1 TAAAAT-TTTTCAATCATAATTATA
22416765 ATTATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
TAAAATTTTTCAATCATAATTATAG
Found at i:22417184 original size:17 final size:17
Alignment explanation
Indices: 22417158--22417203 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
22417148 CACAAATTTA
22417158 TAAAAT-TTTTATATT-T
1 TAAAATATTTTA-ATTAT
*
22417174 TAATATATTTTAATTAT
1 TAAAATATTTTAATTAT
22417191 TAAAATATTTTAA
1 TAAAATATTTTAA
22417204 ATTCAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAAATATTTTAATTAT
Found at i:22417368 original size:13 final size:12
Alignment explanation
Indices: 22417329--22417394 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 12
22417319 AATTAAAAAT
22417329 AATTT-AATT-A
1 AATTTAAATTCA
* *
22417339 AATTCAAATTAA
1 AATTTAAATTCA
22417351 AATTTAAATCTCA
1 AATTTAAAT-TCA
*
22417364 AATTTAAAATCA
1 AATTTAAATTCA
*
22417376 AATTAAAATTCA
1 AATTTAAATTCA
*
22417388 AACTTAA
1 AATTTAA
22417395 TATTATTCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
10 4 0.09
11 4 0.09
12 27 0.60
13 10 0.22
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (12 bp):
AATTTAAATTCA
Found at i:22417378 original size:19 final size:18
Alignment explanation
Indices: 22417334--22417385 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
22417324 AAAATAATTT
22417334 AATT-AAATTCAAATTAA
1 AATTCAAATTCAAATTAA
*
22417351 AATTTAAATCTCAAATTTAA
1 AATTCAAAT-TCAAA-TTAA
*
22417371 AA-TCAAATTAAAATT
1 AATTCAAATTCAAATT
22417386 CAAACTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.20
18 8 0.27
19 10 0.33
20 6 0.20
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTCAAATTCAAATTAA
Found at i:22418566 original size:2 final size:2
Alignment explanation
Indices: 22418559--22418634 Score: 62
Period size: 2 Copynumber: 38.0 Consensus size: 2
22418549 GCTTGAATTC
* * * * * *
22418559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT GT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
22418601 GT GT GT GT 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
22418635 GTATGTATGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22423904 original size:11 final size:11
Alignment explanation
Indices: 22423890--22423933 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
22423880 AAATTTTAAA
22423890 TTATATTATTT
1 TTATATTATTT
*
22423901 TTATATTTTTTAT
1 TTATA-TTATT-T
22423914 TTATATTATTT
1 TTATATTATTT
*
22423925 TTATGTTAT
1 TTATATTAT
22423934 GTTATCGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 14 0.50
12 8 0.29
13 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (11 bp):
TTATATTATTT
Found at i:22423910 original size:24 final size:24
Alignment explanation
Indices: 22423883--22423928 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22423873 TTTATTAAAA
22423883 TTTTAAATTATATTATTTTTATAT
1 TTTTAAATTATATTATTTTTATAT
* *
22423907 TTTTTATTTATATTATTTTTAT
1 TTTTAAATTATATTATTTTTAT
22423929 GTTATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTAAATTATATTATTTTTATAT
Found at i:22439008 original size:42 final size:40
Alignment explanation
Indices: 22438949--22439039 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 40
22438939 ATAATTTTTT
*
22438949 ATTACTTATTTAATTTTATATTT-ATATATTATA-TTAATAAA
1 ATTA-TTATTTAATTTTA-ATTTAAGATATTA-ACTTAATAAA
*
22438990 ATTATTATTTAATATTTTAATTTAAGATATTAACTTACTAAA
1 ATTATTATTT-A-ATTTTAATTTAAGATATTAACTTAATAAA
*
22439032 AATATTAT
1 ATTATTAT
22439040 ATTTATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 6 0.14
41 10 0.23
42 27 0.63
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (40 bp):
ATTATTATTTAATTTTAATTTAAGATATTAACTTAATAAA
Found at i:22439074 original size:42 final size:46
Alignment explanation
Indices: 22438976--22439094 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 46
22438966 ATATTTATAT
*
22438976 ATTATATTAATAAA-ATTATTATTTAATATTTTAATTTAAGATATTA
1 ATTATATTAA-AAATATTATTATTTAATATTATAATTTAAGATATTA
* *
22439022 ACT-TACTAAAAATATTA-TATTT-ATA-TATAA-TTAAGATA-TA
1 ATTATATTAAAAATATTATTATTTAATATTATAATTTAAGATATTA
*
22439062 ATTTATATTAAAAAATATT-TTA-TAAATATTATA
1 A-TTATATT-AAAAATATTATTATTTAATATTATA
22439095 CTAAATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
40 3 0.05
41 9 0.15
42 8 0.13
43 17 0.28
44 12 0.20
45 9 0.15
46 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (46 bp):
ATTATATTAAAAATATTATTATTTAATATTATAATTTAAGATATTA
Found at i:22439950 original size:13 final size:13
Alignment explanation
Indices: 22439932--22439963 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22439922 GATTTGAATT
22439932 AATTTATATATTA
1 AATTTATATATTA
22439945 AATTTATATATTA
1 AATTTATATATTA
*
22439958 GATTTA
1 AATTTA
22439964 GATTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
AATTTATATATTA
Found at i:22442303 original size:62 final size:61
Alignment explanation
Indices: 22442163--22442313 Score: 160
Period size: 62 Copynumber: 2.4 Consensus size: 61
22442153 TTTTTAAAGA
* * * *
22442163 TTATTCAAGACATTTTTTGCCATAAAAAAGCCTTGAATAATCCCTTACAAAAAATTAAATGGG
1 TTATTCAAGGCATTTTTAG-C-TAAAAAAGCCTTCAATAATCACTTACAAAAAATTAAATGGG
* * * * * *
22442226 TTATTTATGGCATTTTCTGGCTAAAAAATCCTTCAATAATCATTTACAAAAAATTGAA-GGAG
1 TTATTCAAGGCATTTT-TAGCTAAAAAAGCCTTCAATAATCACTTACAAAAAATTAAATGG-G
*
22442288 TTATTCAAGGTATTTTTAGCTAAAAA
1 TTATTCAAGGCATTTTTAGCTAAAAA
22442314 CGTATTTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
61 11 0.15
62 46 0.63
63 14 0.19
64 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (61 bp):
TTATTCAAGGCATTTTTAGCTAAAAAAGCCTTCAATAATCACTTACAAAAAATTAAATGGG
Found at i:22444055 original size:18 final size:18
Alignment explanation
Indices: 22444016--22444066 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
22444006 AGTTTATTTT
* *
22444016 AAATTTAATTATATATAT
1 AAATTTAATTATAAATAA
22444034 AAATTTAAGTT-TAAATAA
1 AAATTTAA-TTATAAATAA
22444052 AAA-TTAATATATAAA
1 AAATTTAAT-TATAAA
22444067 AATAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 5 0.18
18 20 0.71
19 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTAATTATAAATAA
Found at i:22445423 original size:18 final size:18
Alignment explanation
Indices: 22445400--22445441 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
22445390 AGGGCGAGTC
22445400 GATGTTCCCAGGAGAAGT
1 GATGTTCCCAGGAGAAGT
*
22445418 GATGTTCCGAGGAGAAGT
1 GATGTTCCCAGGAGAAGT
22445436 GATGTT
1 GATGTT
22445442 GGGAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.36, T:0.26
Consensus pattern (18 bp):
GATGTTCCCAGGAGAAGT
Found at i:22450037 original size:18 final size:18
Alignment explanation
Indices: 22450007--22450051 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
22449997 AATTTTATCT
22450007 ATAAATAATAT-TATATT-
1 ATAAATAATATAT-TATTA
22450024 A-AAATAATATATTATTA
1 ATAAATAATATATTATTA
22450041 ATAAATAATAT
1 ATAAATAATAT
22450052 TACAATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.52
17 3 0.12
18 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATAATATATTATTA
Found at i:22455618 original size:19 final size:17
Alignment explanation
Indices: 22455594--22455628 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
22455584 AATATCTAAA
22455594 AAAATATGTATAAAATATT
1 AAAATAT-TA-AAAATATT
22455613 AAAATATTAAAAATAT
1 AAAATATTAAAAATAT
22455629 AGAGATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAATATTAAAAATATT
Found at i:22456130 original size:24 final size:24
Alignment explanation
Indices: 22456102--22456150 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
22456092 ATAAAAAAAT
22456102 TATTT-TTTAAAATTTATATTTATA
1 TATTTATTT-AAATTTATATTTATA
*
22456126 TATTTATTTAATTTTATATTTATA
1 TATTTATTTAAATTTATATTTATA
22456150 T
1 T
22456151 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTATTTAAATTTATATTTATA
Found at i:22461013 original size:12 final size:12
Alignment explanation
Indices: 22460996--22461052 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
22460986 AAAATTATTT
22460996 TTTAATTTTATA
1 TTTAATTTTATA
22461008 TTTAATTATATATA
1 TTTAATT-T-TATA
*
22461022 TTT-A-TATATA
1 TTTAATTTTATA
22461032 TTTAATTTTATA
1 TTTAATTTTATA
22461044 TTTATATTT
1 TTTA-ATTT
22461053 AAAATAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 17 0.45
13 6 0.16
14 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:22461032 original size:10 final size:10
Alignment explanation
Indices: 22461002--22461050 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
22460992 ATTTTTTAAT
*
22461002 TTTATATTTA
1 TTTATATATA
*
22461012 ATTATATATA
1 TTTATATATA
22461022 TTTATATATA
1 TTTATATATA
*
22461032 TTTAATTTTATA
1 TTT-A-TATATA
22461044 TTTATAT
1 TTTATAT
22461051 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 22 0.69
11 2 0.06
12 8 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTATATATA
Found at i:22461033 original size:24 final size:22
Alignment explanation
Indices: 22461004--22461050 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 22
22460994 TTTTTAATTT
22461004 TATATTTAATTATATATATTTATA
1 TATATTTAATT-T-TATATTTATA
22461028 TATATTTAATTTTATATTTATA
1 TATATTTAATTTTATATTTATA
22461050 T
1 T
22461051 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.48
23 1 0.04
24 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTTAATTTTATATTTATA
Found at i:22461749 original size:16 final size:14
Alignment explanation
Indices: 22461718--22461746 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22461708 AAAAATTTTC
22461718 ATATATTTTTTAAA
1 ATATATTTTTTAAA
22461732 ATATATTTTTTAAA
1 ATATATTTTTTAAA
22461746 A
1 A
22461747 AATTTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATTTTTTAAA
Found at i:22470816 original size:2 final size:2
Alignment explanation
Indices: 22470809--22470836 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22470799 ATCCAAAGCA
22470809 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
22470837 GGTGTACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22475596 original size:17 final size:18
Alignment explanation
Indices: 22475574--22475608 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22475564 TTTATTTTAG
22475574 ATTTGTTATTGGG-TTTT
1 ATTTGTTATTGGGCTTTT
*
22475591 ATTTGTTTTTGGGCTTTT
1 ATTTGTTATTGGGCTTTT
22475609 GTGTATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.09, C:0.03, G:0.23, T:0.66
Consensus pattern (18 bp):
ATTTGTTATTGGGCTTTT
Found at i:22487370 original size:19 final size:18
Alignment explanation
Indices: 22487339--22487374 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22487329 ATTATTTTAA
*
22487339 TATAAATATATTATTATT
1 TATAAAAATATTATTATT
22487357 TATAAAAATCATTATTAT
1 TATAAAAAT-ATTATTAT
22487375 ACAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAAAAATATTATTATT
Found at i:22492719 original size:15 final size:16
Alignment explanation
Indices: 22492701--22492736 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
22492691 ACGCTTAAGG
22492701 ATAAAAG-AAAAAATT
1 ATAAAAGTAAAAAATT
*
22492716 ATAAAAGTTAAAAATT
1 ATAAAAGTAAAAAATT
22492732 ATAAA
1 ATAAA
22492737 TATCCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
ATAAAAGTAAAAAATT
Found at i:22493633 original size:13 final size:13
Alignment explanation
Indices: 22493617--22493641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22493607 TTTAATTTTT
22493617 AATTTTAATATAA
1 AATTTTAATATAA
22493630 AATTTTAATATA
1 AATTTTAATATA
22493642 TTTAAGTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTTAATATAA
Found at i:22503385 original size:161 final size:161
Alignment explanation
Indices: 22503120--22503447 Score: 595
Period size: 161 Copynumber: 2.0 Consensus size: 161
22503110 AAGTCTTACA
*
22503120 GTTATTTTATACAACTTTGCTTTCAACTTTAAAGACATGTTGCGATCACACAATACACCGAATGC
1 GTTATTTTATACAACTTTGCTTTCAACTTTAAAGACATGTTGCGATCACACAATACACCGAACGC
22503185 ACTTCGCCATCTCACCCATCTTGCTTGAATCCTATGCTTGACATCCATTTCTATCTTAGTATCAC
66 ACTTCGCCATCTCACCCATCTTGCTTGAATCCTATGCTTGACATCCATTTCTATCTTAGTATCAC
22503250 TCAGAATAATTGATCCCAAATATTGAAACTG
131 TCAGAATAATTGATCCCAAATATTGAAACTG
* *
22503281 GTTATTTTATACAACTTTGCTTTTAACTTTAAAGACATGTTGCGATCACACAATACACCTAACGC
1 GTTATTTTATACAACTTTGCTTTCAACTTTAAAGACATGTTGCGATCACACAATACACCGAACGC
*
22503346 ACTTCGTCATCTCACCCAT-TCTGCTTGAATCCTATGCTTGACATCCATTTCTATCTTAGTATCA
66 ACTTCGCCATCTCACCCATCT-TGCTTGAATCCTATGCTTGACATCCATTTCTATCTTAGTATCA
*
22503410 CTCTGAATAATTGATCCCAAATATTGAAACTG
130 CTCAGAATAATTGATCCCAAATATTGAAACTG
22503442 GTTATT
1 GTTATT
22503448 CTTTGGTACT
Statistics
Matches: 161, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
160 1 0.01
161 160 0.99
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (161 bp):
GTTATTTTATACAACTTTGCTTTCAACTTTAAAGACATGTTGCGATCACACAATACACCGAACGC
ACTTCGCCATCTCACCCATCTTGCTTGAATCCTATGCTTGACATCCATTTCTATCTTAGTATCAC
TCAGAATAATTGATCCCAAATATTGAAACTG
Found at i:22515373 original size:32 final size:32
Alignment explanation
Indices: 22515332--22515394 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
22515322 CACTGGAAAC
22515332 ATAGAAATTCATTAATTAATGATGCAGCATTG
1 ATAGAAATTCATTAATTAATGATGCAGCATTG
22515364 ATAGAAATTCATTAATTAATGATGCAGCATT
1 ATAGAAATTCATTAATTAATGATGCAGCATT
22515395 ACACAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (32 bp):
ATAGAAATTCATTAATTAATGATGCAGCATTG
Found at i:22520286 original size:21 final size:21
Alignment explanation
Indices: 22520245--22520294 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
22520235 ATTAGTTTTT
* *
22520245 AAATTTTGAAATTTTTTAATA
1 AAATTTTGAAATATTTAAATA
22520266 AAATTTT-AATATATTTAAAT-
1 AAATTTTGAA-ATATTTAAATA
*
22520286 ATATTTTGA
1 AAATTTTGA
22520295 TATAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
AAATTTTGAAATATTTAAATA
Done.