Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 319 of 444
Found at i:92044375 original size:27 final size:26
Alignment explanation
Indices: 92044311--92044362 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
92044301 AAAGTAAATA
92044311 AAAG-AAAGTAAATAAAAGAAACTAAAG
1 AAAGAAAAG-AAATAAAAGAAAC-AAAG
92044338 AAAGAAAAGAAATAAAAGAAACAAA
1 AAAGAAAAGAAATAAAAGAAACAAA
92044363 AAGAACAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.12
27 17 0.71
28 4 0.17
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (26 bp):
AAAGAAAAGAAATAAAAGAAACAAAG
Found at i:92046459 original size:13 final size:13
Alignment explanation
Indices: 92046441--92046469 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
92046431 ACTGCTTTGT
92046441 TGCTTCATGTCTC
1 TGCTTCATGTCTC
92046454 TGCTTCATGTCTC
1 TGCTTCATGTCTC
92046467 TGC
1 TGC
92046470 CCTACTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.31, G:0.17, T:0.45
Consensus pattern (13 bp):
TGCTTCATGTCTC
Found at i:92046540 original size:62 final size:61
Alignment explanation
Indices: 92046431--92046567 Score: 204
Period size: 62 Copynumber: 2.2 Consensus size: 61
92046421 TTTTCCTACG
* *
92046431 ACTGCTTTGTTGCTTCATGTCTCTGCTTCATGTCTCTGCCCTACTGTTATTTTTTTCAGCA
1 ACTGCTTTGCTGCTTCATGTCTCTGCTTCACGTCTCTGCCCTACTGTTATTTTTTTCAGCA
* * *
92046492 ACTGCTTTGCTGCTTCAAT-TACTCTGCTTCACGTCTTTGCCTTGCTGTTATTTTTTTCAGCA
1 ACTGCTTTGCTGCTTC-ATGT-CTCTGCTTCACGTCTCTGCCCTACTGTTATTTTTTTCAGCA
92046554 ACTGCTTTGCTGCT
1 ACTGCTTTGCTGCT
92046568 GATTTGCTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
61 16 0.23
62 53 0.77
ACGTcount: A:0.12, C:0.26, G:0.15, T:0.47
Consensus pattern (61 bp):
ACTGCTTTGCTGCTTCATGTCTCTGCTTCACGTCTCTGCCCTACTGTTATTTTTTTCAGCA
Found at i:92051840 original size:64 final size:63
Alignment explanation
Indices: 92051761--92051915 Score: 190
Period size: 63 Copynumber: 2.5 Consensus size: 63
92051751 AAAGCAAATC
** * * * *
92051761 AGCAGCAAAGCAGTTGCTGGAAAAAAAATAACAGTAGGGCAGAGATGTGAAGTAGAGTAATTGA
1 AGCAGCAAAGCAGTTGCTGGAAAAAAAATAACAACAGAGCAGAGACGTGAAGCAGAG-AAGTGA
* *
92051825 AGCAGCAAAGTAGTTGCTGG-AAAAAAATAACAACAGAGCAGAGACGTGAAGCAGAGACGTGA
1 AGCAGCAAAGCAGTTGCTGGAAAAAAAATAACAACAGAGCAGAGACGTGAAGCAGAGAAGTGA
* *
92051887 AGCACCAAAGCAGTTGC--CAAAAAAAATAA
1 AGCAGCAAAGCAGTTGCTGGAAAAAAAATAA
92051916 TAGCAGCAGG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 10 0.13
62 19 0.24
63 31 0.39
64 19 0.24
ACGTcount: A:0.46, C:0.14, G:0.26, T:0.14
Consensus pattern (63 bp):
AGCAGCAAAGCAGTTGCTGGAAAAAAAATAACAACAGAGCAGAGACGTGAAGCAGAGAAGTGA
Found at i:92051879 original size:13 final size:13
Alignment explanation
Indices: 92051861--92051890 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
92051851 ATAACAACAG
92051861 AGCAGAGACGTGA
1 AGCAGAGACGTGA
92051874 AGCAGAGACGTGA
1 AGCAGAGACGTGA
92051887 AGCA
1 AGCA
92051891 CCAAAGCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.37, T:0.07
Consensus pattern (13 bp):
AGCAGAGACGTGA
Found at i:92051971 original size:21 final size:21
Alignment explanation
Indices: 92051945--92051985 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
92051935 CAGAGACGTG
92051945 AAGATAGAATTTTTATTAGGA
1 AAGATAGAATTTTTATTAGGA
92051966 AAGATAGAATTTTTATTAGG
1 AAGATAGAATTTTTATTAGG
92051986 GTTGAGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (21 bp):
AAGATAGAATTTTTATTAGGA
Found at i:92052104 original size:24 final size:24
Alignment explanation
Indices: 92052025--92052104 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
92052015 GATTTGTGAT
* *
92052025 TAAAAAGTCTAATTAAATAAGGTG
1 TAAAAAATCTAATTAAATGAGGTG
* * *
92052049 TAAATGAGATATGTCATTAAATGATGAT-
1 TAAA--A-A-ATCTAATTAAATGA-GGTG
92052077 TAAAAAATCTAATTAAATGAGGTG
1 TAAAAAATCTAATTAAATGAGGTG
92052101 TAAA
1 TAAA
92052105 TGACATGTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
23 2 0.05
24 20 0.48
25 1 0.02
26 2 0.05
27 1 0.02
28 14 0.33
29 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (24 bp):
TAAAAAATCTAATTAAATGAGGTG
Found at i:92060103 original size:2 final size:2
Alignment explanation
Indices: 92060096--92060120 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92060086 AAGAGTTTTA
92060096 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
92060121 GCTGTTTTTT
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:92067500 original size:29 final size:29
Alignment explanation
Indices: 92067444--92067504 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
92067434 GATCAATTAA
*
92067444 ATCTCCATCTAACATATTCATCAAAAAAT
1 ATCTCCATCTAACATATTCACCAAAAAAT
*
92067473 ATCTCCATCTAACATCTGT-ACCACAAAAAT
1 ATCTCCATCTAACATAT-TCACCA-AAAAAT
92067503 AT
1 AT
92067505 AAAATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (29 bp):
ATCTCCATCTAACATATTCACCAAAAAAT
Found at i:92070400 original size:3 final size:3
Alignment explanation
Indices: 92070392--92070431 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
92070382 ACCAAAAGTT
92070392 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
92070432 AGTATGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:92072835 original size:55 final size:55
Alignment explanation
Indices: 92072770--92072932 Score: 281
Period size: 55 Copynumber: 3.0 Consensus size: 55
92072760 AGCCAACCCT
*
92072770 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAAGTTTACTAATAATCC
1 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAATCC
* * *
92072825 AATATGAAAATATCTTGTCCAAAGCCCAACTTTTAGATAGGTCTACTAATAATCT
1 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAATCC
*
92072880 AATATGAAAATATATTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAAT
1 AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAAT
92072933 GGGCTGCCAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 101 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (55 bp):
AATATGAAAATATCTTGTCCAAGGCCCAACTTTTAGATAGGTTTACTAATAATCC
Found at i:92084551 original size:30 final size:30
Alignment explanation
Indices: 92084515--92084575 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
92084505 ACTTTATTTG
92084515 TATATGGCTTACTAAGCTTTTAAAGCTTAC
1 TATATGGCTTACTAAGCTTTTAAAGCTTAC
92084545 TATATGGCTTACTAAGCTTTTAAAGCTTAC
1 TATATGGCTTACTAAGCTTTTAAAGCTTAC
92084575 T
1 T
92084576 TTGTGTGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (30 bp):
TATATGGCTTACTAAGCTTTTAAAGCTTAC
Found at i:92089471 original size:19 final size:19
Alignment explanation
Indices: 92089443--92089499 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
92089433 TGCTAAAAAG
* *
92089443 AAATAAAAATTATAATTAA
1 AAATAGAAATTAAAATTAA
*
92089462 AAATAGAAA-TAAGAAATAA
1 AAATAGAAATTAA-AATTAA
*
92089481 AAAGAGAAAATTAAAATTA
1 AAATAG-AAATTAAAATTA
92089500 TCAACATCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.07
19 18 0.60
20 7 0.23
21 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAGAAATTAAAATTAA
Found at i:92093361 original size:14 final size:15
Alignment explanation
Indices: 92093335--92093375 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
92093325 TTTACATTTG
*
92093335 AATTATATTTTATTT
1 AATTATATTTTATAT
*
92093350 CATTAT-TTTTATAT
1 AATTATATTTTATAT
92093364 AATTATATTTTA
1 AATTATATTTTA
92093376 ATTTAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
AATTATATTTTATAT
Found at i:92093872 original size:2 final size:2
Alignment explanation
Indices: 92093865--92093893 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
92093855 TAGCTAAAAT
92093865 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92093894 AAATTAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92095181 original size:27 final size:26
Alignment explanation
Indices: 92095144--92095258 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
92095134 AGCATGGCTG
* *
92095144 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
92095170 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
92095198 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
92095225 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
92095252 CCAGAAC
1 CCAGAAC
92095259 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:92095203 original size:54 final size:54
Alignment explanation
Indices: 92095144--92095258 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
92095134 AGCATGGCTG
*
92095144 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
92095198 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
92095252 CCAGAAC
1 CCAGAAC
92095259 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:92096977 original size:25 final size:26
Alignment explanation
Indices: 92096873--92097006 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
92096863 CATGAAATTC
* *
92096873 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
92096899 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
92096925 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
92096951 TTATCATGGAACATTTA-CTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
92096976 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
92097001 TTATCA
1 TTATCA
92097007 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
24 9 0.09
25 29 0.28
26 67 0.64
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:92100989 original size:27 final size:26
Alignment explanation
Indices: 92100952--92101066 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
92100942 AGCATGGCTG
* *
92100952 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
92100978 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
92101006 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
92101033 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
92101060 CCAGAAC
1 CCAGAAC
92101067 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:92101011 original size:54 final size:54
Alignment explanation
Indices: 92100952--92101066 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
92100942 AGCATGGCTG
*
92100952 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
92101006 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
92101060 CCAGAAC
1 CCAGAAC
92101067 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:92102715 original size:26 final size:26
Alignment explanation
Indices: 92102679--92102812 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
92102669 CATGAAATTC
*
92102679 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
92102705 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
92102731 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
92102757 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
92102783 TTATCATG-AACATTTACCTAA-CTA
1 TTATCATGAAACATTTACCTAACCTA
92102807 TTATCA
1 TTATCA
92102813 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
24 9 0.08
25 13 0.12
26 84 0.79
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:92104159 original size:26 final size:25
Alignment explanation
Indices: 92104112--92104173 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
92104102 GAATATATAT
*
92104112 ATATATACATACAATATAGTATTTAAAA
1 ATATATACATA-AAGATAGTA--TAAAA
*
92104140 ATATATACAT-AAGATGGTATAAAA
1 ATATATACATAAAGATAGTATAAAA
*
92104164 ATATGTACAT
1 ATATATACAT
92104174 GGAAATGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 14 0.45
26 7 0.23
28 10 0.32
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (25 bp):
ATATATACATAAAGATAGTATAAAA
Found at i:92104228 original size:11 final size:11
Alignment explanation
Indices: 92104214--92104240 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
92104204 AATATTAAAA
92104214 ATATATAGAAC
1 ATATATAGAAC
92104225 ATATATAGAAC
1 ATATATAGAAC
92104236 ATATA
1 ATATA
92104241 CAATACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:92104406 original size:25 final size:23
Alignment explanation
Indices: 92104369--92104425 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
92104359 ATAACTGATA
*
92104369 ATATTAAAATATTTACATAATATT
1 ATATTAAAATATTCACATAATA-T
* *
92104393 ATATATAAATTATTCATATAATAT
1 ATAT-TAAAATATTCACATAATAT
92104417 ATATTAAAA
1 ATATTAAAA
92104426 AAATTGACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 9 0.32
25 15 0.54
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTAAAATATTCACATAATAT
Found at i:92104740 original size:3 final size:3
Alignment explanation
Indices: 92104732--92104764 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
92104722 ACTAATGTAC
92104732 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
92104765 TGTAGCTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:92104746 original size:123 final size:124
Alignment explanation
Indices: 92104526--92104754 Score: 295
Period size: 123 Copynumber: 1.8 Consensus size: 124
92104516 AAAAAGTAAA
* * *
92104526 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATATATATATACCTCTAATA
1 TATAATAAAA-GATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATC-AATA
* * *
92104591 AGAATATATAATAATGTTAATGATAATAATAATAATAATAACATTGAAATACAAAAGCTAT
64 AGAATATACAATAATGTCAATAATAATAATAATAATAATAACATTGAAATACAAAAGCTAT
* * *
92104652 TATAATAAAA-ATATTAAAATAAAGT-AATAAAAATATTACTACATATATATATACAT-ACATGA
1 TATAATAAAAGATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATCA-AT-A
*
92104714 AG-ATATACACTAATGTACAATAATAATAATAATAATAATAA
64 AGAATATACAATAATGT-CAATAATAATAATAATAATAATAA
92104755 TAATAATAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
121 1 0.01
122 14 0.16
123 50 0.56
124 15 0.17
126 10 0.11
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (124 bp):
TATAATAAAAGATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATCAATAAG
AATATACAATAATGTCAATAATAATAATAATAATAATAACATTGAAATACAAAAGCTAT
Found at i:92107425 original size:26 final size:26
Alignment explanation
Indices: 92107389--92107472 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
92107379 CATGAAATTC
92107389 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
92107415 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
92107441 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
92107467 TTATCA
1 TTATCA
92107473 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:92108409 original size:12 final size:11
Alignment explanation
Indices: 92108387--92108424 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
92108377 TTCGAATAGG
*
92108387 AAAAAGGAAGA
1 AAAAAGAAAGA
92108398 AAAAAGAAAAGA
1 AAAAAG-AAAGA
92108410 AAAAAGAAAGA
1 AAAAAGAAAGA
92108421 AAAA
1 AAAA
92108425 CCGATTCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:92108502 original size:18 final size:17
Alignment explanation
Indices: 92108481--92108535 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
92108471 TTCGTTTTTT
92108481 TTATTCTCTGATTTTTGA
1 TTATTCTCTG-TTTTTGA
92108499 TTA-TCTTCTGTTTTACTG-
1 TTATTC-TCTGTTTT--TGA
*
92108517 TTATTCTCTGCTTTTGA
1 TTATTCTCTGTTTTTGA
92108534 TT
1 TT
92108536 TGCTCTGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
16 2 0.06
17 8 0.26
18 17 0.55
19 4 0.13
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.62
Consensus pattern (17 bp):
TTATTCTCTGTTTTTGA
Found at i:92112248 original size:10 final size:10
Alignment explanation
Indices: 92112235--92112266 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
92112225 GCTAACTCAA
*
92112235 ATTAACAAGT
1 ATTAGCAAGT
92112245 ATTAGCAAGT
1 ATTAGCAAGT
92112255 ATTAGCAAGT
1 ATTAGCAAGT
92112265 AT
1 AT
92112267 AAACTCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (10 bp):
ATTAGCAAGT
Found at i:92112380 original size:25 final size:25
Alignment explanation
Indices: 92112352--92112425 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
92112342 ACTATCAGTT
92112352 ACTCTATTGCTCAAATGAGTAACTC
1 ACTCTATTGCTCAAATGAGTAACTC
* * *
92112377 ACTCAATT--T-TAAT-A-TCAGC-C
1 ACTCTATTGCTCAAATGAGT-AACTC
*
92112397 ACTCTATTGCTCGAATGAGTAACTC
1 ACTCTATTGCTCAAATGAGTAACTC
92112422 ACTC
1 ACTC
92112426 AATTTTAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 9 0.25
21 3 0.08
22 4 0.11
23 4 0.11
24 3 0.08
25 13 0.36
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (25 bp):
ACTCTATTGCTCAAATGAGTAACTC
Found at i:92116037 original size:23 final size:23
Alignment explanation
Indices: 92116007--92116050 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
92115997 TAAAAATTAG
92116007 CAAAAACTGACAAAGAACGAATC
1 CAAAAACTGACAAAGAACGAATC
92116030 CAAAAACTGACAAAGAACGAA
1 CAAAAACTGACAAAGAACGAA
92116051 CCTTGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.20, G:0.14, T:0.07
Consensus pattern (23 bp):
CAAAAACTGACAAAGAACGAATC
Found at i:92116173 original size:17 final size:17
Alignment explanation
Indices: 92116151--92116183 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92116141 ATGCGCACTC
*
92116151 ATATTTTATTTTATAAT
1 ATATTTTATATTATAAT
92116168 ATATTTTATATTATAA
1 ATATTTTATATTATAA
92116184 AGCTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTTTATATTATAAT
Found at i:92124521 original size:17 final size:17
Alignment explanation
Indices: 92124496--92124529 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92124486 AAATAGGCGA
92124496 GTGGAAAGGCAATGAAG
1 GTGGAAAGGCAATGAAG
*
92124513 GTGGCAAGGCAATGAAG
1 GTGGAAAGGCAATGAAG
92124530 ACTTTGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.41, T:0.12
Consensus pattern (17 bp):
GTGGAAAGGCAATGAAG
Found at i:92140532 original size:38 final size:38
Alignment explanation
Indices: 92140489--92140564 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
92140479 AATATTACTC
92140489 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
1 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
92140527 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
1 TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
92140565 AATAAGAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (38 bp):
TCTTCACATATTATTTCAAAATAACTCTTTTACTGCTG
Found at i:92142219 original size:24 final size:24
Alignment explanation
Indices: 92142170--92142219 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
92142160 TTAAATGTTA
* * *
92142170 AATAAGATACTATCTTTTTCCTGT
1 AATAAGATACTATATGTTTACTGT
92142194 AATAAGATACT-TATGTTTACTAGT
1 AATAAGATACTATATGTTTACT-GT
92142218 AA
1 AA
92142220 CAAAGAGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (24 bp):
AATAAGATACTATATGTTTACTGT
Found at i:92142928 original size:38 final size:38
Alignment explanation
Indices: 92142872--92142953 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
92142862 CTTAGAAGAT
*
92142872 TTTTGATATGGTTCAGTATTATTATTTTAACAACTTAC
1 TTTTCATATGGTTCAGTATTATTATTTTAACAACTTAC
*
92142910 TTTTCATATGGTTCAGTATTGTTATTTTAACAACTTAC
1 TTTTCATATGGTTCAGTATTATTATTTTAACAACTTAC
92142948 TTTTCA
1 TTTTCA
92142954 ATCTTGTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (38 bp):
TTTTCATATGGTTCAGTATTATTATTTTAACAACTTAC
Found at i:92151876 original size:37 final size:38
Alignment explanation
Indices: 92151827--92151904 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
92151817 TAAAGGGTCA
*
92151827 TTTGAGGATTATATATTTT-CATCCATATTCAAATATG
1 TTTGAGGATTATATATTTTACACCCATATTCAAATATG
* *
92151864 TTTGAGGGTTATATATTTTGACACCCATATTTAAATATG
1 TTTGAGGATTATATATTTT-ACACCCATATTCAAATATG
92151903 TT
1 TT
92151905 CAAGTGTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 18 0.50
39 18 0.50
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (38 bp):
TTTGAGGATTATATATTTTACACCCATATTCAAATATG
Found at i:92154250 original size:45 final size:45
Alignment explanation
Indices: 92154186--92154276 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
92154176 AGTGGGTCCG
92154186 TGATTTTTATATACTAAATCTTACCTTGAAGTTCCCTTCAAGTCA
1 TGATTTTTATATACTAAATCTTACCTTGAAGTTCCCTTCAAGTCA
92154231 TGATTTTTATATACTAAATCTTACCTTGAAGTTCCCTTCAAGTCA
1 TGATTTTTATATACTAAATCTTACCTTGAAGTTCCCTTCAAGTCA
92154276 T
1 T
92154277 AAAGAATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (45 bp):
TGATTTTTATATACTAAATCTTACCTTGAAGTTCCCTTCAAGTCA
Found at i:92154661 original size:31 final size:31
Alignment explanation
Indices: 92154621--92154679 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
92154611 GTGTAATTCA
* * *
92154621 TATTTGAGTTAAACCGAAAAATTTAATTTTT
1 TATTCGAGTTAAACCAAAAAATTAAATTTTT
* *
92154652 TATTCGAGTTGATCCAAAAAATTAAATT
1 TATTCGAGTTAAACCAAAAAATTAAATT
92154680 AACTAAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
TATTCGAGTTAAACCAAAAAATTAAATTTTT
Found at i:92154974 original size:2 final size:2
Alignment explanation
Indices: 92154967--92155001 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92154957 TAACCAAGTG
92154967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92155002 GATAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:92156704 original size:2 final size:2
Alignment explanation
Indices: 92156697--92156742 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
92156687 CCTCGCACAA
92156697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92156739 AT AT
1 AT AT
92156743 TACTAAGCAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92159920 original size:55 final size:54
Alignment explanation
Indices: 92159843--92160087 Score: 240
Period size: 55 Copynumber: 4.6 Consensus size: 54
92159833 AAGGATGTCG
* * *
92159843 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGGCAAGGAAATCA
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAG-TTTCTAAGGCAAGGATACCA
* * * *
92159898 TGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCAAAGG-TCCCA
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC-AAGGATACCA
* * * *
92159953 TATAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGCAAGGCTACCA
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGCAAGGATACCA
*
92160006 TGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---AAGGATACCA
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGCAAGGATACCA
* * *
92160055 CGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAG
92160088 GTACTCGTGT
Statistics
Matches: 161, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 39 0.24
52 7 0.04
53 39 0.24
54 13 0.08
55 59 0.37
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
TGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGCAAGGATACCA
Found at i:92160300 original size:16 final size:16
Alignment explanation
Indices: 92160279--92160309 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92160269 ATAAATTTGA
92160279 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
92160295 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
92160310 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:92163866 original size:5 final size:5
Alignment explanation
Indices: 92163856--92163886 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
92163846 ACCATGAATA
92163856 TATAT TATAT TATAT TATAT TATAT ATATAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT
92163887 AACACCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:92163870 original size:33 final size:31
Alignment explanation
Indices: 92163791--92163870 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 31
92163781 AAGTCTCATA
*
92163791 AATT-TATATATTATATAAAACCATAACCAT
1 AATTATATATATTATATAAAACCAAAACCAT
*
92163821 AATTATATATATTATATACAA-CAAAACCAT
1 AATTATATATATTATATAAAACCAAAACCAT
92163851 GAATATATATTATATTATAT
1 -AAT-TATA-TATATTATAT
92163871 TATATTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 12 0.27
31 18 0.41
32 4 0.09
33 10 0.23
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (31 bp):
AATTATATATATTATATAAAACCAAAACCAT
Found at i:92163930 original size:79 final size:81
Alignment explanation
Indices: 92163794--92163949 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 81
92163784 TCTCATAAAT
* * *
92163794 TTATATATTATATAAAACCATAACCATAATTATATATATTATATACAACAAAACCATGAATATAT
1 TTATATATTATATAAAACCAAAACCAT-ATAATATATATTATATAAAACAAAACCATGAATATAT
*
92163859 ATTATAT-TATATTATA
65 AATATATGTATATTATA
* * * *
92163875 TTATATA-TATATAACACCAAAATCCAT-TAATATATATTATATAAAATAAAGCCATGCATATAT
1 TTATATATTATATAAAACCAAAA-CCATATAATATATATTATATAAAACAAAACCATGAATATAT
92163938 AATATATGTATA
65 AATATATGTATA
92163950 ACCACCCACG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
79 37 0.57
80 17 0.26
81 11 0.17
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (81 bp):
TTATATATTATATAAAACCAAAACCATATAATATATATTATATAAAACAAAACCATGAATATATA
ATATATGTATATTATA
Found at i:92166045 original size:35 final size:35
Alignment explanation
Indices: 92165983--92166120 Score: 120
Period size: 35 Copynumber: 3.9 Consensus size: 35
92165973 CACATATGGT
* * * * *
92165983 CGAATATGCATATTTAAGATAACTTCACATATATC
1 CGAATATACAAATTCAATATAACTTCACATGTATC
* * *
92166018 CGAGTATACAATTTCAATATAAGTTCACATGTAAT-
1 CGAATATACAAATTCAATATAACTTCACATGT-ATC
* * *
92166053 CGAATACTA-AAATTCAATATAACCTCACATGCAGC
1 CGAATA-TACAAATTCAATATAACTTCACATGTATC
*
92166088 CGAATATACAAGTTCAATATAAGCTT-ACATGTA
1 CGAATATACAAATTCAATATAA-CTTCACATGTA
92166121 CTTACCTATG
Statistics
Matches: 81, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
34 3 0.04
35 72 0.89
36 6 0.07
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (35 bp):
CGAATATACAAATTCAATATAACTTCACATGTATC
Found at i:92173729 original size:14 final size:15
Alignment explanation
Indices: 92173710--92173742 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
92173700 CAACCATTGC
92173710 TTTTCTTT-TCTTTA
1 TTTTCTTTATCTTTA
*
92173724 TTTTCTTTATTTTTA
1 TTTTCTTTATCTTTA
92173739 TTTT
1 TTTT
92173743 TTATTTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTATCTTTA
Found at i:92173823 original size:20 final size:21
Alignment explanation
Indices: 92173779--92173823 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
92173769 TTCTTTATTT
* *
92173779 ATTTT-TGTTTATTTTCTTTT
1 ATTTTGTGTTTATTATCTTTG
92173799 A-TTTGTGTTTATTAT-TTTG
1 ATTTTGTGTTTATTATCTTTG
92173818 ATTTTG
1 ATTTTG
92173824 AGTTGGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.73
Consensus pattern (21 bp):
ATTTTGTGTTTATTATCTTTG
Found at i:92175375 original size:6 final size:6
Alignment explanation
Indices: 92175351--92175396 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
92175341 TTTGAGTCCA
*
92175351 TTTAAT TTATTAT TATTAAT TTTAAT TTTAAT TTTAAT TTT-AT TTT
1 TTTAAT TT-TAAT T-TTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT
92175397 CCTTTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 5 0.14
6 22 0.61
7 8 0.22
8 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:92183500 original size:34 final size:34
Alignment explanation
Indices: 92183457--92183529 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
92183447 TAGTGAAAAG
92183457 CTGGATGATTTTCCTACTGCTGCTAGAAAGTATC
1 CTGGATGATTTTCCTACTGCTGCTAGAAAGTATC
92183491 CTGGATGATTTTCCTACTGCTGCTAGAAAGTATC
1 CTGGATGATTTTCCTACTGCTGCTAGAAAGTATC
92183525 CTGGA
1 CTGGA
92183530 AAGAATGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
CTGGATGATTTTCCTACTGCTGCTAGAAAGTATC
Found at i:92184087 original size:10 final size:10
Alignment explanation
Indices: 92184072--92184115 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
92184062 ATAGTTATAA
92184072 ATATGTACAT
1 ATATGTACAT
92184082 ATATGT--AT
1 ATATGTACAT
92184090 ATATGTACAT
1 ATATGTACAT
*
92184100 ATATTTACAT
1 ATATGTACAT
92184110 ATATGT
1 ATATGT
92184116 CATCAACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 8 0.27
10 22 0.73
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (10 bp):
ATATGTACAT
Found at i:92184111 original size:18 final size:18
Alignment explanation
Indices: 92184072--92184111 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
92184062 ATAGTTATAA
*
92184072 ATATGTACATATATGTAT
1 ATATGTACATATATGTAC
*
92184090 ATATGTACATATATTTAC
1 ATATGTACATATATGTAC
92184108 ATAT
1 ATAT
92184112 ATGTCATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (18 bp):
ATATGTACATATATGTAC
Found at i:92188840 original size:41 final size:41
Alignment explanation
Indices: 92188783--92188863 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
92188773 AAAACATATT
92188783 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGGC
1 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGGC
92188824 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGG
1 ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGG
92188864 TTCAAACTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (41 bp):
ACTGCATGATTAATTGAGAATAATACCTTACAAATTTTGGC
Found at i:92191001 original size:2 final size:2
Alignment explanation
Indices: 92190996--92191072 Score: 102
Period size: 2 Copynumber: 39.0 Consensus size: 2
92190986 TAAAAAAAGA
* * * *
92190996 AT AT AT AC AT A- AT AT AC AT GT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
92191037 AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92191073 GAGATATTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:92192194 original size:2 final size:2
Alignment explanation
Indices: 92192187--92192219 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
92192177 ATAATATAGG
92192187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92192220 GCAAATAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92193882 original size:5 final size:5
Alignment explanation
Indices: 92193862--92193894 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
92193852 TTATGTGTTC
92193862 TTTAT TTT-T ATTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT
92193895 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:92199038 original size:22 final size:21
Alignment explanation
Indices: 92199011--92199065 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
92199001 CACATGGGTA
92199011 TAACAATGAAAGACACAT-GATC
1 TAACAATGAAA-ACA-ATAGATC
92199033 TAACAATGACGAAACAATAGATC
1 TAACAATGA--AAACAATAGATC
92199056 -AACAATGAAA
1 TAACAATGAAA
92199066 TGGCGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.07
22 19 0.63
23 7 0.23
24 2 0.07
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (21 bp):
TAACAATGAAAACAATAGATC
Found at i:92202225 original size:16 final size:16
Alignment explanation
Indices: 92202193--92202226 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92202183 TTCATGGATG
**
92202193 AACAATAAAAATTAAA
1 AACAATAAAAAGAAAA
92202209 AACAATAAAAAGAAAA
1 AACAATAAAAAGAAAA
92202225 AA
1 AA
92202227 GAAAAAGAAA
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:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AACAATAAAAAGAAAA
Found at i:92202233 original size:13 final size:13
Alignment explanation
Indices: 92202215--92202239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92202205 TAAAAACAAT
92202215 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
92202228 AAAAAGAAAAAA
1 AAAAAGAAAAAA
92202240 AATTAAGTCT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:92205244 original size:31 final size:31
Alignment explanation
Indices: 92205203--92205269 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
92205193 CGCAAAGCAA
*
92205203 AATGAAAGCAAATGTTGCACACTGGTTGTCT
1 AATGTAAGCAAATGTTGCACACTGGTTGTCT
* *
92205234 AATGTAAGCAAATGTTGCTCATTGGTTGTCT
1 AATGTAAGCAAATGTTGCACACTGGTTGTCT
92205265 AATGT
1 AATGT
92205270 TTAACTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (31 bp):
AATGTAAGCAAATGTTGCACACTGGTTGTCT
Found at i:92210426 original size:22 final size:21
Alignment explanation
Indices: 92210396--92210442 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
92210386 TACAAATTAA
92210396 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
92210418 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
92210439 ATCT
1 ATCT
92210443 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:92210436 original size:16 final size:16
Alignment explanation
Indices: 92210415--92210465 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
92210405 ATTACAAGAT
92210415 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
92210431 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
92210450 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
92210466 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:92210448 original size:19 final size:21
Alignment explanation
Indices: 92210413--92210455 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
92210403 AGATTACAAG
92210413 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
92210434 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
92210453 ATC
1 ATC
92210456 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:92213944 original size:15 final size:13
Alignment explanation
Indices: 92213907--92213936 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
92213897 CGGCCTAGCA
*
92213907 CACGGGTGTGTGG
1 CACGAGTGTGTGG
92213920 CACGAGTGTGTGG
1 CACGAGTGTGTGG
92213933 CACG
1 CACG
92213937 GCCGTGTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (13 bp):
CACGAGTGTGTGG
Found at i:92218791 original size:21 final size:21
Alignment explanation
Indices: 92218767--92218827 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
92218757 TTGAAAATTG
92218767 TAATTAGATTATATAATTAGA
1 TAATTAGATTATATAATTAGA
* *
92218788 TAATTAG-TAAT-TAATTAAA
1 TAATTAGATTATATAATTAGA
* *
92218807 TAA-AATATTATAATAATTAGA
1 TAATTAGATTAT-ATAATTAGA
92218828 ATTAATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 3 0.10
21 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAATTAGATTATATAATTAGA
Found at i:92220497 original size:26 final size:26
Alignment explanation
Indices: 92220461--92220570 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
92220451 TGATACAAAT
92220461 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92220487 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92220513 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92220539 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92220565 TGATAA
1 TGATAA
92220571 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:92223644 original size:18 final size:17
Alignment explanation
Indices: 92223613--92223677 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
92223603 TATTATTATA
*
92223613 GCGAACTGTGTTAATTT
1 GCGAACTGTATTAATTT
* *
92223630 GCTGATCTGTATTAATATG
1 GC-GAACTGTATTAAT-TT
*
92223649 GCGAACTATATTAATTT
1 GCGAACTGTATTAATTT
*
92223666 GCCAAACTGTAT
1 G-CGAACTGTAT
92223678 ATTGTGAGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 4 0.11
18 30 0.81
19 3 0.08
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (17 bp):
GCGAACTGTATTAATTT
Found at i:92223676 original size:36 final size:36
Alignment explanation
Indices: 92223603--92223677 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
92223593 TGGTGAATTA
* * * ** *
92223603 TATTATTATAGCGAACTGTGTTAATTTGCTGATCTG
1 TATTAATATAGCGAACTATATTAATTTGCCAAACTG
*
92223639 TATTAATATGGCGAACTATATTAATTTGCCAAACTG
1 TATTAATATAGCGAACTATATTAATTTGCCAAACTG
92223675 TAT
1 TAT
92223678 ATTGTGAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (36 bp):
TATTAATATAGCGAACTATATTAATTTGCCAAACTG
Found at i:92231563 original size:30 final size:30
Alignment explanation
Indices: 92231527--92231585 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
92231517 CAGGTTAAAA
92231527 TACGGGTGTAGGTAAAAAATGCAAAACAGT
1 TACGGGTGTAGGTAAAAAATGCAAAACAGT
*
92231557 TACGGGTGTAGGTCAAAAATGCAAAACAG
1 TACGGGTGTAGGTAAAAAATGCAAAACAG
92231586 CAAGGTGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (30 bp):
TACGGGTGTAGGTAAAAAATGCAAAACAGT
Found at i:92231850 original size:16 final size:15
Alignment explanation
Indices: 92231812--92231850 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
92231802 GTAGATATGA
92231812 ATTGTATTTTTTTAC
1 ATTGTATTTTTTTAC
* *
92231827 AGTATATTTTTTTGAC
1 ATTGTATTTTTTT-AC
92231843 ATTGTATT
1 ATTGTATT
92231851 GAGAATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (15 bp):
ATTGTATTTTTTTAC
Found at i:92242091 original size:14 final size:14
Alignment explanation
Indices: 92242072--92242103 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
92242062 ATCAAAACAC
92242072 ATAAATATAATACA
1 ATAAATATAATACA
*
92242086 ATAAATATAGTACA
1 ATAAATATAATACA
92242100 ATAA
1 ATAA
92242104 TATCATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (14 bp):
ATAAATATAATACA
Found at i:92242379 original size:18 final size:18
Alignment explanation
Indices: 92242344--92242379 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92242334 TAAGGGTCAA
*
92242344 GTCCCATCACCCAGCAAC
1 GTCCCATCACCCAACAAC
*
92242362 GTCCCATCATCCAACAAC
1 GTCCCATCACCCAACAAC
92242380 ATCAGGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.14
Consensus pattern (18 bp):
GTCCCATCACCCAACAAC
Found at i:92242928 original size:13 final size:13
Alignment explanation
Indices: 92242912--92242958 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
92242902 TTATTTTATT
92242912 TTATTTAGTTTTA
1 TTATTTAGTTTTA
*
92242925 TTATTTATTTTTA
1 TTATTTAGTTTTA
*
92242938 TTTTTTA-TTTTA
1 TTATTTAGTTTTA
92242950 TTAATTTAG
1 TT-ATTTAG
92242959 CTTTGGCCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 7 0.24
13 22 0.76
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:92242930 original size:18 final size:16
Alignment explanation
Indices: 92242900--92242956 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 16
92242890 AAATAGAAGA
92242900 TATTATTTTATTTTATT
1 TATT-TTTTATTTTATT
*
92242917 TAGTTTTATTATTTATTTT
1 TA-TTTT-TTATTT-TATT
92242936 TATTTTTTATTTTATT
1 TATTTTTTATTTTATT
*
92242952 AATTT
1 TATTT
92242957 AGCTTTGGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 7 0.21
17 10 0.29
18 12 0.35
19 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TATTTTTTATTTTATT
Found at i:92244553 original size:13 final size:12
Alignment explanation
Indices: 92244525--92244589 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 12
92244515 AAATAGAAGA
92244525 TATTATTTTATTT
1 TATTA-TTTATTT
92244538 TATTTAGTTTTATTATT
1 TA-TTA--TTTA-T-TT
92244555 TATTATTTATTTT
1 TATTATTTA-TTT
92244568 TATTATTTATTT
1 TATTATTTATTT
92244580 TATTAATTTA
1 TATT-ATTTA
92244590 GCTTTAGCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.15
13 18 0.38
14 9 0.19
15 5 0.11
16 4 0.09
17 4 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:92244558 original size:7 final size:7
Alignment explanation
Indices: 92244537--92244578 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
92244527 TTATTTTATT
92244537 TTATTTA
1 TTATTTA
*
92244544 GT-TTTA
1 TTATTTA
92244550 TTATTTA
1 TTATTTA
92244557 TTATTTA
1 TTATTTA
92244564 TT-TTTA
1 TTATTTA
92244570 TTATTTA
1 TTATTTA
92244577 TT
1 TT
92244579 TTATTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:92244560 original size:20 final size:20
Alignment explanation
Indices: 92244537--92244578 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
92244527 TTATTTTATT
92244537 TTATTTAGTTTTATTATTTA
1 TTATTTAGTTTTATTATTTA
*
92244557 TTATTTATTTTTATTATTTA
1 TTATTTAGTTTTATTATTTA
92244577 TT
1 TT
92244579 TTATTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTATTTAGTTTTATTATTTA
Found at i:92251085 original size:11 final size:11
Alignment explanation
Indices: 92251066--92251117 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
92251056 TGTTCTTTGG
*
92251066 TATTCTTTTAC
1 TATTATTTTAC
*
92251077 TATTATTTTAT
1 TATTATTTTAC
92251088 TATTATATTT-C
1 TATTAT-TTTAC
*
92251099 TATTATTTTAT
1 TATTATTTTAC
92251110 TATTATTT
1 TATTATTT
92251118 AGATATTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 3 0.09
11 29 0.83
12 3 0.09
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTATTTTAC
Found at i:92251124 original size:22 final size:22
Alignment explanation
Indices: 92251077--92251126 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
92251067 ATTCTTTTAC
**
92251077 TATTATTTTATTATTATATTTC
1 TATTATTTTATTATTATATTGA
92251099 TATTATTTTATTATTAT-TTAGA
1 TATTATTTTATTATTATATT-GA
92251121 TATTAT
1 TATTAT
92251127 GTAACTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTATTTTATTATTATATTGA
Found at i:92270894 original size:23 final size:23
Alignment explanation
Indices: 92270847--92270914 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
92270837 AAAAAAGATT
*
92270847 TTATACTAATAAATTTCAAATATA
1 TTATACTAATAAATCT-AAATATA
* *
92270871 TTTTGCTAATAAATCTAAATATA
1 TTATACTAATAAATCTAAATATA
*
92270894 TTATACTAAAAAATACTAAAT
1 TTATACTAATAAAT-CTAAAT
92270915 CTTCTAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (23 bp):
TTATACTAATAAATCTAAATATA
Found at i:92272158 original size:18 final size:18
Alignment explanation
Indices: 92272137--92272171 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
92272127 GGAAAACAAC
92272137 AAAACCTAAAGAAACCCA
1 AAAACCTAAAGAAACCCA
92272155 AAAACCTAAAGAAACCC
1 AAAACCTAAAGAAACCC
92272172 CAGATGCGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.29, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAACCTAAAGAAACCCA
Found at i:92272692 original size:8 final size:8
Alignment explanation
Indices: 92272677--92272722 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
92272667 ATAAAATAAT
92272677 AAAT-AAG
1 AAATAAAG
92272684 AAATAAAG
1 AAATAAAG
92272692 AAATAAAG
1 AAATAAAG
92272700 AAAT--A-
1 AAATAAAG
92272705 AAATAAAG
1 AAATAAAG
92272713 AAATAAAG
1 AAATAAAG
92272721 AA
1 AA
92272723 TGAAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.11
6 1 0.03
7 5 0.14
8 25 0.71
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (8 bp):
AAATAAAG
Found at i:92272710 original size:13 final size:13
Alignment explanation
Indices: 92272692--92272719 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92272682 AGAAATAAAG
92272692 AAATAAAGAAATA
1 AAATAAAGAAATA
92272705 AAATAAAGAAATA
1 AAATAAAGAAATA
92272718 AA
1 AA
92272720 GAATGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAATAAAGAAATA
Found at i:92272728 original size:21 final size:21
Alignment explanation
Indices: 92272662--92272729 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
92272652 ATGAGTAAGC
*
92272662 TGAAAATAAA-ATAATAAATAA
1 TGAAAATAAAGA-AATAAAGAA
92272683 -G-AAATAAAGAAATAAAGAAA
1 TGAAAATAAAGAAATAAAG-AA
92272703 T-AAAATAAAGAAATAAAGAA
1 TGAAAATAAAGAAATAAAGAA
92272723 TGAAAAT
1 TGAAAAT
92272730 GAAAATGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
19 13 0.32
20 7 0.17
21 21 0.51
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (21 bp):
TGAAAATAAAGAAATAAAGAA
Found at i:92277634 original size:30 final size:30
Alignment explanation
Indices: 92277578--92277634 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92277568 CACGGGTTGC
*
92277578 CACATGGGCGTGTGGCTAGCCCGTGTGGCT
1 CACATGGGCGTATGGCTAGCCCGTGTGGCT
*
92277608 CACATGGGCGTAT-GCTCAGCCTGTGTG
1 CACATGGGCGTATGGCT-AGCCCGTGTG
92277635 TAAATGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.12, C:0.26, G:0.37, T:0.25
Consensus pattern (30 bp):
CACATGGGCGTATGGCTAGCCCGTGTGGCT
Found at i:92281615 original size:24 final size:24
Alignment explanation
Indices: 92281584--92281652 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
92281574 ATTAATAATT
92281584 TTATGCTAATAAATG-TCAAATATA
1 TTATGCTAATAAATGCT-AAATATA
*
92281608 TTATGCTAATAAATGCTAAATTTA
1 TTATGCTAATAAATGCTAAATATA
* *
92281632 TTATACTAATAAATACTAAAT
1 TTATGCTAATAAATGCTAAAT
92281653 CTTTTGGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (24 bp):
TTATGCTAATAAATGCTAAATATA
Found at i:92283237 original size:25 final size:25
Alignment explanation
Indices: 92283209--92283261 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
92283199 ATATTATGTG
*
92283209 AAATAATGTATAGAATACA-ATATTA
1 AAAT-ATGTACAGAATACACATATTA
* *
92283234 AAATATTTACATAATACACATATTA
1 AAATATGTACAGAATACACATATTA
92283259 AAA
1 AAA
92283262 ATAACTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
AAATATGTACAGAATACACATATTA
Found at i:92283272 original size:25 final size:24
Alignment explanation
Indices: 92283222--92283274 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
92283212 TAATGTATAG
**
92283222 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
92283246 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
92283271 AATA
1 AATA
92283275 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:92283968 original size:6 final size:6
Alignment explanation
Indices: 92283957--92283981 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
92283947 GTCGGAACGT
92283957 CGCCGG CGCCGG CGCCGG CGCCGG C
1 CGCCGG CGCCGG CGCCGG CGCCGG C
92283982 CACTGCACGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.48, T:0.00
Consensus pattern (6 bp):
CGCCGG
Found at i:92284570 original size:16 final size:16
Alignment explanation
Indices: 92284549--92284580 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92284539 TTTTGTGTAA
*
92284549 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
92284565 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
92284581 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:92296048 original size:35 final size:35
Alignment explanation
Indices: 92296009--92296081 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
92295999 GGTATGTGAT
92296009 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
92296044 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
92296079 ATA
1 ATA
92296082 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:92308336 original size:25 final size:26
Alignment explanation
Indices: 92308300--92308353 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
92308290 ATATATTTAT
*
92308300 CATCTAATCATCATTTATGTAATTAA
1 CATCTAATCATCATTTATGAAATTAA
*
92308326 CATCT-ATCATCATTTATGAAATTTA
1 CATCTAATCATCATTTATGAAATTAA
92308351 CAT
1 CAT
92308354 ACCTCGCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.43
Consensus pattern (26 bp):
CATCTAATCATCATTTATGAAATTAA
Found at i:92311820 original size:20 final size:19
Alignment explanation
Indices: 92311776--92311822 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
92311766 CAAAAACAAA
*
92311776 AATAAAATAAGAGAAAACT
1 AATAAAATAAGAGAAAAAT
*
92311795 ACTAAAATAA-ATGGAAAAAT
1 AATAAAATAAGA--GAAAAAT
92311815 AATAAAAT
1 AATAAAAT
92311823 TAGGTTGCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 13 0.57
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (19 bp):
AATAAAATAAGAGAAAAAT
Found at i:92314875 original size:15 final size:16
Alignment explanation
Indices: 92314842--92314883 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
92314832 CGAGTTATCC
92314842 AAAAATAATTAAAAGAT
1 AAAAAT-ATTAAAAGAT
92314859 -AAAATATTAGAAA-AT
1 AAAAATATTA-AAAGAT
92314874 AAAAATATTA
1 AAAAATATTA
92314884 TGTTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAAATATTAAAAGAT
Found at i:92320270 original size:17 final size:16
Alignment explanation
Indices: 92320233--92320262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92320223 GGGTATAATA
92320233 AAATA-TTAAAAAATT
1 AAATATTTAAAAAATT
92320248 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
92320263 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATTTAAAAAATT
Found at i:92323037 original size:21 final size:21
Alignment explanation
Indices: 92323011--92323051 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92323001 ATCTGCTCAA
* *
92323011 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
92323032 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
92323052 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:92328989 original size:20 final size:17
Alignment explanation
Indices: 92328951--92328986 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
92328941 CCATTCATTC
92328951 AAATCAAAACAAAGAAG
1 AAATCAAAACAAAGAAG
92328968 AAATCAAAACAAAGAAG
1 AAATCAAAACAAAGAAG
92328985 AA
1 AA
92328987 GAAGTTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (17 bp):
AAATCAAAACAAAGAAG
Found at i:92337893 original size:45 final size:45
Alignment explanation
Indices: 92337837--92337927 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
92337827 GGACTATGTG
92337837 ATCTGAACTCATTGAGTTATGGTCTGAGTTCAGGATATATGTGAC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCAGGATATATGTGAC
* * * *
92337882 ATCTGAGCTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCAGGATATATGTGAC
92337927 A
1 A
92337928 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.36
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCAGGATATATGTGAC
Found at i:92338300 original size:2 final size:2
Alignment explanation
Indices: 92338293--92338317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92338283 TATGTATGTG
92338293 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
92338318 GAAGAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92343351 original size:18 final size:18
Alignment explanation
Indices: 92343328--92343362 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
92343318 AAAGTGATAA
92343328 AATTAAA-AGATAATAAAT
1 AATTAAATAGA-AATAAAT
92343346 AATTAAATAGAAATAAA
1 AATTAAATAGAAATAAA
92343363 AATAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AATTAAATAGAAATAAAT
Found at i:92344144 original size:7 final size:7
Alignment explanation
Indices: 92344132--92344165 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
92344122 AATAATGATC
92344132 GATAAAT
1 GATAAAT
92344139 GATAAAT
1 GATAAAT
92344146 GATAAAT
1 GATAAAT
92344153 GATAAAT
1 GATAAAT
92344160 GATAAA
1 GATAAA
92344166 AATGTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:92348495 original size:2 final size:2
Alignment explanation
Indices: 92348488--92348524 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
92348478 GAGACTAGTC
92348488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92348525 CATGTCATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92353322 original size:19 final size:20
Alignment explanation
Indices: 92353298--92353335 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
92353288 GGTACCACCA
92353298 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
92353317 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
92353336 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:92353630 original size:46 final size:45
Alignment explanation
Indices: 92353563--92353730 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
92353553 CGCCCCTAAG
* *
92353563 TGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-CTAGCATCCATAAA
* * **
92353609 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--GCCTAGCATCCAT-AAA
* * * * * *
92353656 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-CTAGCATCCATAAA
92353702 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
92353731 ATGCTCAACC
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 61 0.62
47 35 0.35
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCCTAGCATCCATAAA
Found at i:92353723 original size:93 final size:93
Alignment explanation
Indices: 92353564--92353734 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
92353554 GCCCCTAAGT
* * *
92353564 GAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAATGAACTCGGACTCAACTCAA
92353629 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
92353657 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAATGAACTCGGACTCAACTCAA
92353722 CGAGTTCGGATGC
66 CGAGTTCGGATGC
92353735 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:92354186 original size:30 final size:29
Alignment explanation
Indices: 92354152--92354210 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
92354142 ATTTAATACG
92354152 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTT-CCCCTA
*** *
92354182 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTCCCCTA
92354211 GGCTCGGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
AACTTTAAAAAAATTACACTTTTCCCCTA
Found at i:92357748 original size:30 final size:30
Alignment explanation
Indices: 92357714--92357774 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
92357704 TCCTTAACTC
92357714 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
92357744 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
92357774 A
1 A
92357775 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:92362145 original size:30 final size:30
Alignment explanation
Indices: 92362111--92362171 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
92362101 TCCTTAACTC
92362111 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
92362141 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
92362171 A
1 A
92362172 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:92369041 original size:37 final size:37
Alignment explanation
Indices: 92368938--92369041 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 37
92368928 CGGTACACAT
*
92368938 TGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAAC
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAAAC
* **
92368975 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGCAC
1 T-GCACGAATGCCTTCGGGTCTTAGCCCGGATAAAAAC
*
92369013 TGCACGAATTGCCTTCGGG-CTTAACCCGG
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGG
92369042 TTATAATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 17 0.28
38 43 0.72
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (37 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAAAC
Found at i:92377092 original size:80 final size:80
Alignment explanation
Indices: 92377008--92377156 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
92376998 TATGGTAACC
* * * *
92377008 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
92377072 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
92377088 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
92377153 CCGG
66 CCGG
92377157 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:92377098 original size:40 final size:38
Alignment explanation
Indices: 92377049--92377156 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
92377039 ATCACGATTT
*
92377049 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
92377089 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
92377129 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
92377157 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:92385210 original size:80 final size:80
Alignment explanation
Indices: 92385126--92385274 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
92385116 TATGGTAACC
* * * *
92385126 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
92385190 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
92385206 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
92385271 CCGG
66 CCGG
92385275 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:92385216 original size:40 final size:38
Alignment explanation
Indices: 92385167--92385274 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
92385157 ATCACGATTT
*
92385167 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
92385207 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
92385247 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
92385275 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:92391525 original size:55 final size:55
Alignment explanation
Indices: 92391464--92391568 Score: 183
Period size: 55 Copynumber: 1.9 Consensus size: 55
92391454 TTTTTTTACA
* *
92391464 TAGGAAAATTAAAAGGAAATTGTAAGTAAATATGTTTCAGAACGTAACACCCGAG
1 TAGGAAAATAAAAAGGAAATTGTAAGTAAATATATTTCAGAACGTAACACCCGAG
*
92391519 TAGGAAAATAAAAAGGAAATTGTAAGTAAATCTATTTCAGAACGTAACAC
1 TAGGAAAATAAAAAGGAAATTGTAAGTAAATATATTTCAGAACGTAACAC
92391569 TTGAGACTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (55 bp):
TAGGAAAATAAAAAGGAAATTGTAAGTAAATATATTTCAGAACGTAACACCCGAG
Found at i:92392736 original size:35 final size:35
Alignment explanation
Indices: 92392707--92392774 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
92392697 GAAGGACTTG
92392707 TATACTACTTACACGGTGTCGCCCCGAAGGACCCA
1 TATACTACTTACACGGTGTCGCCCCGAAGGACCCA
* ** *
92392742 TATATTTTTTACATGGTGTCGCCCCGAAGGACC
1 TATACTACTTACACGGTGTCGCCCCGAAGGACC
92392775 TATAGATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (35 bp):
TATACTACTTACACGGTGTCGCCCCGAAGGACCCA
Found at i:92394422 original size:51 final size:51
Alignment explanation
Indices: 92394341--92394476 Score: 145
Period size: 51 Copynumber: 2.7 Consensus size: 51
92394331 TGCCCGGTGT
*
92394341 CCTGCACATAGTACCACCCTTG-TAGTCAAAGCTACCTTCTTCACA-A-AGTGG
1 CCTGCACATAGTACCACACTTGTTA-TCAAAGCTACCTT-TT-ACAGATAGTGG
* * *
92394392 CCTTCACATAGTACCACACTTGTTACCAAAGCTATCTTTTACAGATAGTGG
1 CCTGCACATAGTACCACACTTGTTATCAAAGCTACCTTTTACAGATAGTGG
* * *
92394443 CCTGCACTTAAG-ACCACACATGTGATCAAAGCTA
1 CCTGCACAT-AGTACCACACTTGTTATCAAAGCTA
92394477 TCGGGTACGT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
49 3 0.04
50 3 0.04
51 62 0.86
52 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (51 bp):
CCTGCACATAGTACCACACTTGTTATCAAAGCTACCTTTTACAGATAGTGG
Found at i:92405121 original size:46 final size:48
Alignment explanation
Indices: 92405025--92405348 Score: 352
Period size: 46 Copynumber: 6.9 Consensus size: 48
92405015 CATAGGGTAT
*
92405025 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT--CATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-C-TC
* * *
92405073 AA-GTCGATGCCATGTCCTAGACAT-GTCTTACACTGGCTGACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC
* * *
92405119 AAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC
92405165 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-ATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACATCTC
* * *
92405213 AATGGCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC
* * * *
92405259 AATGCTGATGCTATGTCCTAGACATGGTCTTACACTGGCTCTCA--T-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC
* *
92405304 AATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCACACA
1 AA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
92405349 AATAACCCGA
Statistics
Matches: 241, Mismatches: 23, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
45 2 0.01
46 102 0.42
47 81 0.34
48 56 0.23
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC
Found at i:92405213 original size:94 final size:94
Alignment explanation
Indices: 92405028--92405338 Score: 411
Period size: 94 Copynumber: 3.3 Consensus size: 94
92405018 AGGGTATAAT
* * *
92405028 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-GCTCATCCATCAA-GTCGATGCCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-C-TCAATGCCGATGCCATGTCC
*
92405090 TAGACAT-GTCTTACACTGGCT-GACATCTCAAG
62 TAGACATGGTCTTACACTGGCTCTA-ATCTCAAG
*
92405122 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCTAGA
92405187 CATGGTCTTACACTGGCTCTAATCTCAATG
66 CATGGTCTTACACTGGCTCTAATCTCAA-G
* *
92405217 G-CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATGCTATGTCCTAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCTAGA
* * **
92405281 CATGGTCTTACACTGGCTCTCATAAT-GTG
66 CATGGTCTTACACTGGCTCTAAT-CTCAAG
92405310 GCCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
92405339 TTGGCACACA
Statistics
Matches: 197, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
92 14 0.07
93 37 0.19
94 142 0.72
95 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCTAGA
CATGGTCTTACACTGGCTCTAATCTCAAG
Done.