Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 86 of 113
Found at i:17922409 original size:15 final size:15
Alignment explanation
Indices: 17922389--17922440 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
17922379 CCATATACTT
*
17922389 AAATTAGTTTATTTC
1 AAATTAGTTTATTTG
*
17922404 AAATTA-ATTATTATTG
1 AAATTAGTTTA-T-TTG
*
17922420 AGATTAGTTTATTTG
1 AAATTAGTTTATTTG
17922435 AAATTA
1 AAATTA
17922441 ATAGGGAGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 8 0.28
17 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (15 bp):
AAATTAGTTTATTTG
Found at i:17924890 original size:12 final size:11
Alignment explanation
Indices: 17924858--17924901 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
17924848 TTATTAACTA
17924858 TATTGATTTTTT
1 TATTGA-TTTTT
*
17924870 TGTTGATTTTT
1 TATTGATTTTT
17924881 TATTGCATTTTT
1 TATTG-ATTTTT
17924893 TATTG-TTTT
1 TATTGATTTT
17924902 CTTTAACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.14
11 9 0.31
12 16 0.55
ACGTcount: A:0.14, C:0.02, G:0.11, T:0.73
Consensus pattern (11 bp):
TATTGATTTTT
Found at i:17927996 original size:3 final size:3
Alignment explanation
Indices: 17927990--17928014 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17927980 ATAATAATAA
17927990 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
17928015 TTCCTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17928066 original size:3 final size:3
Alignment explanation
Indices: 17928058--17928097 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
17928048 TATTGATGCC
17928058 ATT ATT ATT A-T ATT A-T ATT A-T ATT A-T ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17928098 GTTTTTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:17928073 original size:5 final size:5
Alignment explanation
Indices: 17928058--17928094 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
17928048 TATTGATGCC
17928058 ATTATT ATTAT ATTAT ATTAT ATTAT ATTATT ATTAT
1 ATTA-T ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT
17928095 TATGTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTAT
Found at i:17939589 original size:47 final size:46
Alignment explanation
Indices: 17939469--17939632 Score: 161
Period size: 48 Copynumber: 3.5 Consensus size: 46
17939459 GCTTTATTCT
* *** * * *
17939469 AAAAAAAGAAAGTTCAAGTTAAAAACTTGAAAGGACGACTTAAACCCG
1 AAAAAAA-AAAGTTCAAGTTGAAAACCCAAAAGGAC-AGTTTAACCTG
* *
17939517 AAAAAAAAAGAGTTCAAGTTAAAAACCCAAAAGGATAGTTTGAACCTG
1 AAAAAAAAA-AGTTCAAGTTGAAAACCCAAAAGGACAGTTT-AACCTG
* ** *
17939565 AAAAAAAAAAGTTCAAATTGAAAACCTGAAAGGACAGTTTAAACT-
1 AAAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGACAGTTTAACCTG
17939610 -AAAAAAAAAGTTCAAGTTGAAAA
1 AAAAAAAAAAGTTCAAGTTGAAAA
17939633 TTCGAAAAGG
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
44 22 0.22
46 4 0.04
47 31 0.31
48 43 0.43
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (46 bp):
AAAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGACAGTTTAACCTG
Found at i:17941001 original size:3 final size:3
Alignment explanation
Indices: 17940993--17941065 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
17940983 TAAATGTCAC
17940993 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
17941041 TGT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
17941066 TTCTTTTTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17942033 original size:18 final size:17
Alignment explanation
Indices: 17942007--17942052 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
17941997 ATCACAAGTT
*
17942007 TTTTCTTTTTCATTTTA
1 TTTTATTTTTCATTTTA
*
17942024 CTTTTATTTTTTGATTTTA
1 -TTTTA-TTTTTCATTTTA
17942043 TTTTATTTTT
1 TTTTATTTTT
17942053 AACCCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 9 0.36
19 11 0.44
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTCATTTTA
Found at i:17942034 original size:19 final size:18
Alignment explanation
Indices: 17942012--17942052 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
17942002 AAGTTTTTTC
17942012 TTTTTCATTTTACTTTTAT
1 TTTTTCATTTTA-TTTTAT
*
17942031 TTTTTGATTTTATTTTAT
1 TTTTTCATTTTATTTTAT
17942049 TTTT
1 TTTT
17942053 AACCCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTCATTTTATTTTAT
Found at i:17944987 original size:93 final size:93
Alignment explanation
Indices: 17944828--17945001 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
17944818 CTACATATCC
* * * **
17944828 TATTATACATTTAAAAATTGTATCAATAATTTAAATTATATAAACTTTGAGGAAGGATAATTTTG
1 TATTATACATTCAAAAATTATATCAATAATTTAAATTATATAAACTTTAAAAAAGGATAATTTTG
17944893 ACCAATAAATAAATTATCCTATATGTCT
66 ACCAATAAATAAATTATCCTATATGTCT
* *
17944921 TATTATACATTCAAAAATTATATCAATAATTTAAATTATATAAATTTTAAAAAATGATAATTTTG
1 TATTATACATTCAAAAATTATATCAATAATTTAAATTATATAAACTTTAAAAAAGGATAATTTTG
*
17944986 ACTAATAAATAAATTA
66 ACCAATAAATAAATTA
17945002 GTTTATCATA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (93 bp):
TATTATACATTCAAAAATTATATCAATAATTTAAATTATATAAACTTTAAAAAAGGATAATTTTG
ACCAATAAATAAATTATCCTATATGTCT
Found at i:17945732 original size:49 final size:49
Alignment explanation
Indices: 17945660--17945756 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
17945650 CTTCTTAAAA
* *
17945660 TTTTTATTTTATCTTTTATTCATAT-AAATACAAATATGAGTTTTGAAAG
1 TTTTTATTTTATCTCTCATTCATATGAAA-ACAAATATGAGTTTTGAAAG
* *
17945709 TTTTTGTTTTATCTCTCATTCATATGAAAATAAATATGAGTTTTGAAA
1 TTTTTATTTTATCTCTCATTCATATGAAAACAAATATGAGTTTTGAAA
17945757 AATGTAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 40 0.93
50 3 0.07
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.49
Consensus pattern (49 bp):
TTTTTATTTTATCTCTCATTCATATGAAAACAAATATGAGTTTTGAAAG
Found at i:17947128 original size:49 final size:49
Alignment explanation
Indices: 17947051--17947155 Score: 165
Period size: 49 Copynumber: 2.1 Consensus size: 49
17947041 TCAGTTAATT
* * **
17947051 TCGGTTTGCATTCTATAGTTGGTCGGTTTGGTTTTCGCAATTGATGAAG
1 TCGGTTTGCATTCTATAGTTGGTCGGTTTAGTTTTCCCAACAGATGAAG
*
17947100 TCGGTTTGCATTCTATAGTTGGTTGGTTTAGTTTTCCCAACAGATGAAG
1 TCGGTTTGCATTCTATAGTTGGTCGGTTTAGTTTTCCCAACAGATGAAG
17947149 TCGGTTT
1 TCGGTTT
17947156 AGTAACTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.43
Consensus pattern (49 bp):
TCGGTTTGCATTCTATAGTTGGTCGGTTTAGTTTTCCCAACAGATGAAG
Found at i:17949433 original size:22 final size:22
Alignment explanation
Indices: 17949389--17949433 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17949379 GCCACTGATG
**
17949389 TATTAACTTTTAGCATTTGTTT
1 TATTAACTTTTAGCATTCATTT
17949411 TATTAACTTTTAGC-TCTCATTT
1 TATTAACTTTTAGCAT-TCATTT
17949433 T
1 T
17949434 GCCAAGGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (22 bp):
TATTAACTTTTAGCATTCATTT
Found at i:17952242 original size:2 final size:2
Alignment explanation
Indices: 17952235--17952279 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
17952225 TACCCCTGCC
* * *
17952235 CT CT CT CT CT CT CT CT CT CT GT CT CT GT CT CT CT GT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17952277 CT C
1 CT C
17952280 CTTTGCTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.44, G:0.07, T:0.49
Consensus pattern (2 bp):
CT
Found at i:17954676 original size:3 final size:3
Alignment explanation
Indices: 17954668--17954696 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17954658 ACTGCTAGTA
17954668 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
17954697 CCATAGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17955602 original size:40 final size:41
Alignment explanation
Indices: 17955539--17955621 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
17955529 TTTATTTGTG
* * * *
17955539 TCCATAATTTGCTCGATACACATTTT-TATGACAAAAGTAT
1 TCCATAATTTGCTCAATAAACATTTTCCATGACAAAAATAT
*
17955579 TCCATAATTTGTTCAATAAACATTTTCCATGACAAAAATAT
1 TCCATAATTTGCTCAATAAACATTTTCCATGACAAAAATAT
17955620 TC
1 TC
17955622 TTAAAGTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 23 0.62
41 14 0.38
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.37
Consensus pattern (41 bp):
TCCATAATTTGCTCAATAAACATTTTCCATGACAAAAATAT
Found at i:17961414 original size:2 final size:2
Alignment explanation
Indices: 17961407--17961431 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17961397 CATACCTTTC
17961407 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 A
17961432 CACACACATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17962087 original size:100 final size:100
Alignment explanation
Indices: 17961909--17962108 Score: 303
Period size: 100 Copynumber: 2.0 Consensus size: 100
17961899 TTCCCAAACA
** *
17961909 GTTTTATTTTGACAAGTTTGATTGCTACAATAGCTATACCTTATTTAGGACTTAATATTAACAAA
1 GTTTTATTTTGACAAGTTTGATAACTACAACAGCTATACCTTATTTAGGACTTAATATTAACAAA
*
17961974 GTTTGAATAAGAAAGCT-AAGATTATGTTGGTGGAT
66 GTTTGAATAAGAAAGCTGAA-ATTATGTTGATGGAT
* * *
17962009 GTTTTATTTTGATAGGTTTGATAACTACAACATCTATACCTTATTTAGGACTTAATATTAACAAA
1 GTTTTATTTTGACAAGTTTGATAACTACAACAGCTATACCTTATTTAGGACTTAATATTAACAAA
* *
17962074 GTTTGGATGAGAAAGCTGAAATTATGTTGATGGAT
66 GTTTGAATAAGAAAGCTGAAATTATGTTGATGGAT
17962109 CAAACATATG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 88 0.98
101 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (100 bp):
GTTTTATTTTGACAAGTTTGATAACTACAACAGCTATACCTTATTTAGGACTTAATATTAACAAA
GTTTGAATAAGAAAGCTGAAATTATGTTGATGGAT
Found at i:17962317 original size:29 final size:30
Alignment explanation
Indices: 17962284--17962351 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
17962274 GATTTTACAT
* *
17962284 ATAAGCTATGCTAAAACTTAGGTTGCT-TC
1 ATAAGCTATGCTAAAACTTAGATTACTCTC
* * *
17962313 ATAAGCTATGTTGAAACTTAGATTATTCTC
1 ATAAGCTATGCTAAAACTTAGATTACTCTC
17962343 ATAAGCTAT
1 ATAAGCTAT
17962352 ATGCTGAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (30 bp):
ATAAGCTATGCTAAAACTTAGATTACTCTC
Found at i:17963346 original size:2 final size:2
Alignment explanation
Indices: 17963339--17963364 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17963329 CAAATAGGTT
17963339 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
17963365 AATTTGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17965886 original size:86 final size:86
Alignment explanation
Indices: 17965786--17965959 Score: 294
Period size: 86 Copynumber: 2.0 Consensus size: 86
17965776 TTCCAAATAA
* * * *
17965786 TAGTATCAGAGATAGGTTGATTTAGATTCTAAAAAGTTAAAGTTGTTTGGTTGTTCTCGATATCA
1 TAGTATCAAAGATAGGTTGATTTAGATTATAAAAACTTAAAGTTGTTTAGTTGTTCTCGATATCA
17965851 AAAACTATTTTGATTACAATC
66 AAAACTATTTTGATTACAATC
* *
17965872 TAGTATTAAAGATAGGTTGATTTAGATTATAAAAACTTAAAGTTGTTTAGTTTTTCTCGATATCA
1 TAGTATCAAAGATAGGTTGATTTAGATTATAAAAACTTAAAGTTGTTTAGTTGTTCTCGATATCA
17965937 AAAACTATTTTGATTACAATC
66 AAAACTATTTTGATTACAATC
17965958 TA
1 TA
17965960 TCCATTGTGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.41
Consensus pattern (86 bp):
TAGTATCAAAGATAGGTTGATTTAGATTATAAAAACTTAAAGTTGTTTAGTTGTTCTCGATATCA
AAAACTATTTTGATTACAATC
Found at i:17970602 original size:43 final size:43
Alignment explanation
Indices: 17970531--17970612 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
17970521 ATAAAAAACA
* * *
17970531 TAAACGAACTTTGTGTATACAATAAGACTAGTGGGAGTGAACG
1 TAAACGAACCTTGTGTATACAAGAAGACTAGAGGGAGTGAACG
*
17970574 TAAATGAACCTTGTGTATACAAGAAGACTAGAGGGAGTG
1 TAAACGAACCTTGTGTATACAAGAAGACTAGAGGGAGTG
17970613 TAATCATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (43 bp):
TAAACGAACCTTGTGTATACAAGAAGACTAGAGGGAGTGAACG
Found at i:17975221 original size:22 final size:21
Alignment explanation
Indices: 17975193--17975234 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17975183 GCTTTCATTA
17975193 TTAATTTCCAATATAATTGTTG
1 TTAATTT-CAATATAATTGTTG
* *
17975215 TTAATTTTAATATAGTTGTT
1 TTAATTTCAATATAATTGTT
17975235 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TTAATTTCAATATAATTGTTG
Found at i:17975228 original size:21 final size:19
Alignment explanation
Indices: 17975202--17975241 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
17975192 ATTAATTTCC
17975202 AATATAATTGTTGTTAATTTT
1 AATATAATTG-T-TTAATTTT
*
17975223 AATATAGTTGTTTAATTTT
1 AATATAATTGTTTAATTTT
17975242 TTAGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
AATATAATTGTTTAATTTT
Found at i:17985718 original size:19 final size:19
Alignment explanation
Indices: 17985694--17985733 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17985684 ATGACTGTTC
*
17985694 CTTTTTTTTTTCTCTTTTT
1 CTTTTTTTTTTCTATTTTT
*
17985713 CTTTTTTTTTTTTATTTTT
1 CTTTTTTTTTTCTATTTTT
17985732 CT
1 CT
17985734 CAATTTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (19 bp):
CTTTTTTTTTTCTATTTTT
Found at i:17986042 original size:11 final size:11
Alignment explanation
Indices: 17986026--17986051 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17986016 TCTGTCTTTA
17986026 TTTTTTTTCAT
1 TTTTTTTTCAT
17986037 TTTTTTTTCAT
1 TTTTTTTTCAT
17986048 TTTT
1 TTTT
17986052 ATATTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:17990011 original size:18 final size:18
Alignment explanation
Indices: 17989984--17990025 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17989974 TCTCACTATC
*
17989984 ATTATAATTAATTTTAAT
1 ATTATCATTAATTTTAAT
*
17990002 ATTATCATTATTTTTAAT
1 ATTATCATTAATTTTAAT
*
17990020 TTTATC
1 ATTATC
17990026 GAAATGAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTATCATTAATTTTAAT
Found at i:17992557 original size:2 final size:2
Alignment explanation
Indices: 17992550--17992595 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
17992540 CAAAATTAAA
17992550 AG AG AG 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 AG AG AG
17992592 AG AG
1 AG AG
17992596 TTATCTGTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17994757 original size:24 final size:24
Alignment explanation
Indices: 17994730--17994789 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
17994720 GTTTCAGGAA
*
17994730 AAGCACCGCCACC-TGTGTCAGCAC
1 AAGCACCACCACCAT-TGTCAGCAC
* *
17994754 AAGCATCACCACCATTGTTAGCAC
1 AAGCACCACCACCATTGTCAGCAC
17994778 AAGC-CTCACCAC
1 AAGCAC-CACCAC
17994790 AACTACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.30, C:0.40, G:0.15, T:0.15
Consensus pattern (24 bp):
AAGCACCACCACCATTGTCAGCAC
Found at i:18004990 original size:3 final size:3
Alignment explanation
Indices: 18004982--18005063 Score: 71
Period size: 3 Copynumber: 28.3 Consensus size: 3
18004972 TTGCATAAAA
* * * * *
18004982 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC ATC ATC ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
18005030 ATC ATC ATT ATC ATT A-T ATT -TT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18005064 ATAATTTCCC
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
2 6 0.08
3 66 0.92
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:18008317 original size:20 final size:20
Alignment explanation
Indices: 18008294--18008334 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18008284 TATTTGTTTG
*
18008294 TGCACAGGATTATTGAAGCT
1 TGCACAGGATTATTAAAGCT
*
18008314 TGCATAGGATTATTAAAGCT
1 TGCACAGGATTATTAAAGCT
18008334 T
1 T
18008335 AGGGTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (20 bp):
TGCACAGGATTATTAAAGCT
Found at i:18012117 original size:16 final size:16
Alignment explanation
Indices: 18012092--18012126 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18012082 ATATAAGCTC
* *
18012092 ATACCTATTGTTATAG
1 ATACCAATTGTTAAAG
18012108 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
18012124 ATA
1 ATA
18012127 TGTTATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:18018543 original size:3 final size:3
Alignment explanation
Indices: 18018535--18018600 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
18018525 AACACAAGCA
18018535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18018583 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
18018601 GGGTGTTCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18021526 original size:6 final size:6
Alignment explanation
Indices: 18021515--18021550 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
18021505 AATAAAATAA
* *
18021515 TTTCTT TTTCTT TTTCTT TTTCTC TTTCTG TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
18021551 CTCTATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:18021548 original size:24 final size:24
Alignment explanation
Indices: 18021515--18021563 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
18021505 AATAAAATAA
* *
18021515 TTTCTTTTTCTTTTTCT-TTTTCTC
1 TTTCTGTTTC-TTCTCTATTTTCTC
18021539 TTTCTGTTTCTTCTCTATTTTCTC
1 TTTCTGTTTCTTCTCTATTTTCTC
18021563 T
1 T
18021564 CTCATTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCTGTTTCTTCTCTATTTTCTC
Found at i:18022569 original size:26 final size:29
Alignment explanation
Indices: 18022512--18022566 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
18022502 ATATTTTAAA
* *
18022512 TATTTCAATAATAAATAGTATTATATTAT
1 TATTTCAATAATAAATAATATAATATTAT
*
18022541 TATTTTAATAATAAATAATA-AATATT
1 TATTTCAATAATAAATAATATAATATT
18022567 TATATAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TATTTCAATAATAAATAATATAATATTAT
Found at i:18022569 original size:29 final size:29
Alignment explanation
Indices: 18022498--18022569 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
18022488 ATTATTAGAC
*
18022498 ATAAATATTTTAAATATTTCAATAATAAATA
1 ATAAATA-TTT-ATTATTTCAATAATAAATA
* * *
18022529 GT-ATTATATTATTATTTTAATAATAAATA
1 ATAAATAT-TTATTATTTCAATAATAAATA
18022558 ATAAATATTTAT
1 ATAAATATTTAT
18022570 ATAGTAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
29 23 0.70
30 9 0.27
31 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
ATAAATATTTATTATTTCAATAATAAATA
Found at i:18022597 original size:18 final size:18
Alignment explanation
Indices: 18022576--18022634 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
18022566 TTATATAGTA
*
18022576 AATAAATTTTATTATTTT
1 AATAAATTATATTATTTT
*
18022594 AAT-AATTAATATT-GTTT
1 AATAAATT-ATATTATTTT
*
18022611 AATAAAATAATATTATTTT
1 AAT-AAATTATATTATTTT
18022630 AATAA
1 AATAA
18022635 TATGACTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 10 0.30
18 14 0.42
19 9 0.27
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATAAATTATATTATTTT
Found at i:18022919 original size:19 final size:19
Alignment explanation
Indices: 18022854--18022924 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
18022844 TATTTTAAAA
*
18022854 TATTAATATAAATAATTATT
1 TATTAAAATAAATAA-TATT
* * *
18022874 TA--ACATTAAATATTATT
1 TATTAAAATAAATAATATT
*
18022891 TATTAAAATACATAATATT
1 TATTAAAATAAATAATATT
18022910 TA-TAACAATAAATAA
1 TATTAA-AATAAATAA
18022925 GTTCAATATT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
17 6 0.15
18 10 0.26
19 21 0.54
20 2 0.05
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTAAAATAAATAATATT
Found at i:18023219 original size:3 final size:3
Alignment explanation
Indices: 18023211--18023245 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18023201 TATAATGATT
18023211 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18023246 TTGTGAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18024364 original size:18 final size:17
Alignment explanation
Indices: 18024343--18024397 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
18024333 AAAATTTTTA
18024343 AAAAATACTTTTTCATTC
1 AAAAATACTTTTT-ATTC
18024361 AAAAAT--TTTTTA---
1 AAAAATACTTTTTATTC
18024373 AAAAATACTTTTTAATTC
1 AAAAATACTTTTT-ATTC
18024391 AAAAATA
1 AAAAATA
18024398 AAAAAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
12 6 0.19
14 5 0.16
15 2 0.06
16 5 0.16
18 13 0.42
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATACTTTTTATTC
Found at i:18024373 original size:30 final size:30
Alignment explanation
Indices: 18024327--18024396 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
18024317 ATAAATAGAA
18024327 AATTCAAAAA-TTTTTAAAAAATACTTTTT
1 AATTCAAAAATTTTTTAAAAAATACTTTTT
*
18024356 CATTCAAAAATTTTTTAAAAAATACTTTTT
1 AATTCAAAAATTTTTTAAAAAATACTTTTT
18024386 AATTCAAAAAT
1 AATTCAAAAAT
18024397 AAAAAAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (30 bp):
AATTCAAAAATTTTTTAAAAAATACTTTTT
Found at i:18024384 original size:14 final size:14
Alignment explanation
Indices: 18024337--18024387 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
18024327 AATTCAAAAA
18024337 TTTTTAAAAAATAC
1 TTTTTAAAAAATAC
18024351 TTTTTCATTCAAAAAT--
1 TTTTT-A---AAAAATAC
18024367 TTTTTAAAAAATAC
1 TTTTTAAAAAATAC
18024381 TTTTTAA
1 TTTTTAA
18024388 TTCAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
12 6 0.19
14 12 0.39
15 2 0.06
16 5 0.16
18 6 0.19
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTTAAAAAATAC
Found at i:18025182 original size:6 final size:6
Alignment explanation
Indices: 18025167--18025199 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18025157 ATCATCGAAA
*
18025167 TTTA-T TTTATT TTTATT TTTATT TCTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
18025200 AATTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:18027476 original size:19 final size:19
Alignment explanation
Indices: 18027431--18027495 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
18027421 TAAAAATAGC
* *
18027431 TTTTAAAATTTAAAATTAA
1 TTTTAAAAGTTCAAATTAA
* *
18027450 -TTTAAAAATTCAAATTATT
1 TTTTAAAAGTTCAAATTA-A
*
18027469 TTTTAAAAGTTC-AATATCA
1 TTTTAAAAGTTCAAAT-TAA
18027488 TTTTAAAA
1 TTTTAAAA
18027496 CAAAAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 15 0.41
19 11 0.30
20 11 0.30
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTTAAAAGTTCAAATTAA
Found at i:18028523 original size:22 final size:22
Alignment explanation
Indices: 18028498--18028540 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18028488 TATTAAACTG
*
18028498 AAAAGATAAATAAATTATAAAT
1 AAAAGAAAAATAAATTATAAAT
* *
18028520 AAAATAAAAATAAATTTTAAA
1 AAAAGAAAAATAAATTATAAA
18028541 CCTCAGACAA
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:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAGAAAAATAAATTATAAAT
Found at i:18031598 original size:31 final size:31
Alignment explanation
Indices: 18031511--18031578 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
18031501 TCAAAATTAC
*
18031511 ATATCATTTTCAA-AAA-TAAATTAAAATTTTT
1 ATATCAGTTT-AAGAAATTAAA-TAAAATTTTT
18031542 ATATCAGTTTAAGAAATTAAATAAAATTTTT
1 ATATCAGTTTAAGAAATTAAATAAAATTTTT
18031573 ATATCA
1 ATATCA
18031579 TATTAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.06
31 28 0.82
32 4 0.12
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (31 bp):
ATATCAGTTTAAGAAATTAAATAAAATTTTT
Found at i:18031722 original size:14 final size:14
Alignment explanation
Indices: 18031705--18031735 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18031695 CTTTTTTCTT
18031705 TTTTATAAAACATA
1 TTTTATAAAACATA
*
18031719 TTTTATAAAATATA
1 TTTTATAAAACATA
18031733 TTT
1 TTT
18031736 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:18032262 original size:19 final size:21
Alignment explanation
Indices: 18032219--18032262 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
18032209 ATTAAAAGTT
18032219 TTTAAAATTTAAAAACTAAAA
1 TTTAAAATTTAAAAACTAAAA
*
18032240 --TAAAATTT-AAATC-AAAA
1 TTTAAAATTTAAAAACTAAAA
18032257 TTTAAA
1 TTTAAA
18032263 TATTACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 12 0.60
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAATTTAAAAACTAAAA
Found at i:18039730 original size:3 final size:3
Alignment explanation
Indices: 18039724--18039752 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18039714 ATTATTATTA
18039724 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
18039753 TTTTAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:18053528 original size:14 final size:13
Alignment explanation
Indices: 18053498--18053557 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
18053488 CTCGTAGGTT
18053498 TTTTTCTTTGTTTA
1 TTTTT-TTTGTTTA
18053512 TTTTTTTTGTTTGA
1 TTTTTTTTGTTT-A
*
18053526 TTTTTTAAT-TTTA
1 TTTTTT-TTGTTTA
*
18053539 -TTTTTTAGTTTCA
1 TTTTTTTTGTTT-A
18053552 TTTTTT
1 TTTTTT
18053558 AATATTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
12 8 0.21
13 9 0.24
14 20 0.53
15 1 0.03
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTTGTTTA
Found at i:18053538 original size:27 final size:28
Alignment explanation
Indices: 18053508--18053573 Score: 91
Period size: 26 Copynumber: 2.4 Consensus size: 28
18053498 TTTTTCTTTG
* *
18053508 TTTATTTTTTTTGTTTGATTTTTTAAT-
1 TTTATTTTTTTAGTTTCATTTTTTAATA
18053535 TTTA-TTTTTTAGTTTCATTTTTTAATA
1 TTTATTTTTTTAGTTTCATTTTTTAATA
*
18053562 TTTATTATTTTA
1 TTTATTTTTTTA
18053574 AATGGTTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.59
27 8 0.24
28 6 0.18
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (28 bp):
TTTATTTTTTTAGTTTCATTTTTTAATA
Found at i:18053558 original size:13 final size:13
Alignment explanation
Indices: 18053513--18053558 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
18053503 CTTTGTTTAT
* *
18053513 TTTTTTTGTTTGA
1 TTTTTTAGTTTCA
* *
18053526 TTTTTTAATTTTA
1 TTTTTTAGTTTCA
18053539 TTTTTTAGTTTCA
1 TTTTTTAGTTTCA
18053552 TTTTTTA
1 TTTTTTA
18053559 ATATTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTTTAGTTTCA
Found at i:18053796 original size:20 final size:20
Alignment explanation
Indices: 18053739--18053813 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
18053729 TAATTACATG
* *
18053739 ATTATATGTAATTGCATGAT
1 ATTATATATTATTGCATGAT
*
18053759 AATTA-ATA-TATTTACATGAT
1 -ATTATATATTA-TTGCATGAT
18053779 ATTATATATTATTGCATGAT
1 ATTATATATTATTGCATGAT
*
18053799 ATT-TATACTATTGCA
1 ATTATATATTATTGCA
18053814 CTATTTGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 16 0.35
20 24 0.52
21 6 0.13
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTATATATTATTGCATGAT
Found at i:18057494 original size:22 final size:22
Alignment explanation
Indices: 18057468--18057509 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18057458 CAATTTAAGT
18057468 TTTCTTTTAAATTCAAGTTTTA
1 TTTCTTTTAAATTCAAGTTTTA
* *
18057490 TTTCTTTTCAATTCTAGTTT
1 TTTCTTTTAAATTCAAGTTT
18057510 AAAGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTCTTTTAAATTCAAGTTTTA
Found at i:18059198 original size:15 final size:14
Alignment explanation
Indices: 18059171--18059197 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18059161 TTTTCCCCAA
18059171 AAATTGATTTTTTG
1 AAATTGATTTTTTG
18059185 AAATTGATTTTTT
1 AAATTGATTTTTT
18059198 TAAGGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
AAATTGATTTTTTG
Found at i:18059217 original size:60 final size:62
Alignment explanation
Indices: 18059143--18059280 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 62
18059133 TTGTGCAGGA
* *
18059143 AAAATTGATGCTTTCAACTTTTCCC-CAAAAA-TTGATTTTTTG-AAATTGATT-TTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAAATTTGATTTTTTGAAAATT--TTATTTTTAAGG
**
18059203 AAAATTGATACTTTCAACTTTTCCCAAAAAAATTTTTTTTTTTTGAAAATTTTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAAA-TTTGATTTTTTGAAAATTTT-ATTTTTAAGG
18059267 AAAATTGATACTTT
1 AAAATTGATACTTT
18059281 TACTTTCTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
60 24 0.35
61 5 0.07
62 2 0.03
63 9 0.13
64 28 0.41
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (62 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAAATTTGATTTTTTGAAAATTTTATTTTTAAGG
Found at i:18059340 original size:19 final size:19
Alignment explanation
Indices: 18059316--18059358 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
18059306 AAACTTTGAT
18059316 TTTCAAAGAAAATTGATAC
1 TTTCAAAGAAAATTGATAC
*
18059335 TTTC-AAGGAAATTGATAC
1 TTTCAAAGAAAATTGATAC
18059353 TTTCAA
1 TTTCAA
18059359 CTTTTCCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
TTTCAAAGAAAATTGATAC
Found at i:18059426 original size:24 final size:24
Alignment explanation
Indices: 18059405--18059479 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 24
18059395 AAAGAAAATT
18059405 AAATAATAAAATAAAATAAAAATGA
1 AAATAA-AAAATAAAATAAAAATGA
18059430 AAATAAAAAATAAAAT--AAA-GA
1 AAATAAAAAATAAAATAAAAATGA
* *
18059451 AAGTAAAACA-AAAATAAAAAT-A
1 AAATAAAAAATAAAATAAAAATGA
18059473 AAATAAA
1 AAATAAA
18059480 GATAAAAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.11
21 10 0.23
22 13 0.30
24 10 0.23
25 6 0.14
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAAAAAATAAAATAAAAATGA
Found at i:18059432 original size:6 final size:5
Alignment explanation
Indices: 18059409--18059486 Score: 59
Period size: 5 Copynumber: 14.4 Consensus size: 5
18059399 AAAATTAAAT
* *
18059409 AATAA AATAA AATAAA AATGAA AATAAAA AATAA AAT-A AAGAA AGTAA
1 AATAA AATAA AAT-AA AAT-AA AAT--AA AATAA AATAA AATAA AATAA
*
18059457 AACAAA AATAAA AATAA AATAA AGATAA AA
1 AA-TAA AAT-AA AATAA AATAA A-ATAA AA
18059487 AGATATTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 3 0.05
5 27 0.46
6 24 0.41
7 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:18059432 original size:7 final size:6
Alignment explanation
Indices: 18059399--18059487 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
18059389 TTATTTAAAG
* *
18059399 AAAATT AAATAAT -AAAAT -AAAAT AAAAAT GAAAAT AAAAA- ATAAAAT
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
* *
18059446 AAAGAA- AGTAAAAC AAAAAT AAAAAT -AAAAT AAAGAT AAAAA
1 AAA-AAT A--AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
18059488 GATATTAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
5 14 0.21
6 44 0.65
7 7 0.10
8 3 0.04
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:18059484 original size:11 final size:11
Alignment explanation
Indices: 18059412--18059486 Score: 75
Period size: 11 Copynumber: 6.8 Consensus size: 11
18059402 ATTAAATAAT
18059412 AAAATAAAATA
1 AAAATAAAATA
18059423 AAAATGAAAATAA
1 AAAAT-AAAAT-A
18059436 AAAATAAAAT-
1 AAAATAAAATA
* *
18059446 -AAAGAAAGTA
1 AAAATAAAATA
18059456 AAACA-AAAATA
1 AAA-ATAAAATA
18059467 AAAATAAAATA
1 AAAATAAAATA
*
18059478 AAGATAAAA
1 AAAATAAAA
18059487 AGATATTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.13
10 1 0.02
11 29 0.54
12 11 0.20
13 6 0.11
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:18059925 original size:11 final size:11
Alignment explanation
Indices: 18059909--18059938 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18059899 ATCTTAGTTT
*
18059909 TTCATCGAAAG
1 TTCATCGAAAA
18059920 TTCATCGAAAA
1 TTCATCGAAAA
18059931 TTCATCGA
1 TTCATCGA
18059939 TTTTTGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (11 bp):
TTCATCGAAAA
Found at i:18060374 original size:15 final size:16
Alignment explanation
Indices: 18060356--18060388 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18060346 TCAAAAAAAG
*
18060356 AAATA-AAAAAATGAA
1 AAATACAAAAAATCAA
18060371 AAATACAAAAAATCAA
1 AAATACAAAAAATCAA
18060387 AA
1 AA
18060389 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AAATACAAAAAATCAA
Found at i:18060424 original size:21 final size:21
Alignment explanation
Indices: 18060390--18060447 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
18060380 AAATCAAAAG
18060390 AAAATAAAT-A-AGATAAATC
1 AAAATAAATAACAGATAAATC
*
18060409 AAAA-AAATTAACAGAT-AATT
1 AAAATAAA-TAACAGATAAATC
18060429 AAAATTAAATAACAGATAA
1 AAAA-TAAATAACAGATAA
18060448 TACATAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 3 0.09
19 5 0.16
20 8 0.25
21 12 0.38
22 4 0.12
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAATAAATAACAGATAAATC
Found at i:18060545 original size:11 final size:10
Alignment explanation
Indices: 18060529--18060577 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 10
18060519 CATAAATACC
18060529 TAAAATATATA
1 TAAAATA-ATA
18060540 TAAAATAATA
1 TAAAATAATA
*
18060550 T-AAATAAAA
1 TAAAATAATA
*
18060559 TAAAATTAAAA
1 TAAAA-TAATA
18060570 TAAAATAA
1 TAAAATAA
18060578 AAATGTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
9 8 0.23
10 10 0.29
11 17 0.49
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAATAATA
Found at i:18060551 original size:14 final size:14
Alignment explanation
Indices: 18060532--18060572 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18060522 AAATACCTAA
18060532 AATATATATAAAAT
1 AATATATATAAAAT
*
18060546 AATATAAATAAAAT
1 AATATATATAAAAT
18060560 AA-A-AT-TAAAAT
1 AATATATATAAAAT
18060571 AA
1 AA
18060573 AATAAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.32
12 1 0.04
13 1 0.04
14 15 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATATATATAAAAT
Found at i:18060568 original size:6 final size:6
Alignment explanation
Indices: 18060546--18060640 Score: 108
Period size: 6 Copynumber: 16.3 Consensus size: 6
18060536 TATATAAAAT
* * * *
18060546 AATATA AAT-AA AAT-AA AATTAA AAT-AA AATAAA AATGTAA AAT-AC
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA AATAAA
*
18060591 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAG AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
18060639 AA
1 AA
18060641 AATGGACTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
5 18 0.23
6 56 0.71
7 5 0.06
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:18060782 original size:77 final size:77
Alignment explanation
Indices: 18060655--18060808 Score: 245
Period size: 77 Copynumber: 2.0 Consensus size: 77
18060645 GACTTACCCA
* *
18060655 TTTGGACCAGGCCCAATTGATACGGGCCTGGACCAAATTAGGTGTCTACAGCTACCCCTCTTTAC
1 TTTGGACCAGGCCCAATTGATACAGGCCTGAACCAAATTAGGTGTCTACAGCTACCCCTCTTTAC
18060720 ACATTTTCTGTG
66 ACATTTTCTGTG
* * * * *
18060732 TTTGGTCCAGGCCCAATTGATTCAGGCCTGAACCAAATTGGGTGTCTACAGCTGCCCCTCTTTGC
1 TTTGGACCAGGCCCAATTGATACAGGCCTGAACCAAATTAGGTGTCTACAGCTACCCCTCTTTAC
18060797 ACATTTTCTGTG
66 ACATTTTCTGTG
18060809 AAACAGAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTGGACCAGGCCCAATTGATACAGGCCTGAACCAAATTAGGTGTCTACAGCTACCCCTCTTTAC
ACATTTTCTGTG
Found at i:18060889 original size:19 final size:18
Alignment explanation
Indices: 18060867--18060906 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18060857 ACCTTTTTAC
18060867 TTTTCATTTTTTTTTTGTT
1 TTTTCA-TTTTTTTTTGTT
*
18060886 TTTTTATTTTTTTTTGTT
1 TTTTCATTTTTTTTTGTT
18060904 TTT
1 TTT
18060907 GATCAAAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.88
Consensus pattern (18 bp):
TTTTCATTTTTTTTTGTT
Found at i:18061012 original size:42 final size:41
Alignment explanation
Indices: 18060914--18061253 Score: 473
Period size: 42 Copynumber: 8.1 Consensus size: 41
18060904 TTTGATCAAA
* * *
18060914 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAGTAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * * *
18060955 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
18060997 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
18061038 GCTCCTCTAAACAAAGGCACCACAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
18061080 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
18061122 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
18061164 GCTCCTCTAAACACAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
18061206 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
18061248 GCTCCT
1 GCTCCT
18061254 TGACAATCAT
Statistics
Matches: 272, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
41 69 0.25
42 198 0.73
43 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:18062270 original size:9 final size:8
Alignment explanation
Indices: 18062256--18062370 Score: 128
Period size: 9 Copynumber: 13.6 Consensus size: 8
18062246 TGAGTCCTCC
18062256 TTTTTCACT
1 TTTTTCA-T
18062265 TTTTTC-T
1 TTTTTCAT
18062272 TTTTT-A-
1 TTTTTCAT
18062278 TTTTTCATT
1 TTTTTCA-T
18062287 TTTTTCATT
1 TTTTTCA-T
18062296 TTTTTCAT
1 TTTTTCAT
18062304 TTTTTCAT
1 TTTTTCAT
18062312 TTTTTCCAT
1 TTTTT-CAT
18062321 TTTTTCAT
1 TTTTTCAT
18062329 TTTTTCATT
1 TTTTTCA-T
18062338 TTTTCATCATT
1 TTTT--TCA-T
18062349 TTTTTCATT
1 TTTTTCA-T
18062358 TTTTTCAT
1 TTTTTCAT
18062366 TTTTT
1 TTTTT
18062371 AAGCATAGTA
Statistics
Matches: 98, Mismatches: 0, Indels: 17
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.05
7 7 0.07
8 30 0.31
9 47 0.48
11 9 0.09
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:18062281 original size:6 final size:7
Alignment explanation
Indices: 18062265--18062340 Score: 55
Period size: 8 Copynumber: 9.7 Consensus size: 7
18062255 CTTTTTCACT
18062265 TTTTTC-
1 TTTTTCA
*
18062271 TTTTTTA
1 TTTTTCA
18062278 TTTTTCA
1 TTTTTCA
18062285 TTTTTTTCA
1 --TTTTTCA
18062294 TTTTTTTCA
1 --TTTTTCA
18062303 TTTTTTCA
1 -TTTTTCA
18062311 TTTTTTCCA
1 -TTTTT-CA
18062320 TTTTTTCA
1 -TTTTTCA
18062328 TTTTTTCA
1 -TTTTTCA
18062336 TTTTT
1 TTTTT
18062341 TCATCATTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
6 5 0.08
7 11 0.17
8 24 0.38
9 24 0.38
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:18062291 original size:17 final size:16
Alignment explanation
Indices: 18062256--18062370 Score: 88
Period size: 17 Copynumber: 6.8 Consensus size: 16
18062246 TGAGTCCTCC
* *
18062256 TTTTTCACTTTTTTCT
1 TTTTTCATTTTTTTTT
**
18062272 TTTTT-ATTTTTCATT
1 TTTTTCATTTTTTTTT
*
18062287 TTTTTCATTTTTTTCAT
1 TTTTTCATTTTTTT-TT
**
18062304 TTTTTCATTTTTTCCAT
1 TTTTTCATTTTTT-TTT
18062321 TTTTTCATTTTTTCATTT
1 TTTTTCATTTTTT--TTT
*
18062339 TTTCATCATTTTTTTCATT
1 TTT-TTCATTTTTTT--TT
18062358 TTTTTCATTTTTT
1 TTTTTCATTTTTT
18062371 AAGCATAGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.14
16 11 0.14
17 30 0.38
18 13 0.16
19 14 0.18
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTTTTTT
Found at i:18062349 original size:11 final size:9
Alignment explanation
Indices: 18062278--18062370 Score: 138
Period size: 9 Copynumber: 10.4 Consensus size: 9
18062268 TTCTTTTTTA
18062278 TTTTTCATT
1 TTTTTCATT
18062287 TTTTTCATT
1 TTTTTCATT
18062296 TTTTTCA-T
1 TTTTTCATT
18062304 TTTTTCATT
1 TTTTTCATT
*
18062313 TTTTCCA-T
1 TTTTTCATT
18062321 TTTTTCA-T
1 TTTTTCATT
18062329 TTTTTCATT
1 TTTTTCATT
18062338 TTTTCATCATT
1 TTTT--TCATT
18062349 TTTTTCATT
1 TTTTTCATT
18062358 TTTTTCATT
1 TTTTTCATT
18062367 TTTT
1 TTTT
18062371 AAGCATAGTA
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
8 23 0.29
9 46 0.59
11 9 0.12
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTCATT
Found at i:18069180 original size:59 final size:58
Alignment explanation
Indices: 18069115--18069311 Score: 211
Period size: 59 Copynumber: 3.3 Consensus size: 58
18069105 TTGTGCAGGA
* *
18069115 AAAATTGATGCTTTCAACTTTTCCCCAAAAATTGATTTTTTGAAATTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATT-ATTTTTTGAAATTTATTTTTCAAGG
* *
18069174 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTTTTTGAAAATTT-TGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TTATTTTTTG-AAATTTAT--TTTTCAAGG
* ** * *
18069237 AAAATTGATACTTTTAACTTTTCTTCAAAAA-TATTTTTGGAAACTTTGA-TTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGAAA-TTT-ATTTTTCAAGG
18069295 AAAATTGATACTTTCAA
1 AAAATTGATACTTTCAA
18069312 GGAAAATTGA
Statistics
Matches: 117, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
58 27 0.23
59 39 0.33
61 8 0.07
62 8 0.07
63 35 0.30
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGAAATTTATTTTTCAAGG
Found at i:18069302 original size:58 final size:57
Alignment explanation
Indices: 18069115--18069311 Score: 209
Period size: 58 Copynumber: 3.3 Consensus size: 57
18069105 TTGTGCAGGA
* * *
18069115 AAAATTGATGCTTTCAACTTTTCCCCAAAAATTGATTTTTTGAAATTT-ATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATT-ATTTTTGGAAATTTGA-TTTTCAAGG
* *
18069174 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAA----TTATTTTTGGAAA-TTTGATTTTCAAGG
* * *
18069237 AAAATTGATACTTTTAACTTTTCTTCAAAAA-TATTTTTGGAAACTTTGATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATTATTTTTGGAAA-TTTGATTTTCAAGG
18069295 AAAATTGATACTTTCAA
1 AAAATTGATACTTTCAA
18069312 GGAAAATTGA
Statistics
Matches: 118, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
58 42 0.36
59 26 0.22
62 8 0.07
63 40 0.34
64 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATTATTTTTGGAAATTTGATTTTCAAGG
Found at i:18069311 original size:19 final size:19
Alignment explanation
Indices: 18069287--18069330 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
18069277 AAACTTTGAT
18069287 TTTCAAAGAAAATTGATAC
1 TTTCAAAGAAAATTGATAC
*
18069306 TTTCAAGGAAAATTGATAC
1 TTTCAAAGAAAATTGATAC
18069325 TTTCAA
1 TTTCAA
18069331 CTTTTCCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTCAAAGAAAATTGATAC
Found at i:18069396 original size:17 final size:16
Alignment explanation
Indices: 18069371--18069475 Score: 83
Period size: 17 Copynumber: 6.5 Consensus size: 16
18069361 TTATTTAAAG
18069371 AAAATTAAATAATAAAAT
1 AAAA-TAAA-AATAAAAT
18069389 AAAATAAAAATGAAAAT
1 AAAATAAAAAT-AAAAT
18069406 --AA-AAAAATAAAAT
1 AAAATAAAAATAAAAT
* * *
18069419 -AAAGAAAAGTAAAACA
1 AAAATAAAAATAAAA-T
18069435 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
* *
18069451 AAAGATAAAAAGAATAT
1 AAA-ATAAAAATAAAAT
*
18069468 TAAATAAA
1 AAAATAAA
18069476 CCTAATCTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.07
14 8 0.11
15 11 0.15
16 11 0.15
17 34 0.47
18 4 0.05
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:18069404 original size:6 final size:5
Alignment explanation
Indices: 18069381--18069460 Score: 67
Period size: 5 Copynumber: 15.4 Consensus size: 5
18069371 AAAATTAAAT
18069381 AATAA AATAA AATAAA AATGAA AAT-A AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A-ATAA
* *
18069426 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
18069461 AGAATATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
4 6 0.10
5 31 0.50
6 25 0.40
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:18069404 original size:7 final size:6
Alignment explanation
Indices: 18069371--18069461 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
18069361 TTATTTAAAG
* * *
18069371 AAAATT AAATAAT -AAAAT -AAAAT AAAAAT GAAAAT AAAAAA ATAAAAT
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
* * *
18069419 AAAGAAA AGTAAAAC AAAAAT AAAAAT -AAAAT AAAGAT AAAAA
1 AAA-AAT A--AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
18069462 GAATATTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
5 13 0.19
6 40 0.59
7 10 0.15
8 3 0.04
9 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:18069406 original size:22 final size:22
Alignment explanation
Indices: 18069381--18069475 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
18069371 AAAATTAAAT
18069381 AATAAAATAAAATAAAAATGAA
1 AATAAAATAAAATAAAAATGAA
18069403 AAT-AAA-AAAAT-AAAAT-AA
1 AATAAAATAAAATAAAAATGAA
* * *
18069421 AGA-AAAGTAAAACAAAAATAAA
1 A-ATAAAATAAAATAAAAATGAA
18069443 AATAAAATAAAGATAAAAA-GAA
1 AATAAAATAAA-ATAAAAATGAA
* *
18069465 TATTAAATAAA
1 AATAAAATAAA
18069476 CCTAATCTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.05
19 8 0.14
20 9 0.15
21 9 0.15
22 24 0.41
23 6 0.10
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (22 bp):
AATAAAATAAAATAAAAATGAA
Found at i:18069898 original size:11 final size:11
Alignment explanation
Indices: 18069882--18069911 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18069872 ATCTGAGTTT
*
18069882 TTCATCGAAAG
1 TTCATCGAAAA
18069893 TTCATCGAAAA
1 TTCATCGAAAA
18069904 TTCATCGA
1 TTCATCGA
18069912 TTTTTGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (11 bp):
TTCATCGAAAA
Found at i:18070347 original size:15 final size:16
Alignment explanation
Indices: 18070329--18070361 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18070319 TCAAAAAAAG
*
18070329 AAATA-AAAAAATGAA
1 AAATACAAAAAATCAA
18070344 AAATACAAAAAATCAA
1 AAATACAAAAAATCAA
18070360 AA
1 AA
18070362 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AAATACAAAAAATCAA
Found at i:18070397 original size:21 final size:21
Alignment explanation
Indices: 18070363--18070420 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
18070353 AAATCAAAAG
18070363 AAAATAAAT-A-AGATAAATC
1 AAAATAAATAACAGATAAATC
*
18070382 AAAA-AAATTAACAGAT-AATT
1 AAAATAAA-TAACAGATAAATC
18070402 AAAATTAAATAACAGATAA
1 AAAA-TAAATAACAGATAA
18070421 TACATAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 3 0.09
19 5 0.16
20 8 0.25
21 12 0.38
22 4 0.12
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAATAAATAACAGATAAATC
Found at i:18070524 original size:14 final size:14
Alignment explanation
Indices: 18070505--18070549 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
18070495 AAATACCTAA
*
18070505 AATATATATAAAAT
1 AATATAAATAAAAT
18070519 AATATAAATAAAAT
1 AATATAAATAAAAT
*
18070533 AAAATAAAATAAAAT
1 AATAT-AAATAAAAT
18070548 AA
1 AA
18070550 AAATGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATATAAATAAAAT
Found at i:18070525 original size:5 final size:5
Alignment explanation
Indices: 18070502--18070613 Score: 86
Period size: 5 Copynumber: 21.0 Consensus size: 5
18070492 CATAAATACC
* *
18070502 TAAAA TATATA TAAAA TAATA T-AAA TAAAA TAAAA TAAAA TAAAA TAAAAA
1 TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA
*
18070553 TGTAAAA TACAA TAAAAA TAAAAA TAAAAA TAAAA -AATAA -AAAA TAAAAA
1 --TAAAA TAAAA T-AAAA T-AAAA T-AAAA TAAAA TAA-AA TAAAA T-AAAA
18070603 TAAGAA TAAAA
1 TAA-AA TAAAA
18070614 AAATGGACTT
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
4 7 0.08
5 45 0.49
6 34 0.37
7 4 0.04
8 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:18070525 original size:10 final size:10
Alignment explanation
Indices: 18070502--18070613 Score: 86
Period size: 11 Copynumber: 10.5 Consensus size: 10
18070492 CATAAATACC
*
18070502 TAAAATATATA
1 TAAAATA-AAA
*
18070513 TAAAATAATA
1 TAAAATAAAA
18070523 T-AAATAAAA
1 TAAAATAAAA
18070532 TAAAATAAAA
1 TAAAATAAAA
18070542 TAAAATAAAAA
1 TAAAAT-AAAA
*
18070553 TGTAAAATACAA
1 --TAAAATAAAA
18070565 TAAAAATAAAAA
1 T-AAAAT-AAAA
18070577 TAAAAATAAAA
1 T-AAAATAAAA
18070588 -AATAA-AAAA
1 TAA-AATAAAA
18070597 TAAAAATAAGAA
1 T-AAAATAA-AA
18070609 TAAAA
1 TAAAA
18070614 AAATGGACTT
Statistics
Matches: 87, Mismatches: 3, Indels: 22
0.78 0.03 0.20
Matches are distributed among these distances:
9 14 0.16
10 23 0.26
11 28 0.32
12 16 0.18
13 6 0.07
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:18070566 original size:23 final size:24
Alignment explanation
Indices: 18070532--18070603 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 24
18070522 ATAAATAAAA
18070532 TAAAATAAAAT-AAAATAAAAATG
1 TAAAATAAAATAAAAATAAAAATG
*
18070555 TAAAATACAATAAAAATAAAAAT-
1 TAAAATAAAATAAAAATAAAAATG
*
18070578 AAAAATAAAAAATAAAAAATAAAAAT
1 TAAAAT--AAAAT-AAAAATAAAAAT
18070604 AAGAATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 15 0.36
24 11 0.26
25 4 0.10
26 12 0.29
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (24 bp):
TAAAATAAAATAAAAATAAAAATG
Found at i:18070572 original size:6 final size:6
Alignment explanation
Indices: 18070519--18070614 Score: 94
Period size: 6 Copynumber: 16.3 Consensus size: 6
18070509 TATATAAAAT
* * *
18070519 AATATA AAT-AA AAT-AA AAT-AA AAT-AA AATAAA AATGTAA AAT-AC
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA AATAAA
*
18070563 AATAAA AATAAA AATAAA AATAAAA AATAAAA AATAAA AATAAG AATAAA
1 AATAAA AATAAA AATAAA AAT-AAA AAT-AAA AATAAA AATAAA AATAAA
18070613 AA
1 AA
18070615 AATGGACTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
5 23 0.29
6 39 0.49
7 18 0.22
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:18070595 original size:19 final size:19
Alignment explanation
Indices: 18070512--18070615 Score: 97
Period size: 19 Copynumber: 5.4 Consensus size: 19
18070502 TAAAATATAT
*
18070512 ATAAAATAATATAAAT-AAA
1 ATAAAA-AATAAAAATAAAA
*
18070531 ATAAAATAAAATAAAATAAAA
1 ATAAAA-AATA-AAAATAAAA
** *
18070552 ATGTAAAAT-ACAATAAAA
1 ATAAAAAATAAAAATAAAA
18070570 AT-AAAAATAAAAATAAAAA
1 ATAAAAAATAAAAAT-AAAA
*
18070589 ATAAAAAATAAAAATAAGA
1 ATAAAAAATAAAAATAAAA
18070608 ATAAAAAA
1 ATAAAAAA
18070616 ATGGACTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
17 5 0.07
18 14 0.20
19 27 0.38
20 18 0.25
21 7 0.10
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (19 bp):
ATAAAAAATAAAAATAAAA
Found at i:18070596 original size:44 final size:44
Alignment explanation
Indices: 18070519--18070614 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
18070509 TATATAAAAT
* *
18070519 AATATAAATAAAATAAAATAAAATAAAATAAAAATGTAAAAT-AC
1 AATAAAAATAAAATAAAATAAAATAAAATAAAAAT-AAAAATAAC
* *
18070563 AATAAAAATAAAAATAAAA-ATAA-AAAATAAAAAATAAAAATAAG
1 AATAAAAAT-AAAATAAAATAAAATAAAAT-AAAAATAAAAATAAC
18070607 AATAAAAA
1 AATAAAAA
18070615 AATGGACTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 10 0.22
44 26 0.58
45 9 0.20
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (44 bp):
AATAAAAATAAAATAAAATAAAATAAAATAAAAATAAAAATAAC
Found at i:18070756 original size:77 final size:77
Alignment explanation
Indices: 18070637--18070782 Score: 247
Period size: 77 Copynumber: 1.9 Consensus size: 77
18070627 CATTTGGACC
* *
18070637 AGGCCCAATTGATTCGGGCCTGGACCAAATTAGGTGTCTACAGCTACCCCTCTTTACACATTTTC
1 AGGCCCAATTGATTCAGGCCTGAACCAAATTAGGTGTCTACAGCTACCCCTCTTTACACATTTTC
18070702 TGTGTTTGGTCT
66 TGTGTTTGGTCT
* * *
18070714 AGGCCCAATTGATTCAGGCCTGAACCAAATTGGGTGTCTACAGCTGCCCCTCTTTGCACATTTTC
1 AGGCCCAATTGATTCAGGCCTGAACCAAATTAGGTGTCTACAGCTACCCCTCTTTACACATTTTC
18070779 TGTG
66 TGTG
18070783 AAACAGAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (77 bp):
AGGCCCAATTGATTCAGGCCTGAACCAAATTAGGTGTCTACAGCTACCCCTCTTTACACATTTTC
TGTGTTTGGTCT
Found at i:18070861 original size:10 final size:10
Alignment explanation
Indices: 18070847--18070880 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18070837 TTACTTTTCA
18070847 TTTTTTTTT-
1 TTTTTTTTTG
*
18070856 TGTTTTTTTG
1 TTTTTTTTTG
18070866 TTTTTTTTTG
1 TTTTTTTTTG
18070876 TTTTT
1 TTTTT
18070881 GATCAAAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:18070986 original size:42 final size:41
Alignment explanation
Indices: 18070888--18071225 Score: 455
Period size: 42 Copynumber: 8.1 Consensus size: 41
18070878 TTTGATCAAA
* * *
18070888 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAGTAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * * *
18070929 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
18070971 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
18071012 GCTCCTCTAAACAAAGGCACCACAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
18071054 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
18071096 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
18071138 GCT-C-CTAAACACAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
18071178 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
18071220 GCTCCT
1 GCTCCT
18071226 TGACAATCAT
Statistics
Matches: 268, Mismatches: 22, Indels: 13
0.88 0.07 0.04
Matches are distributed among these distances:
39 4 0.01
40 31 0.12
41 67 0.25
42 161 0.60
43 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:18071040 original size:83 final size:83
Alignment explanation
Indices: 18070888--18071225 Score: 466
Period size: 83 Copynumber: 4.1 Consensus size: 83
18070878 TTTGATCAAA
* * * * * * *
18070888 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
18070953 ACTTTGAAAAAATAAATT
66 ACTTTGAAAAAGTAAATT
* * *
18070971 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
18071036 ACTTTGAAAAAGTAAATT
66 ACTTTGAAAAAGTAAATT
* * *
18071054 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAATGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
18071119 GACTTTTG-AAATGTAAATT
65 GAC-TTTGAAAAAGTAAATT
* *
18071138 GCT-C-CTAAACACAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
18071201 GACTTTGGAAAAGTAAATT
65 GACTTTGAAAAAGTAAATT
18071220 GCTCCT
1 GCTCCT
18071226 TGACAATCAT
Statistics
Matches: 225, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
81 8 0.04
82 65 0.29
83 99 0.44
84 49 0.22
85 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAAGTAAATT
Found at i:18071192 original size:124 final size:125
Alignment explanation
Indices: 18070888--18071225 Score: 486
Period size: 124 Copynumber: 2.7 Consensus size: 125
18070878 TTTGATCAAA
* * * * * * *
18070888 GCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAAGTAAATGGCTCCTCTAATCAGAGGCTCAAT
1 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
*
18070952 GAC-TTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
66 GACTTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
18071012 GCTCCTCTAAACAAAGGCACCACAACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
* * *
18071077 GACTTTTGAAATGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAATGTAAATT
66 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-GTAAATT
* * *
18071138 GCT-C-CTAAACACAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
*
18071201 GACTTTGGAAAAGTAAATTGCTCCT
66 GACTTTTGAAAAGTAAATTGCTCCT
18071226 TGACAATCAT
Statistics
Matches: 193, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
124 104 0.54
125 75 0.39
126 14 0.07
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (125 bp):
GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:18072251 original size:20 final size:20
Alignment explanation
Indices: 18072228--18072337 Score: 80
Period size: 25 Copynumber: 5.0 Consensus size: 20
18072218 GAGTCCTCCT
18072228 TTTTCACTTTTTTC-TTTTTA
1 TTTTCA-TTTTTTCATTTTTA
18072248 TTTTCATTTTTTCATTTTTTCA
1 TTTTCATTTTTTCA-TTTTT-A
18072270 TTTTTTTCATTTTTTCCATTTTTTCA
1 ---TTTTCATTTTTT-CA-TTTTT-A
*
18072296 TTTTTTCATTTTTTCATCATTT-
1 --TTTTCATTTTTTCAT-TTTTA
18072318 TTTTCATTTTTTTCATTTTT
1 TTTTCA-TTTTTTCATTTTT
18072338 TAAGCATAGT
Statistics
Matches: 79, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
19 7 0.09
20 15 0.19
21 14 0.18
22 1 0.01
23 1 0.01
24 5 0.06
25 26 0.33
26 10 0.13
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCATTTTTTCATTTTTA
Found at i:18072274 original size:17 final size:17
Alignment explanation
Indices: 18072248--18072338 Score: 132
Period size: 17 Copynumber: 5.2 Consensus size: 17
18072238 TTTCTTTTTA
18072248 TTTTCA-TTTTTTCATT
1 TTTTCATTTTTTTCATT
18072264 TTTTCATTTTTTTCATT
1 TTTTCATTTTTTTCATT
18072281 TTTTCCA-TTTTTTCATT
1 TTTT-CATTTTTTTCATT
18072298 TTTTCATTTTTTCATCATTT
1 TTTTCATTTTTT--TCA-TT
18072318 TTTTCATTTTTTTCATT
1 TTTTCATTTTTTTCATT
18072335 TTTT
1 TTTT
18072339 AAGCATAGTA
Statistics
Matches: 69, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.12
17 39 0.57
18 5 0.07
19 3 0.04
20 14 0.20
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTTTTTTCATT
Found at i:18072317 original size:11 final size:9
Alignment explanation
Indices: 18072227--18072338 Score: 133
Period size: 9 Copynumber: 12.4 Consensus size: 9
18072217 TGAGTCCTCC
*
18072227 TTTTTCACT
1 TTTTTCATT
*
18072236 TTTTTCTTTT
1 TTTTTC-ATT
18072246 TATTTTCA-T
1 T-TTTTCATT
18072255 TTTTTCA-T
1 TTTTTCATT
18072263 TTTTTCATT
1 TTTTTCATT
18072272 TTTTTCATT
1 TTTTTCATT
*
18072281 TTTTCCA-T
1 TTTTTCATT
18072289 TTTTTCA-T
1 TTTTTCATT
18072297 TTTTTCATT
1 TTTTTCATT
18072306 TTTTCATCATT
1 TTTT--TCATT
18072317 TTTTTCATT
1 TTTTTCATT
18072326 TTTTTCATT
1 TTTTTCATT
18072335 TTTT
1 TTTT
18072339 AAGCATAGTA
Statistics
Matches: 92, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
8 29 0.32
9 47 0.51
10 2 0.02
11 14 0.15
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTCATT
Found at i:18072357 original size:45 final size:45
Alignment explanation
Indices: 18072267--18072357 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
18072257 TTTCATTTTT
* ** ** *
18072267 TCATTTTTTTCATTTTTTCCATTTTTTCATTTTTTCATTTTTTCA
1 TCATTTTTTTCATTTTTTCCATTTTTTAACATAGTCATTTCTTCA
*
18072312 TCATTTTTTTCATTTTTTTCATTTTTTAAGCATAGT-ATTTCTTCA
1 TCATTTTTTTCATTTTTTCCATTTTTTAA-CATAGTCATTTCTTCA
18072357 T
1 T
18072358 AGCATCAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.67
Consensus pattern (45 bp):
TCATTTTTTTCATTTTTTCCATTTTTTAACATAGTCATTTCTTCA
Found at i:18088377 original size:6 final size:6
Alignment explanation
Indices: 18088366--18088398 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
18088356 TATTTAAAGA
18088366 AAAATC AAAATC AAAATC AAAATC AAAATC AAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAA
18088399 TTAAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:18088405 original size:12 final size:12
Alignment explanation
Indices: 18088365--18088405 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
18088355 TTATTTAAAG
18088365 AAAAATCAAAAT
1 AAAAATCAAAAT
*
18088377 CAAAATCAAAAT
1 AAAAATCAAAAT
* *
18088389 CAAAATCAAATT
1 AAAAATCAAAAT
18088401 AAAAA
1 AAAAA
18088406 GGAAGGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:18088405 original size:18 final size:18
Alignment explanation
Indices: 18088365--18088405 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
18088355 TTATTTAAAG
18088365 AAAAATCAAAATCAAAAT
1 AAAAATCAAAATCAAAAT
* *
18088383 CAAAATCAAAATCAAATT
1 AAAAATCAAAATCAAAAT
18088401 AAAAA
1 AAAAA
18088406 GGAAGGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATCAAAATCAAAAT
Found at i:18088579 original size:64 final size:62
Alignment explanation
Indices: 18088435--18088601 Score: 225
Period size: 64 Copynumber: 2.7 Consensus size: 62
18088425 TCTTGTGTAG
* ** *
18088435 GGAAAATTGATACTTTCAACTTTT-CCC-TAAAAA-TTGATTTTTTGAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTTTTTTGAAATTTATTTTTCAA
18088494 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTTTTTTGAAAATTT-TGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTTTTTTG-AAATTTAT--TTTTCAA
* *
18088558 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTTTT
18088602 ATTTTTATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
59 24 0.25
60 3 0.03
61 5 0.05
62 10 0.10
63 6 0.06
64 48 0.50
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.47
Consensus pattern (62 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTTTTTTGAAATTTATTTTTCAA
Found at i:18088639 original size:13 final size:12
Alignment explanation
Indices: 18088623--18088698 Score: 52
Period size: 11 Copynumber: 6.5 Consensus size: 12
18088613 AAGAAAATTG
18088623 AATAATAAAACAA
1 AATAA-AAAACAA
**
18088636 AATAAAAATGAA
1 AATAAAAAACAA
*
18088648 AATAAAAAAATAA
1 AAT-AAAAAACAA
18088661 AAT-AAAAA-AA
1 AATAAAAAACAA
* *
18088671 AGTAAAACA-AA
1 AATAAAAAACAA
*
18088682 AAT-AAAAATAA
1 AATAAAAAACAA
18088693 AATAAA
1 AATAAA
18088699 GATAAAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
10 8 0.16
11 18 0.35
12 10 0.20
13 15 0.29
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (12 bp):
AATAAAAAACAA
Found at i:18088649 original size:6 final size:5
Alignment explanation
Indices: 18088626--18088705 Score: 67
Period size: 6 Copynumber: 15.4 Consensus size: 5
18088616 AAAATTGAAT
*
18088626 AATAA AACAA AATAAA AATGAA AAT-A AA-AA AATAA AATAA AA-AA AAGTAA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA AATAA AA-TAA
*
18088676 AACAAA AATAAA AATAA AATAA AGATAA AA
1 AA-TAA AAT-AA AATAA AATAA A-ATAA AA
18088706 AGAATATTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 10 0.16
5 24 0.39
6 28 0.45
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:18088654 original size:11 final size:10
Alignment explanation
Indices: 18088626--18088705 Score: 67
Period size: 10 Copynumber: 7.7 Consensus size: 10
18088616 AAAATTGAAT
*
18088626 AATAAAACAA
1 AATAAAATAA
18088636 AATAAAAATGAA
1 AAT-AAAAT-AA
18088648 AAT-AAA-AA
1 AATAAAATAA
18088656 AATAAAATAA
1 AATAAAATAA
18088666 AA-AAAAGTAA
1 AATAAAA-TAA
*
18088676 AACAAAAATAAA
1 AA-TAAAAT-AA
18088688 AATAAAATAA
1 AATAAAATAA
18088698 AGATAAAA
1 A-ATAAAA
18088706 AGAATATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
8 5 0.08
9 7 0.12
10 18 0.31
11 16 0.27
12 13 0.22
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.14
Consensus pattern (10 bp):
AATAAAATAA
Found at i:18088682 original size:27 final size:28
Alignment explanation
Indices: 18088653--18088705 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
18088643 ATGAAAATAA
18088653 AAAAAT-AAAATAAAAAAAAG-TAAAAC
1 AAAAATAAAAATAAAAAAAAGATAAAAC
*
18088679 AAAAATAAAAATAAAATAAAGATAAAA
1 AAAAATAAAAATAAAAAAAAGATAAAA
18088706 AGAATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (28 bp):
AAAAATAAAAATAAAAAAAAGATAAAAC
Found at i:18089724 original size:6 final size:6
Alignment explanation
Indices: 18089715--18089810 Score: 94
Period size: 6 Copynumber: 16.5 Consensus size: 6
18089705 TATATAAAAT
*
18089715 AATAAA AATAAA AATAAA AATAAA AATAGA AAT-AA AAT-AA AAT-AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* * * *
18089760 AATGTAA AAT-AC AATAAA AATAAA AATAAG AAT-AA AATAAA GAAAAAA
1 AAT-AAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA
18089808 AAT
1 AAT
18089811 GGACTTATCC
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
5 22 0.29
6 45 0.58
7 10 0.13
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:18089727 original size:28 final size:27
Alignment explanation
Indices: 18089695--18089799 Score: 99
Period size: 28 Copynumber: 3.8 Consensus size: 27
18089685 CATAAATACC
*
18089695 TAAAAATATATATATAAAATAATAAAAA
1 TAAAAATA-AAATATAAAATAATAAAAA
*
18089723 TAAAAATAAAA-ATAAAAATAGAAATAAAA
1 TAAAAATAAAATAT-AAAATA-ATA-AAAA
*
18089752 T-AAAATAAAATGTAAAATACAATAAAAA
1 TAAAAATAAAATATAAAAT--AATAAAAA
*
18089780 TAAAAATAAGA-ATAAAATAA
1 TAAAAATAAAATATAAAATAA
18089800 AGAAAAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
26 4 0.06
27 8 0.12
28 35 0.55
29 16 0.25
30 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (27 bp):
TAAAAATAAAATATAAAATAATAAAAA
Found at i:18092692 original size:32 final size:32
Alignment explanation
Indices: 18092633--18092697 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
18092623 ACTTTGATAA
* * *
18092633 TGAATTCAACCAAGATTTAGTCTATATATATT
1 TGAATTCAACCAAAATTCAGTCTATATACATT
18092665 TGAATTCAACCAAAATTCAGTAC-ATATACATT
1 TGAATTCAACCAAAATTCAGT-CTATATACATT
18092697 T
1 T
18092698 TTTAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (32 bp):
TGAATTCAACCAAAATTCAGTCTATATACATT
Found at i:18093546 original size:18 final size:16
Alignment explanation
Indices: 18093524--18093584 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
18093514 TTTAATAATT
*
18093524 TAAAAAAAATTAAATA
1 TAAAAAAAAATAAATA
*
18093540 TTAAAAAAAACAAAAATA
1 -TAAAAAAAA-ATAAATA
18093558 -AAAATAAAAATAAATA
1 TAAAA-AAAAATAAATA
18093574 GTAAAAAAAAA
1 -TAAAAAAAAA
18093585 AATGACACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 10 0.27
17 18 0.49
18 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
TAAAAAAAAATAAATA
Found at i:18093560 original size:6 final size:6
Alignment explanation
Indices: 18093545--18093587 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
18093535 AAATATTAAA
* * *
18093545 AAAAAC AAAAAT AAAAAT AAAAAT AAATAGT AAAAAA AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT
18093588 GACACATGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:18093585 original size:18 final size:17
Alignment explanation
Indices: 18093525--18093585 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
18093515 TTAATAATTT
*
18093525 AAAAAAAATTAAATATTA
1 AAAAAAAAATAAATA-TA
18093543 AAAAAAACAA-AAATA-A
1 AAAAAAA-AATAAATATA
*
18093559 AAATAAAAATAAATAGTA
1 AAAAAAAAATAAATA-TA
18093577 AAAAAAAAA
1 AAAAAAAAA
18093586 ATGACACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 2 0.06
16 12 0.33
18 21 0.58
19 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAAAAAATAAATATA
Found at i:18093878 original size:16 final size:16
Alignment explanation
Indices: 18093857--18093890 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18093847 ATTTCAAACA
*
18093857 TATTTTTATAAAAATT
1 TATTTTAATAAAAATT
*
18093873 TATTTTAATAAATATT
1 TATTTTAATAAAAATT
18093889 TA
1 TA
18093891 AAATATCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTAATAAAAATT
Found at i:18099200 original size:19 final size:20
Alignment explanation
Indices: 18099158--18099194 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
18099148 ATGCCTCCAT
*
18099158 TTTTCTCTCTTCTTTTTTCC
1 TTTTCTCTCTTCTTCTTTCC
18099178 TTTTCT-TCTTCTTCTTT
1 TTTTCTCTCTTCTTCTTT
18099195 GGTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCTCTCTTCTTCTTTCC
Found at i:18100905 original size:28 final size:28
Alignment explanation
Indices: 18100855--18100908 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
18100845 TAATTTGTTG
* **
18100855 GTTTTACATGTTAGGACAACTTATGAAT
1 GTTTTACATGTCAAAACAACTTATGAAT
*
18100883 GTTTTACATGTCAAAACAGCTTATGA
1 GTTTTACATGTCAAAACAACTTATGA
18100909 TAGCTTATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (28 bp):
GTTTTACATGTCAAAACAACTTATGAAT
Found at i:18110803 original size:34 final size:37
Alignment explanation
Indices: 18110742--18110810 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 37
18110732 ATTTATATTA
* *
18110742 ATTTATATATTTAAAATTTTTATAAAATAAAATAATT
1 ATTTATATATTTAAAATATATATAAAATAAAATAATT
*
18110779 ATTT-TATATTT-AAATATATA-AAAATAATATAA
1 ATTTATATATTTAAAATATATATAAAATAAAATAA
18110811 AACTAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 11 0.38
35 7 0.24
36 7 0.24
37 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTTATATATTTAAAATATATATAAAATAAAATAATT
Found at i:18118016 original size:2 final size:2
Alignment explanation
Indices: 18118011--18118042 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18118001 TTTTTTTAGA
18118011 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
18118043 GAAGTTACTC
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):
AT
Done.