Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 268 of 325
Found at i:83283081 original size:120 final size:122
Alignment explanation
Indices: 83282863--83283106 Score: 370
Period size: 120 Copynumber: 2.0 Consensus size: 122
83282853 GCGTGACCTG
* *
83282863 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCA-CG
83282928 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
65 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAA-AAAAATTAAA
* * * *
83282988 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCA-GT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCACGT
*
83283049 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
83283106 A
1 A
83283107 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
118 11 0.10
119 4 0.04
120 44 0.39
122 18 0.16
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCACGT
GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
Found at i:83283143 original size:70 final size:67
Alignment explanation
Indices: 83282988--83283159 Score: 204
Period size: 70 Copynumber: 2.5 Consensus size: 67
83282978 AAAAATTAAA
* * * *
83282988 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGTGCC
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGTGCC
83283052 CCG
65 CCG
*
83283055 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTC-A-GT
* **
83283119 GTCTTG
62 GCCCCG
83283125 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTT
83283160 CCTTGAAAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
66 1 0.01
67 25 0.27
68 21 0.23
69 5 0.05
70 38 0.42
71 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (67 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGTGCCC
CG
Found at i:83291447 original size:12 final size:12
Alignment explanation
Indices: 83291427--83291462 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
83291417 TGGGATATGC
*
83291427 AATGTATGAATG
1 AATGCATGAATG
83291439 AATGCATGAATG
1 AATGCATGAATG
83291451 AATGCATGAATG
1 AATGCATGAATG
83291463 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:83293010 original size:8 final size:8
Alignment explanation
Indices: 83292985--83293029 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
83292975 TAATGATGTG
*
83292985 AATAATAA
1 AATATTAA
83292993 AATATATAA
1 AATAT-TAA
83293002 AATATTAA
1 AATATTAA
*
83293010 AATATCAA
1 AATATTAA
*
83293018 AATATTAG
1 AATATTAA
83293026 AATA
1 AATA
83293030 ATAATAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:83293246 original size:22 final size:24
Alignment explanation
Indices: 83293183--83293247 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
83293173 CGTGATAATA
*
83293183 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
83293208 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
83293231 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
83293248 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:83293269 original size:2 final size:2
Alignment explanation
Indices: 83293262--83293329 Score: 54
Period size: 2 Copynumber: 35.5 Consensus size: 2
83293252 ACATGTAAAA
* * * *
83293262 AT AT AT AT AT AT AA AT A- AT AT A- AT AT -T AA AG AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
83293301 AT A- AA AT AGT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
83293330 CGTAATATAG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
1 4 0.08
2 47 0.89
3 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:83293274 original size:32 final size:31
Alignment explanation
Indices: 83293236--83293308 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 31
83293226 TATAGTTAAG
*
83293236 ATATATACATAAGATAACATGTAAAAATATAT
1 ATATATAAATAAGATAACAT-TAAAAATATAT
* * *
83293268 ATATATAAATAATATAATATTAAAGATATAT
1 ATATATAAATAAGATAACATTAAAAATATAT
*
83293299 ACATA-AAATA
1 ATATATAAATA
83293309 GTATATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 5 0.14
31 14 0.39
32 17 0.47
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (31 bp):
ATATATAAATAAGATAACATTAAAAATATAT
Found at i:83293291 original size:15 final size:16
Alignment explanation
Indices: 83293257--83293321 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
83293247 AGATAACATG
83293257 TAAAAATATATATATA
1 TAAAAATATATATATA
83293273 TAAATAATATA-ATAT-
1 TAAA-AATATATATATA
* *
83293288 TAAAGATATATACATA
1 TAAAAATATATATATA
*
83293304 -AAATAGTATATATATA
1 TAAA-AATATATATATA
83293320 TA
1 TA
83293322 TATATATACG
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 5 0.13
15 10 0.26
16 17 0.44
17 7 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (16 bp):
TAAAAATATATATATA
Found at i:83293402 original size:23 final size:25
Alignment explanation
Indices: 83293359--83293404 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83293349 TATACCTAAT
83293359 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
83293384 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
83293405 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:83293981 original size:30 final size:29
Alignment explanation
Indices: 83293888--83294032 Score: 173
Period size: 30 Copynumber: 4.8 Consensus size: 29
83293878 TAGGTACAAG
*
83293888 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
* ** *
83293918 AGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
83293948 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
* *
83293978 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
*
83294008 TGGTGGTGGAAAACGTGTGGCTAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGT
83294033 TGAGAAAAGT
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 2 0.02
30 99 0.98
ACGTcount: A:0.21, C:0.05, G:0.48, T:0.27
Consensus pattern (29 bp):
TGGTGGTGGAGAAGTGTGGCTAGTGGAGT
Found at i:83294638 original size:138 final size:138
Alignment explanation
Indices: 83294390--83294656 Score: 408
Period size: 138 Copynumber: 1.9 Consensus size: 138
83294380 ACTTTCTGCT
** * * *
83294390 TATTCATTACAACATTATTTAGTCGTGAAGTCATTTCACTAAAGTATCATGATTGAGCTCTCCAT
1 TATTCATTACAACATTATTTAGTCACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
* * * * *
83294455 TATTATATCCTATCACAAAACTGCTTATCAACTTCTCATCCAATGACTTTGTAATTGTATTACCC
66 TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTCGTAAGTGTATTACCC
83294520 TAATAGGA
131 TAATAGGA
* *
83294528 TATTCATTACAATATTATTTAGTCACGAAGTTATTCCACTAAAATATCATGATTGAACTCTCCAT
1 TATTCATTACAACATTATTTAGTCACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
* *
83294593 TATTATATACTATCACGAAACTGCTAATCAACTTCTCACCCAATGACTTCGTAAGTGTGTTACC
66 TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTCGTAAGTGTATTACC
83294657 ATCATAGTAT
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 115 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (138 bp):
TATTCATTACAACATTATTTAGTCACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTCGTAAGTGTATTACCC
TAATAGGA
Found at i:83298854 original size:19 final size:20
Alignment explanation
Indices: 83298818--83298859 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
83298808 TTTGAATTCA
83298818 TATCAATAAAATATAAATTT
1 TATCAATAAAATATAAATTT
* *
83298838 TATCATTAAATTA-AAATTT
1 TATCAATAAAATATAAATTT
83298857 TAT
1 TAT
83298860 TTTTATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TATCAATAAAATATAAATTT
Found at i:83301125 original size:27 final size:27
Alignment explanation
Indices: 83301095--83301148 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
83301085 AAACCCTAGG
83301095 AAAGAGAAAAACATTCAAGCAAGCTTT
1 AAAGAGAAAAACATTCAAGCAAGCTTT
83301122 AAAGAGAAAAACATTCAAGCAAGCTTT
1 AAAGAGAAAAACATTCAAGCAAGCTTT
83301149 CTTGGCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (27 bp):
AAAGAGAAAAACATTCAAGCAAGCTTT
Found at i:83301599 original size:21 final size:21
Alignment explanation
Indices: 83301575--83301614 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
83301565 ACCTAAGATG
* *
83301575 TAAATTGAATTCAATTGAGTA
1 TAAAGTGAATTAAATTGAGTA
83301596 TAAAGTGAATTAAATTGAG
1 TAAAGTGAATTAAATTGAG
83301615 GCTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (21 bp):
TAAAGTGAATTAAATTGAGTA
Found at i:83301620 original size:21 final size:21
Alignment explanation
Indices: 83301575--83301620 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
83301565 ACCTAAGATG
* * *
83301575 TAAATTGAATTCAATTGAGTA
1 TAAAGTGAATTAAATTGAGGA
*
83301596 TAAAGTGAATTAAATTGAGGC
1 TAAAGTGAATTAAATTGAGGA
83301617 TAAA
1 TAAA
83301621 TTCATTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (21 bp):
TAAAGTGAATTAAATTGAGGA
Found at i:83308485 original size:2 final size:2
Alignment explanation
Indices: 83308478--83308515 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
83308468 CAAAAGGACC
83308478 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
83308516 CAATGTGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83311906 original size:2 final size:2
Alignment explanation
Indices: 83311899--83311933 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
83311889 TACTTCAAAA
83311899 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 A
83311934 AAAGAACAAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83332363 original size:14 final size:14
Alignment explanation
Indices: 83332344--83332374 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
83332334 CTGGCTAGCA
83332344 CCTATGCCCAAAGC
1 CCTATGCCCAAAGC
*
83332358 CCTATGCCCGAAGC
1 CCTATGCCCAAAGC
83332372 CCT
1 CCT
83332375 CTGTCTATGA
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:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (14 bp):
CCTATGCCCAAAGC
Found at i:83333790 original size:14 final size:16
Alignment explanation
Indices: 83333761--83333792 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
83333751 AGAGTGTTTA
83333761 AATTCATTTAAAAACC
1 AATTCATTTAAAAACC
83333777 AATTC-TTT-AAAACC
1 AATTCATTTAAAAACC
83333791 AA
1 AA
83333793 AATTGAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTCATTTAAAAACC
Found at i:83337183 original size:38 final size:38
Alignment explanation
Indices: 83337131--83337305 Score: 172
Period size: 38 Copynumber: 4.6 Consensus size: 38
83337121 AATTTTCAAT
* *
83337131 ACACCGGCATAAAGCCTGCTAGGCACGGAGCCCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
*** * * *
83337169 ACACCAAAACAAAGCCTGCTAGACACATAGCCCAAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
* * * * *
83337207 TCACCGGCACAAAGCCTGC-AAGAAAATAGCCCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
* * * *
83337244 TCACTGGCACAAAGCCTGCTAGGCACAGGGCTCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
* *
83337282 ACACCGGTATAAAGCCTGCTAGGC
1 ACACCGGCACAAAGCCTGCTAGGC
83337306 TAAATAACAT
Statistics
Matches: 108, Mismatches: 28, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
37 31 0.29
38 77 0.71
ACGTcount: A:0.36, C:0.30, G:0.21, T:0.13
Consensus pattern (38 bp):
ACACCGGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
Found at i:83337935 original size:10 final size:10
Alignment explanation
Indices: 83337920--83337956 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
83337910 AAGGTACAGG
*
83337920 CTAGTTGGAT
1 CTAGTTGGAC
83337930 CTAGTTGGAC
1 CTAGTTGGAC
83337940 CTAGTTGGAC
1 CTAGTTGGAC
83337950 CTAGTTG
1 CTAGTTG
83337957 TAACGATCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (10 bp):
CTAGTTGGAC
Found at i:83341011 original size:26 final size:23
Alignment explanation
Indices: 83340959--83341003 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
83340949 TAATATTTTA
*
83340959 TATTTTTATTTAAAAAATGATGT
1 TATTTTTATTTAAAAAATAATGT
83340982 TATTTTTATTTAAAAAATAATG
1 TATTTTTATTTAAAAAATAATG
83341004 GAATTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TATTTTTATTTAAAAAATAATGT
Found at i:83345379 original size:24 final size:24
Alignment explanation
Indices: 83345343--83345502 Score: 126
Period size: 24 Copynumber: 6.7 Consensus size: 24
83345333 GGGTCAACAT
*
83345343 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
83345367 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
83345391 TGGCACTATGTGTGCTGATTTGGA
1 TGGCACTATGTGTGCGGATTTGAA
* * ** * * * *
83345415 TGTCAATACATGAGTGAATCTTCAA
1 TGGCACTATGTGTGCGGAT-TTGAA
* *
83345440 -GGCACTATGTGTGCGG-TGTAGCA
1 TGGCACTATGTGTGCGGAT-TTGAA
* **
83345463 TGGCACTATGTGTGCGAATTTGTT
1 TGGCACTATGTGTGCGGATTTGAA
*
83345487 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
83345503 AAATCGGTTG
Statistics
Matches: 102, Mismatches: 31, Indels: 6
0.73 0.22 0.04
Matches are distributed among these distances:
23 3 0.03
24 95 0.93
25 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:83348146 original size:18 final size:18
Alignment explanation
Indices: 83348123--83348166 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
83348113 GAAGCTCAAG
*
83348123 TCTGTTTTAACTTAGGCT
1 TCTGTTCTAACTTAGGCT
*
83348141 TCTGTTCTGACTTAGGCT
1 TCTGTTCTAACTTAGGCT
*
83348159 CCTGTTCT
1 TCTGTTCT
83348167 GATACAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (18 bp):
TCTGTTCTAACTTAGGCT
Found at i:83348167 original size:18 final size:18
Alignment explanation
Indices: 83348132--83348168 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
83348122 GTCTGTTTTA
*
83348132 ACTTAGGCTTCTGTTCTG
1 ACTTAGGCTCCTGTTCTG
83348150 ACTTAGGCTCCTGTTCTG
1 ACTTAGGCTCCTGTTCTG
83348168 A
1 A
83348169 TACAGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (18 bp):
ACTTAGGCTCCTGTTCTG
Found at i:83361701 original size:17 final size:17
Alignment explanation
Indices: 83361675--83361717 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
83361665 CCAACCTTAA
*
83361675 TTTT-ATATTTATATTT
1 TTTTAATATTTAAATTT
83361691 TTTTAATATTTAAATTT
1 TTTTAATATTTAAATTT
* *
83361708 ATTTATTATT
1 TTTTAATATT
83361718 CATGTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTAATATTTAAATTT
Found at i:83362878 original size:29 final size:29
Alignment explanation
Indices: 83362792--83362878 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
83362782 TTTTTTAGAA
* *
83362792 TTAAAATTAAA-TGATAAATTTTATAAGAGT
1 TTAAAGTTAAATTGATAAA-ATTATAA-AGT
* * * *
83362822 TGAAGGTTAAATTTATTAAAATTTTAAA-T
1 TTAAAGTTAAATTGA-TAAAATTATAAAGT
83362851 TTAAAGTTAAATTGATAAAATGTATAAA
1 TTAAAGTTAAATTGATAAAAT-TATAAA
83362879 AATTAAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
28 6 0.14
29 18 0.41
30 9 0.20
31 7 0.16
32 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.40
Consensus pattern (29 bp):
TTAAAGTTAAATTGATAAAATTATAAAGT
Found at i:83374514 original size:18 final size:17
Alignment explanation
Indices: 83374493--83374526 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
83374483 TATAATAGTT
83374493 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
83374511 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
83374527 TAGCAGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:83376101 original size:40 final size:40
Alignment explanation
Indices: 83376056--83376135 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
83376046 TGGTTGAAAG
83376056 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
1 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
83376096 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
1 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
83376136 TGCACACGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (40 bp):
ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
Found at i:83378387 original size:14 final size:15
Alignment explanation
Indices: 83378353--83378388 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
83378343 TTCCCATTTC
83378353 TTTA-TTTAGCTTTA
1 TTTATTTTAGCTTTA
83378367 TTT-TTTTAG-TTTA
1 TTTATTTTAGCTTTA
83378380 TTTATTTTA
1 TTTATTTTA
83378389 TCATGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTATTTTAGCTTTA
Found at i:83379379 original size:13 final size:12
Alignment explanation
Indices: 83379355--83379388 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
83379345 TGTTTAATTA
83379355 TATTAAGATAAT
1 TATTAAGATAAT
83379367 TATTAAGGATAAT
1 TATTAA-GATAAT
*
83379380 TATTTAGAT
1 TATTAAGAT
83379389 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
TATTAAGATAAT
Found at i:83379415 original size:10 final size:10
Alignment explanation
Indices: 83379400--83379461 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
83379390 TAAATTTAGG
83379400 ATTTATTTTT
1 ATTTATTTTT
*
83379410 ATTTATCTTT
1 ATTTATTTTT
* *
83379420 AATTATGTTT
1 ATTTATTTTT
* *
83379430 AATTATCTTT
1 ATTTATTTTT
*
83379440 ATTTATTTGT
1 ATTTATTTTT
83379450 ATTTATCTTTT
1 ATTTAT-TTTT
83379461 A
1 A
83379462 GAATTTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
10 39 0.91
11 4 0.09
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:83379430 original size:20 final size:19
Alignment explanation
Indices: 83379406--83379459 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
83379396 TAGGATTTAT
83379406 TTTTATTTATCTTTAATTA
1 TTTTATTTATCTTTAATTA
* *
83379425 TGTTTAATTATCTTTATTTA
1 T-TTTATTTATCTTTAATTA
83379445 TTTGTATTTATCTTT
1 TTT-TATTTATCTTT
83379460 TAGAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTATTTATCTTTAATTA
Found at i:83383241 original size:10 final size:9
Alignment explanation
Indices: 83383228--83383292 Score: 50
Period size: 8 Copynumber: 7.3 Consensus size: 9
83383218 TTTGTTCCAT
83383228 TTTATTAGTA
1 TTTATTA-TA
83383238 TTTATTAT-
1 TTTATTATA
83383246 TTTATT-TCA
1 TTTATTAT-A
83383255 TTTTATTAGTA
1 -TTTATTA-TA
83383266 TTTATTAT-
1 TTTATTATA
*
83383274 TTTATTTTA
1 TTTATTATA
83383283 -TTATT-TA
1 TTTATTATA
83383290 TTT
1 TTT
83383293 CTTTATTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
7 3 0.06
8 20 0.43
9 2 0.04
10 20 0.43
11 1 0.02
12 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTATTATA
Found at i:83383247 original size:18 final size:16
Alignment explanation
Indices: 83383226--83383301 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 16
83383216 TTTTTGTTCC
83383226 ATTTTATTAGTATTTATT
1 ATTTTATTA-T-TTTATT
83383244 ATTTTATTTCATTTTATT
1 ATTTTA-TT-ATTTTATT
83383262 AGTATTTATTATTTTATT
1 A-T-TTTATTATTTTATT
83383280 -TTATTATTTATTTCT-TT
1 ATT-TTA-TTATTT-TATT
83383297 ATTTT
1 ATTTT
83383302 TGGATATTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
15 1 0.02
16 4 0.08
17 10 0.20
18 24 0.48
19 6 0.12
20 5 0.10
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTATTATTTTATT
Found at i:83383280 original size:28 final size:28
Alignment explanation
Indices: 83383211--83383280 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83383201 TTTTTATTAA
* * *
83383211 TTATTTTTTTGTTCCATTTTATTAGTAT
1 TTATTATTTTATTTCATTTTATTAGTAT
83383239 TTATTATTTTATTTCATTTTATTAGTAT
1 TTATTATTTTATTTCATTTTATTAGTAT
83383267 TTATTATTTTATTT
1 TTATTATTTTATTT
83383281 TATTATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (28 bp):
TTATTATTTTATTTCATTTTATTAGTAT
Found at i:83383297 original size:20 final size:20
Alignment explanation
Indices: 83383238--83383301 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
83383228 TTTATTAGTA
83383238 TTTATTATTTTATTTCATTT-T
1 TTTATTA-TTTATTTC-TTTAT
* *
83383259 ATTAGTATTTATTAT-TTTAT
1 TTTATTATTTATT-TCTTTAT
83383279 TTTATTATTTATTTCTTTAT
1 TTTATTATTTATTTCTTTAT
83383299 TTT
1 TTT
83383302 TGGATATTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 4 0.11
20 26 0.72
21 6 0.17
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATTATTTATTTCTTTAT
Found at i:83383300 original size:12 final size:12
Alignment explanation
Indices: 83383236--83383292 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
83383226 ATTTTATTAG
83383236 TATTTATTATT-T
1 TATTTATT-TTAT
83383248 TATTTCATTTTAT
1 TATTT-ATTTTAT
*
83383261 TA-GTA-TTTAT
1 TATTTATTTTAT
83383271 TATTTTATTTTAT
1 TA-TTTATTTTAT
83383284 TATTTATTT
1 TATTTATTT
83383293 CTTTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 17 0.45
13 13 0.34
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (12 bp):
TATTTATTTTAT
Found at i:83384872 original size:17 final size:17
Alignment explanation
Indices: 83384850--83384884 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
83384840 TTTTAGGGAC
*
83384850 TAAATTGAAGGCAAAAG
1 TAAATTGAAGGAAAAAG
*
83384867 TAAATTTAAGGAAAAAG
1 TAAATTGAAGGAAAAAG
83384884 T
1 T
83384885 GTAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (17 bp):
TAAATTGAAGGAAAAAG
Found at i:83385040 original size:12 final size:12
Alignment explanation
Indices: 83385023--83385056 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
83385013 TGTTTAATTA
83385023 TATTAAGATAAT
1 TATTAAGATAAT
83385035 TATTAAAGATAAT
1 TATT-AAGATAAT
*
83385048 TATTTAGAT
1 TATTAAGAT
83385057 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (12 bp):
TATTAAGATAAT
Found at i:83385045 original size:13 final size:13
Alignment explanation
Indices: 83385017--83385051 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
83385007 ATTTAATGTT
*
83385017 TAATTATATTAAGA
1 TAATTAT-TAAAGA
83385031 TAATTATTAAAGA
1 TAATTATTAAAGA
83385044 TAATTATT
1 TAATTATT
83385052 TAGATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (13 bp):
TAATTATTAAAGA
Found at i:83385083 original size:10 final size:10
Alignment explanation
Indices: 83385068--83385119 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
83385058 TAAATTTAGG
83385068 ATTTATTTTT
1 ATTTATTTTT
*
83385078 ATTTATCTTT
1 ATTTATTTTT
* *
83385088 AATTATCTTT
1 ATTTATTTTT
*
83385098 ATTTATTTGT
1 ATTTATTTTT
83385108 ATTTATCTTTT
1 ATTTAT-TTTT
83385119 A
1 A
83385120 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:83385849 original size:17 final size:18
Alignment explanation
Indices: 83385818--83385851 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
83385808 TTTTCTCCAT
*
83385818 TTTAATTTTCTCAATTTA
1 TTTAATTTTCGCAATTTA
83385836 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
83385852 CAATTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:83389178 original size:22 final size:22
Alignment explanation
Indices: 83389150--83389196 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
83389140 ATATATATAT
83389150 ATATTAAAA-TAAATACATAATA
1 ATATTAAAAGTAAATACATAA-A
*
83389172 ATATTAAAAGTATATACATAAA
1 ATATTAAAAGTAAATACATAAA
83389194 ATA
1 ATA
83389197 GTTATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
ATATTAAAAGTAAATACATAAA
Found at i:83389208 original size:23 final size:22
Alignment explanation
Indices: 83389138--83389210 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
83389128 AAATATGTTC
*
83389138 ATATATATAT-AT-ATATTAAA
1 ATATATACATAATAATATTAAA
*
83389158 ATAAATACATAATAATATTAAA
1 ATATATACATAATAATATTAAA
*
83389180 AGTATATACATAA-AATAGTTATTA
1 A-TATATACATAATAATA-TTA-AA
83389204 ATATATA
1 ATATATA
83389211 TATACATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.18
21 2 0.05
22 13 0.30
23 19 0.43
24 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (22 bp):
ATATATACATAATAATATTAAA
Found at i:83389319 original size:3 final size:3
Alignment explanation
Indices: 83389311--83389358 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
83389301 AAACATATAC
*
83389311 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
83389359 GATGTATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:83389582 original size:24 final size:25
Alignment explanation
Indices: 83389543--83389667 Score: 64
Period size: 24 Copynumber: 5.0 Consensus size: 25
83389533 ATAAGGATAA
*
83389543 AATA-GATA-TAATAATATATACAT
1 AATATGATATTAAGAATATATACAT
* *
83389566 AATATGGTATTAA-AATATATATAT
1 AATATGATATTAAGAATATATACAT
* *
83389590 ATATAT-ATATATATATATATATATATAT
1 A-ATATGATAT-TA-AGA-ATATATACAT
* *
83389618 AACAT-AGTATTCAAGAATATGTACAT
1 AATATGA-TATT-AAGAATATATACAT
* * *
83389644 GAGATGATA-TAAAAATATATACAT
1 AATATGATATTAAGAATATATACAT
83389668 GGAATAGTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
23 4 0.05
24 29 0.36
25 10 0.12
26 14 0.17
27 9 0.11
28 15 0.19
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (25 bp):
AATATGATATTAAGAATATATACAT
Found at i:83389587 original size:2 final size:2
Alignment explanation
Indices: 83389580--83389618 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
83389570 TGGTATTAAA
83389580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83389619 ACATAGTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83389719 original size:9 final size:10
Alignment explanation
Indices: 83389705--83389747 Score: 63
Period size: 9 Copynumber: 4.4 Consensus size: 10
83389695 TAACATTAAA
83389705 ATATATA-AT
1 ATATATACAT
83389714 ATATATACAAT
1 ATATATAC-AT
83389725 ATATATACA-
1 ATATATACAT
83389734 ATATATACAT
1 ATATATACAT
83389744 ATAT
1 ATAT
83389748 TTAGAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 16 0.52
10 5 0.16
11 10 0.32
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATACAT
Found at i:83389719 original size:11 final size:11
Alignment explanation
Indices: 83389705--83389740 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
83389695 TAACATTAAA
*
83389705 ATATATAATAT
1 ATATACAATAT
83389716 ATATACAATAT
1 ATATACAATAT
83389727 ATATACAATAT
1 ATATACAATAT
83389738 ATA
1 ATA
83389741 CATATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATACAATAT
Found at i:83389869 original size:14 final size:14
Alignment explanation
Indices: 83389867--83389971 Score: 63
Period size: 13 Copynumber: 8.2 Consensus size: 14
83389857 ACATATAATA
*
83389867 ATATAA-AAGATAT
1 ATATAATAATATAT
*
83389880 ATA-ACTAATA-AT
1 ATATAATAATATAT
83389892 AT-TAA-AATATAT
1 ATATAATAATATAT
*
83389904 ACATAATAATATAT
1 ATATAATAATATAT
83389918 ATATAAT-ATA-AT
1 ATATAATAATATAT
*
83389930 ATGA-AA-AACATAT
1 AT-ATAATAATATAT
*
83389943 ATA-CATAATATAT
1 ATATAATAATATAT
83389956 ATGA-AA-AATATAT
1 AT-ATAATAATATAT
83389969 ATA
1 ATA
83389972 ATATGATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
11 4 0.05
12 20 0.27
13 34 0.47
14 15 0.21
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (14 bp):
ATATAATAATATAT
Found at i:83389880 original size:23 final size:22
Alignment explanation
Indices: 83389830--83389988 Score: 86
Period size: 22 Copynumber: 7.3 Consensus size: 22
83389820 ATGGTGTTAG
*
83389830 AAATATACAGTATAGT-AT-TAA
1 AAATATACA-TATAATAATATAA
83389851 AAATATACATATAATAATATAA
1 AAATATACATATAATAATATAA
* *
83389873 AAGATATATA-ACTAATAATATTA
1 AA-ATATACATA-TAATAATATAA
* *
83389896 AAATATATACATAATAATAT--
1 AAATATACATATAATAATATAA
*
83389916 ATATATA-ATATAAT-ATGA-AA
1 AAATATACATATAATAAT-ATAA
* *
83389936 AACATATATACATAATATATATGAA
1 AA-ATATACATATAATA-ATAT-AA
*
83389961 AAATAT--ATATAATATGATATTA
1 AAATATACATATAATA--ATATAA
83389983 AAATAT
1 AAATAT
83389989 TTACATAATA
Statistics
Matches: 113, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.02
19 7 0.06
20 12 0.11
21 16 0.14
22 42 0.37
23 24 0.21
24 6 0.05
25 4 0.04
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATATACATATAATAATATAA
Found at i:83389904 original size:22 final size:22
Alignment explanation
Indices: 83389845--83389915 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 22
83389835 TACAGTATAG
*
83389845 TATTAAAA-ATATACATATAATAA
1 TATTAAAATATATA-A-CTAATAA
*
83389868 TATAAAAGATATATAACTAATAA
1 TATTAAA-ATATATAACTAATAA
83389891 TATTAAAATATAT-ACATAATAA
1 TATTAAAATATATAAC-TAATAA
83389913 TAT
1 TAT
83389916 ATATATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.05
22 15 0.36
23 18 0.43
24 2 0.05
25 5 0.12
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (22 bp):
TATTAAAATATATAACTAATAA
Found at i:83389911 original size:11 final size:11
Alignment explanation
Indices: 83389852--83390003 Score: 77
Period size: 11 Copynumber: 13.8 Consensus size: 11
83389842 TAGTATTAAA
*
83389852 AATATACATAT
1 AATATATATAT
*
83389863 AATA-ATATAA
1 AATATATATAT
*
83389873 AAGATATATAACT
1 AATATATAT-A-T
*
83389886 AATA-ATATTAA
1 AATATATA-TAT
*
83389897 AATATATACAT
1 AATATATATAT
83389908 AATA-ATATAT
1 AATATATATAT
83389918 -ATATA-ATAT
1 AATATATATAT
*
83389927 AATATGA-A-AA
1 AATAT-ATATAT
*
83389937 ACATATATACAT
1 A-ATATATATAT
83389949 AATATATATGA-
1 AATATATAT-AT
*
83389960 AAAATATATAT
1 AATATATATAT
*
83389971 AATATGATATTAA
1 AATAT-ATA-TAT
* *
83389984 AATATTTACAT
1 AATATATATAT
83389995 AATATATAT
1 AATATATAT
83390004 TTATTAGGAA
Statistics
Matches: 106, Mismatches: 20, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
9 7 0.07
10 21 0.20
11 51 0.48
12 16 0.15
13 11 0.10
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (11 bp):
AATATATATAT
Found at i:83389920 original size:38 final size:38
Alignment explanation
Indices: 83389876--83389957 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
83389866 AATATAAAAG
* *
83389876 ATATATAACTAATAATATTAAAATATATACATA-ATAATAT
1 ATATATAA-T-ATAATATGAAAA-ACATACATACATAATAT
*
83389916 ATATATAATATAATATGAAAAACATATATACATAATAT
1 ATATATAATATAATATGAAAAACATACATACATAATAT
83389954 ATAT
1 ATAT
83389958 GAAAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 7 0.18
38 22 0.58
39 1 0.03
40 8 0.21
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (38 bp):
ATATATAATATAATATGAAAAACATACATACATAATAT
Found at i:83389952 original size:63 final size:65
Alignment explanation
Indices: 83389853--83389974 Score: 155
Period size: 63 Copynumber: 1.9 Consensus size: 65
83389843 AGTATTAAAA
* *
83389853 ATATACATATAATAATATAAAAGATATATAACTAATA-ATATTAAAATATATACATAATAATATA
1 ATATACATATAATAATATAAAACATATATAACTAATATATATGAAAA-ATATACATAATAATATA
83389917 T
65 T
*
83389918 ATATA-ATATAAT-ATGA-AAAACATATAT-ACATAATATATATGAAAAATATATATAATA
1 ATATACATATAATAAT-ATAAAACATATATAAC-TAATATATATGAAAAATATACATAATA
83389975 TGATATTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
62 2 0.04
63 28 0.55
64 16 0.31
65 5 0.10
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.34
Consensus pattern (65 bp):
ATATACATATAATAATATAAAACATATATAACTAATATATATGAAAAATATACATAATAATATAT
Found at i:83389980 original size:27 final size:27
Alignment explanation
Indices: 83389912--83389980 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
83389902 ATACATAATA
83389912 ATATAT-ATATAATATAATATGAAAAAC
1 ATATATAATAT-ATATAATATGAAAAAC
*
83389939 ATATATACATA-ATAT-ATATGAAAAAT
1 ATATATA-ATATATATAATATGAAAAAC
83389965 ATATATAATATGATAT
1 ATATATAATAT-ATAT
83389981 TAAAATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
25 3 0.08
26 17 0.46
27 14 0.38
29 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (27 bp):
ATATATAATATATATAATATGAAAAAC
Found at i:83390088 original size:19 final size:18
Alignment explanation
Indices: 83390044--83390080 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
83390034 TGCTACATAA
83390044 ATATATTAAAAACATATAC
1 ATATA-TAAAAACATATAC
83390063 ATATATAAAAA-ATATAC
1 ATATATAAAAACATATAC
83390080 A
1 A
83390081 CTAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (18 bp):
ATATATAAAAACATATAC
Found at i:83390164 original size:8 final size:8
Alignment explanation
Indices: 83390151--83390184 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
83390141 AAGATATTAA
83390151 AATAAAGT
1 AATAAAGT
83390159 AATAAAGT
1 AATAAAGT
83390167 AATAAAGT
1 AATAAAGT
83390175 AATAAAGT
1 AATAAAGT
83390183 AA
1 AA
83390185 CACCATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AATAAAGT
Found at i:83390284 original size:6 final size:6
Alignment explanation
Indices: 83390275--83390308 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
83390265 TAATGACGAC
* *
83390275 AATAAA AATAAA AATAAA AATAAA GATAAC AATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATA
83390309 CTAATGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:83392137 original size:21 final size:21
Alignment explanation
Indices: 83392112--83392164 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
83392102 AGATAAGATC
***
83392112 TGCAACTTCAATGTGCTCCAA
1 TGCAACTTCAATCAACTCCAA
* *
83392133 TGCAACTTCGATCAACTCCAC
1 TGCAACTTCAATCAACTCCAA
83392154 TGCAACTTCAA
1 TGCAACTTCAA
83392165 GGAGGCAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.26
Consensus pattern (21 bp):
TGCAACTTCAATCAACTCCAA
Found at i:83392500 original size:166 final size:166
Alignment explanation
Indices: 83392216--83392841 Score: 931
Period size: 166 Copynumber: 3.8 Consensus size: 166
83392206 CTCAACATGT
* *
83392216 GACCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGA--TTTTTGAAAACGTAACAGGAATTGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA---AACAGAAATTGA
*
83392279 AAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTAGCAATAT-AGGTTGATTTTTGAAAA
62 AAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA-GTTGATTTTTGAAAA
* * * * *
83392343 GTAGAGTTTGAAAAATAGAAATTGAAAATACCTCAATGTGA
126 GTAGAATTTGAAAAACAGAATTTGAAAATACCTCGACGTGA
* * * *
83392384 GATCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAAACAGGAGTTGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
*
83392449 ACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTAGA
66 ACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGA
* *
83392514 ATTTGAAAAACGGAATTTGAAAATACCTCGACGTAA
131 ATTTGAAAAACAGAATTTGAAAATACCTCGACGTGA
*
83392550 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAACAGAAATTGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
*
83392615 ACCTTGGCGTGTGAGCCAAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGA
66 ACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGA
83392680 ATTTGAAAAACAGAATTTGAAAATACCTCGACGTGA
131 ATTTGAAAAACAGAATTTGAAAATACCTCGACGTGA
*
83392716 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAATTTGAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAACAGAAATTGAA
*** *
83392781 AATACCTCAACGTGT---CTTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
63 AATACCTTGGCGTGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
83392842 CAGAAATAAA
Statistics
Matches: 422, Mismatches: 29, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
166 301 0.71
167 43 0.10
168 35 0.08
169 37 0.09
170 6 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (166 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
ACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGA
ATTTGAAAAACAGAATTTGAAAATACCTCGACGTGA
Found at i:83392580 original size:89 final size:89
Alignment explanation
Indices: 83392426--83392591 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 89
83392416 AGTTGATTTT
* * ** * *
83392426 TTTGAAAAACAGGAGTTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGTAATA
1 TTTGAAAAACAGGAGTTGAAAATACCTCGACGTAAGACCCAAGGCTCAACTCACCTCTCGCAATA
83392491 TGAGTTGATTTTTGAAAAGTAGAA
66 TGAGTTGATTTTTGAAAAGTAGAA
* *
83392515 TTTGAAAAAC-GGAATTTGAAAATACCTCGACGTAAGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGG-AGTTGAAAATACCTCGACGTAAGACCCAAGGCTCAACTCACCTCTCGCAAT
83392579 ATGAGTTGATTTT
65 ATGAGTTGATTTT
83392592 CTTGAAAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
88 2 0.03
89 66 0.97
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (89 bp):
TTTGAAAAACAGGAGTTGAAAATACCTCGACGTAAGACCCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGTAGAA
Found at i:83392648 original size:77 final size:77
Alignment explanation
Indices: 83392516--83392668 Score: 225
Period size: 77 Copynumber: 2.0 Consensus size: 77
83392506 AAAGTAGAAT
* * *
83392516 TTGAAAAACGGAATTTGAAAATACCTCGACGTAAGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACGTAAGACCCAAGGCTCAACTCACCTCTCGCAATAT
83392581 GAGTTGATTTTC
66 GAGTTGATTTTC
* * ** * *
83392593 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACGTAAGACCCAAGGCTCAACTCACCTCTCGCAATAT
83392658 GAGTTGATTTT
66 GAGTTGATTTT
83392669 TGAAAAGTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 67 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (77 bp):
TTGAAAAACAGAAATTGAAAATACCTCGACGTAAGACCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTC
Found at i:83392686 original size:14 final size:14
Alignment explanation
Indices: 83392667--83392702 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
83392657 TGAGTTGATT
**
83392667 TTTGAAAAGTAGAA
1 TTTGAAAAACAGAA
83392681 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
83392695 TTTGAAAA
1 TTTGAAAA
83392703 TACCTCGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:83392744 original size:89 final size:89
Alignment explanation
Indices: 83392593--83392758 Score: 269
Period size: 89 Copynumber: 1.9 Consensus size: 89
83392583 GTTGATTTTC
* * * * *
83392593 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACGTGAGACCCAAGGCTCAACTCACCTCTCGCAATAT
83392658 GAGTTGATTTTTGAAAAGTAGAAT
66 GAGTTGATTTTTGAAAAGTAGAAT
* *
83392682 TTGAAAAACAGAATTTGAAAATACCTCGACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACGTGAGACCCAAGGCTCAACTCACCTCTCGCAATAT
83392747 GAGTTGATTTTT
66 GAGTTGATTTTT
83392759 TTTTTGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (89 bp):
TTGAAAAACAGAAATTGAAAATACCTCGACGTGAGACCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAGTAGAAT
Found at i:83392832 original size:78 final size:79
Alignment explanation
Indices: 83392681--83392836 Score: 251
Period size: 78 Copynumber: 2.0 Consensus size: 79
83392671 AAAAGTAGAA
* *
83392681 TTTGAAAAACAGAATTTGAAAATACCTCGACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAATTTGAAAATACCTCAACGT-AGACCCAAGGCTCAACTCACCTCTCGCAATA
83392746 TGAGTTGATTTTTTT
65 TGAGTTGATTTTTTT
* **
83392761 TTTGAAAAACAGAATTTGAAAATACCTCAACGT-GTCTTAAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAAACAGAATTTGAAAATACCTCAACGTAGACCCAAGGCTCAACTCACCTCTCGCAATAT
83392825 GAGTTGATTTTT
66 GAGTTGATTTTT
83392837 GAAAACAGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 39 0.55
80 32 0.45
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (79 bp):
TTTGAAAAACAGAATTTGAAAATACCTCAACGTAGACCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTT
Found at i:83401141 original size:22 final size:22
Alignment explanation
Indices: 83401110--83401176 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
83401100 ATACAATGAA
*
83401110 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
83401132 TGAATAAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
83401154 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
83401176 T
1 T
83401177 AGTCATGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:83405189 original size:23 final size:22
Alignment explanation
Indices: 83405115--83405217 Score: 77
Period size: 22 Copynumber: 4.6 Consensus size: 22
83405105 AATACTACAT
* * *
83405115 AAATATGTACATATATATATTA
1 AAATATATACATAAAAATATTA
*
83405137 AAATAAATACATAAAAATATTA
1 AAATATATACATAAAAATATTA
83405159 AAAGTATATACAT-AAAATAGTTA
1 AAA-TATATACATAAAAATA-TTA
* * * *
83405182 TTAATATATATATATACATATTA
1 -AAATATATACATAAAAATATTA
83405205 GAAATA-ATA-ATAA
1 -AAATATATACATAA
83405218 TGTTACAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
21 3 0.05
22 30 0.46
23 26 0.40
24 6 0.09
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATATATACATAAAAATATTA
Found at i:83405310 original size:3 final size:3
Alignment explanation
Indices: 83405302--83405349 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
83405292 AAACATATAC
83405302 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
83405350 GATGTATGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:83405573 original size:24 final size:24
Alignment explanation
Indices: 83405534--83405650 Score: 68
Period size: 24 Copynumber: 5.0 Consensus size: 24
83405524 ATAAGGATAA
83405534 AATA-GATA-TAATAATATATACAT
1 AATATGATATTAA-AATATATACAT
* *
83405557 AATATGGTATTAAAATATATATAT
1 AATATGATATTAAAATATATACAT
* *
83405581 -ATAT-ATA-T-ATATATATATAT
1 AATATGATATTAAAATATATACAT
* *
83405601 AACAT-AGTATTCAAGAATATGTACAT
1 AATATGA-TATT-AA-AATATATACAT
* * *
83405627 GAGATGATATAAAAATATATACAT
1 AATATGATATTAAAATATATACAT
83405651 GGAATAGTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
20 11 0.15
21 5 0.07
22 4 0.05
23 9 0.12
24 23 0.32
25 6 0.08
26 14 0.19
27 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (24 bp):
AATATGATATTAAAATATATACAT
Found at i:83405578 original size:2 final size:2
Alignment explanation
Indices: 83405571--83405601 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
83405561 TGGTATTAAA
83405571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83405602 ACATAGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83405703 original size:9 final size:10
Alignment explanation
Indices: 83405689--83405730 Score: 61
Period size: 9 Copynumber: 4.4 Consensus size: 10
83405679 AACATTAAAA
83405689 ATATATA-AT
1 ATATATACAT
*
83405698 ATATATACAA
1 ATATATACAT
83405708 ATATATACA-
1 ATATATACAT
83405717 ATATATACAT
1 ATATATACAT
83405727 ATAT
1 ATAT
83405731 TTAGAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 16 0.53
10 14 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATATACAT
Found at i:83405709 original size:19 final size:19
Alignment explanation
Indices: 83405687--83405730 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
83405677 ATAACATTAA
83405687 AAATATATA-ATATATATAC
1 AAATATATACA-ATATATAC
83405706 AAATATATACAATATATAC
1 AAATATATACAATATATAC
*
83405725 ATATAT
1 AAATAT
83405731 TTAGAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATATATACAATATATAC
Found at i:83405888 original size:22 final size:23
Alignment explanation
Indices: 83405817--83405973 Score: 95
Period size: 23 Copynumber: 7.1 Consensus size: 23
83405807 GGTGTTAGAA
* *
83405817 ATATATAGT-ATAGTATTAGAAAT
1 ATATATAATAATAATATTA-AAAT
* * *
83405840 ATACAT-ATAATAGTA-TAAAAG
1 ATATATAATAATAATATTAAAAT
83405861 ATATATAACTAATAATATTAAAAT
1 ATATATAA-TAATAATATTAAAAT
*
83405885 ATATA-AATAATAATATATATAA-
1 ATATATAATAATAATAT-TAAAAT
* *
83405907 A-ATATAAT-AT--TA--AGAAC
1 ATATATAATAATAATATTAAAAT
*
83405924 ATATATACATAATATATATGAAAAAT
1 ATATATA-ATAATA-ATAT-TAAAAT
83405950 ATATATAAT-ATAATATTAAAAT
1 ATATATAATAATAATATTAAAAT
83405972 AT
1 AT
83405974 TTACATAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
16 3 0.03
17 1 0.01
18 5 0.05
19 4 0.04
20 2 0.02
21 13 0.12
22 24 0.22
23 30 0.28
24 13 0.12
25 2 0.02
26 10 0.09
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATATAATAATAATATTAAAAT
Found at i:83405902 original size:16 final size:16
Alignment explanation
Indices: 83405883--83405964 Score: 53
Period size: 16 Copynumber: 4.9 Consensus size: 16
83405873 TAATATTAAA
83405883 ATATATAAATAATAAT
1 ATATATAAATAATAAT
83405899 ATATATAAA-ATATAAT
1 ATATATAAATA-ATAAT
*
83405915 AT-TAAGAACATATATACAT
1 ATAT-ATAA-ATA-ATA-AT
* *
83405934 A-ATATATATGAAAAAT
1 ATATATAAAT-AATAAT
83405950 ATATATAATATAATA
1 ATATATAA-ATAATA
83405965 TTAAAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
15 2 0.04
16 22 0.43
17 13 0.25
18 10 0.20
19 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
ATATATAAATAATAAT
Found at i:83405905 original size:38 final size:38
Alignment explanation
Indices: 83405872--83405952 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
83405862 TATATAACTA
*
83405872 ATAATATTAA-AATATATAAATA-ATAATATATATAAAAT
1 ATAATATTAAGAACATAT--ATACATAATATATATAAAAT
83405910 ATAATATTAAGAACATATATACATAATATATATGAAAAAT
1 ATAATATTAAGAACATATATACATAATATATAT--AAAAT
83405950 ATA
1 ATA
83405953 TATAATATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
37 3 0.08
38 21 0.55
39 6 0.16
40 8 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (38 bp):
ATAATATTAAGAACATATATACATAATATATATAAAAT
Found at i:83405940 original size:13 final size:12
Alignment explanation
Indices: 83405870--83405989 Score: 85
Period size: 11 Copynumber: 10.2 Consensus size: 12
83405860 GATATATAAC
83405870 TAATAATAT-TA
1 TAATAATATATA
* *
83405881 AAAT-ATATAAA
1 TAATAATATATA
83405892 TAATAATATATA
1 TAATAATATATA
83405904 TAA-AATATAATA
1 TAATAATAT-ATA
* *
83405916 TTAAGAACATATA
1 -TAATAATATATA
83405929 TACATAATATATA
1 TA-ATAATATATA
*
83405942 TGAAAAATATATA
1 T-AATAATATATA
83405955 TAAT-ATA-ATA
1 TAATAATATATA
83405965 TTAA-AATAT-T-
1 -TAATAATATATA
83405975 TACATAATATATA
1 TA-ATAATATATA
83405988 TA
1 TA
83405990 TTAGGAATAA
Statistics
Matches: 86, Mismatches: 9, Indels: 26
0.71 0.07 0.21
Matches are distributed among these distances:
9 2 0.02
10 8 0.09
11 27 0.31
12 17 0.20
13 27 0.31
14 5 0.06
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (12 bp):
TAATAATATATA
Found at i:83413817 original size:18 final size:18
Alignment explanation
Indices: 83413791--83413833 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
83413781 AAGTGGAAAA
* *
83413791 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGTT
83413809 AGGATACATATAAGAGTT
1 AGGATACATATAAGAGTT
83413827 AGGATAC
1 AGGATAC
83413834 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGAGTT
Found at i:83414426 original size:7 final size:7
Alignment explanation
Indices: 83414416--83414446 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
83414406 TTATATACAT
83414416 AATACTA
1 AATACTA
83414423 AATACTA
1 AATACTA
83414430 AATACTA
1 AATACTA
*
83414437 AATACGA
1 AATACTA
83414444 AAT
1 AAT
83414447 CGACTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:83415358 original size:10 final size:11
Alignment explanation
Indices: 83415343--83415414 Score: 55
Period size: 10 Copynumber: 7.0 Consensus size: 11
83415333 CTATCGACTG
83415343 TTATAAAAA-A
1 TTATAAAAATA
83415353 TTATAAAAATA
1 TTATAAAAATA
**
83415364 TTA-ATTAA-A
1 TTATAAAAATA
*
83415373 TTACAAAAATA
1 TTATAAAAATA
**
83415384 AAATAAAAATA
1 TTATAAAAATA
*
83415395 TTA-AATAATA
1 TTATAAAAATA
83415405 TTA-AAAAATA
1 TTATAAAAATA
83415415 AAATTAACCC
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
9 4 0.08
10 30 0.62
11 14 0.29
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (11 bp):
TTATAAAAATA
Found at i:83415391 original size:31 final size:31
Alignment explanation
Indices: 83415355--83415418 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
83415345 ATAAAAAATT
*
83415355 ATAAAAATATTAATTAA-ATTACAAAAATAAA
1 ATAAAAATATTAAATAATATTA-AAAAATAAA
83415386 ATAAAAATATTAAATAATATTAAAAAATAAA
1 ATAAAAATATTAAATAATATTAAAAAATAAA
83415417 AT
1 AT
83415419 TAACCCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (31 bp):
ATAAAAATATTAAATAATATTAAAAAATAAA
Found at i:83417470 original size:14 final size:13
Alignment explanation
Indices: 83417442--83417467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83417432 AACCACCACC
83417442 CTGTCTTTTTTTT
1 CTGTCTTTTTTTT
83417455 CTGTCTTTTTTTT
1 CTGTCTTTTTTTT
83417468 TCTTTTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (13 bp):
CTGTCTTTTTTTT
Found at i:83420663 original size:15 final size:13
Alignment explanation
Indices: 83420624--83420677 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
83420614 TCAACCCTAT
83420624 TTTTATATTATATA
1 TTTTATATTAT-TA
*
83420638 TTGTATA--ATTA
1 TTTTATATTATTA
83420649 TTTTATGATATATTA
1 TTTTAT-AT-TATTA
83420664 -TTTATATTATTA
1 TTTTATATTATTA
83420676 TT
1 TT
83420678 ACTTATTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
11 7 0.21
12 8 0.24
13 3 0.09
14 11 0.33
15 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:83420678 original size:15 final size:16
Alignment explanation
Indices: 83420627--83420695 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 16
83420617 ACCCTATTTT
*
83420627 TATATTATATAT-TG-
1 TATATTATTTATATGA
83420641 TATAATTATTT-TATGA
1 TAT-ATTATTTATATGA
*
83420657 TATATTATTTATATTA
1 TATATTATTTATATGA
*
83420673 T-TATTACTTAT-TG-
1 TATATTATTTATATGA
*
83420686 TATAATATTT
1 TATATTATTT
83420696 TTCACAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 1 0.02
14 11 0.25
15 24 0.55
16 8 0.18
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (16 bp):
TATATTATTTATATGA
Found at i:83421170 original size:17 final size:18
Alignment explanation
Indices: 83421150--83421205 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
83421140 TTATATTTTA
83421150 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
83421167 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
83421184 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
83421202 TATT
1 TATT
83421206 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:83421204 original size:15 final size:16
Alignment explanation
Indices: 83421139--83421211 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 16
83421129 TTTCTAAACC
*
83421139 ATTATATTTTA-TATT
1 ATTATATATTATTATT
*
83421154 TTTATATAATTATTATT
1 ATTATAT-ATTATTATT
* * *
83421171 CTTATAAATATATTTTT
1 ATTATATAT-TATTATT
83421188 ATTATATATTA-TATT
1 ATTATATATTATTATT
*
83421203 ATTAAATAT
1 ATTATATAT
83421212 CACATTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 17 0.37
16 7 0.15
17 22 0.48
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATATATTATTATT
Found at i:83421209 original size:30 final size:31
Alignment explanation
Indices: 83421148--83421211 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
83421138 CATTATATTT
*
83421148 TATATTTTTATATAATTATTATTCTTATAAA
1 TATATTTTTATATAATTATTATTCATATAAA
83421179 TATATTTTTATTATATATTA-TATT-AT-TAAA
1 TATATTTTTA-TATA-ATTATTATTCATATAAA
83421209 TAT
1 TAT
83421212 CACATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 8 0.27
33 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATATTTTTATATAATTATTATTCATATAAA
Found at i:83425246 original size:26 final size:26
Alignment explanation
Indices: 83425217--83425326 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
83425207 TGATACAAAT
83425217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83425243 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83425269 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83425295 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83425321 TGATAA
1 TGATAA
83425327 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83427355 original size:136 final size:136
Alignment explanation
Indices: 83427111--83427395 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
83427101 GAGTAGTCTC
83427111 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
83427176 GTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGCCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGCCCCAGTACCA
83427241 CTGTTA
131 CTGTTA
83427247 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
83427312 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCTGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGCCCCAGTACCA
83427377 CTGTTA
131 CTGTTA
**
83427383 CCTGAATGGGCTT
1 CCCAAATGGGCTT
83427396 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGCCCCAGTACCA
CTGTTA
Found at i:83428641 original size:16 final size:17
Alignment explanation
Indices: 83428608--83428644 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
83428598 TAAAAACTAT
*
83428608 AAAAAATTCAAATGTTC
1 AAAAAATTCAAATATTC
83428625 AAAAAATTCAAA-ATTC
1 AAAAAATTCAAATATTC
83428641 AAAA
1 AAAA
83428645 TCCAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAAATTCAAATATTC
Found at i:83428658 original size:2 final size:2
Alignment explanation
Indices: 83428651--83428692 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
83428641 AAAATCCAAA
83428651 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
83428693 GAAAGGTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83429151 original size:13 final size:13
Alignment explanation
Indices: 83429133--83429222 Score: 117
Period size: 13 Copynumber: 6.9 Consensus size: 13
83429123 AGTTTGGCAA
83429133 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
83429146 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
83429159 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
83429172 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
83429185 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
83429198 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
83429211 TGCTTTTGAAAA
1 TGCTTTTGAAAA
83429223 ATTTGGTTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 63 1.00
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:83429222 original size:26 final size:26
Alignment explanation
Indices: 83429140--83429214 Score: 150
Period size: 26 Copynumber: 2.9 Consensus size: 26
83429130 CAATGCTTTT
83429140 GAAAAGTGCTTTTGAGAAGTGCTGTG
1 GAAAAGTGCTTTTGAGAAGTGCTGTG
83429166 GAAAAGTGCTTTTGAGAAGTGCTGTG
1 GAAAAGTGCTTTTGAGAAGTGCTGTG
83429192 GAAAAGTGCTTTTGAGAAGTGCT
1 GAAAAGTGCTTTTGAGAAGTGCT
83429215 TTTGAAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (26 bp):
GAAAAGTGCTTTTGAGAAGTGCTGTG
Found at i:83431558 original size:44 final size:44
Alignment explanation
Indices: 83431486--83431579 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 44
83431476 TTCATATGTC
* *
83431486 AAAC-AATATTAAAATAACCTACAATAATCAGAGTTTAAATGGG
1 AAACTAATATTAAAATAACCTACAATAATCAAAGTTTAAATGGA
* * *
83431529 AAACTAATATTAAAATAGCCTACAGTAATCAAAGTTTAAGTGGA
1 AAACTAATATTAAAATAACCTACAATAATCAAAGTTTAAATGGA
83431573 AAACTAA
1 AAACTAA
83431580 AAACAAAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 4 0.09
44 41 0.91
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTACAATAATCAAAGTTTAAATGGA
Found at i:83434095 original size:15 final size:15
Alignment explanation
Indices: 83434075--83434108 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
83434065 AGAGTGAAGG
83434075 TAAGGAGTGCTTGTT
1 TAAGGAGTGCTTGTT
83434090 TAAGGAGTGCTTGTT
1 TAAGGAGTGCTTGTT
83434105 TAAG
1 TAAG
83434109 ATGTCTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.06, G:0.32, T:0.38
Consensus pattern (15 bp):
TAAGGAGTGCTTGTT
Found at i:83437262 original size:42 final size:41
Alignment explanation
Indices: 83437129--83437309 Score: 152
Period size: 42 Copynumber: 4.6 Consensus size: 41
83437119 AAGGCCGACC
* * *
83437129 TTTAAAAAAGGTTGGGATAGA-C--CTTGTCTAAGGAAACCT
1 TTTAAAAAAGGTTGGGATAAACCTTCTTATCTAAGGAAA-CA
* * *
83437168 TTTTAAAAAGGTTGGGATAGA---TCTGT-T-TAAGGCAAC-
1 TTTAAAAAAGGTTGGGATAAACCTTCT-TATCTAAGGAAACA
* *
83437204 CTT-AAAAAGGTTGGGATGAACCTTCTTATCTAA-GACAACA
1 TTTAAAAAAGGTTGGGATAAACCTTCTTATCTAAGGA-AACA
*
83437244 TTTAAAAGAAGGTTGGGATAAACCTTCTTATCTAAGGAAACC
1 TTTAAAA-AAGGTTGGGATAAACCTTCTTATCTAAGGAAACA
*
83437286 TTTAAAAAAGGTTGGG-TAGACCTT
1 TTTAAAAAAGGTTGGGATAAACCTT
83437310 ATCTAAGGTA
Statistics
Matches: 120, Mismatches: 10, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
35 15 0.12
36 2 0.02
37 2 0.02
38 12 0.10
39 29 0.24
40 10 0.08
41 12 0.10
42 36 0.30
43 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (41 bp):
TTTAAAAAAGGTTGGGATAAACCTTCTTATCTAAGGAAACA
Found at i:83437315 original size:37 final size:38
Alignment explanation
Indices: 83437126--83437593 Score: 383
Period size: 35 Copynumber: 12.6 Consensus size: 38
83437116 GTTAAGGCCG
* *
83437126 ACCTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGAA
1 ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
* *
83437164 ACCTTTTTAAAAAGGTTGGGATAGATCTGT-T-TAAGGCA
1 ACC-TTTAAAAAAGGTTGGGATAGACCT-TATCTAAGGCA
*
83437202 ACC-TT-AAAAAGGTTGGGAT-GAACCTTCTTATCTAAGACA
1 ACCTTTAAAAAAGGTTGGGATAG-A-C--CTTATCTAAGGCA
* * *
83437241 ACATTTAAAAGAAGGTTGGGATAAACCTTCTTATCTAAGGAA
1 ACCTTTAAAA-AAGGTTGGGATAGA-C--CTTATCTAAGGCA
*
83437283 ACCTTTAAAAAAGGTTGGG-TAGACCTTATCTAAGGTA
1 ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
* **
83437320 GCC-TT-AAAAAGGTTGGGATAGACC-CGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
** * *
83437355 ACC-TT-AAAAAGGTTTAGATAGACCTTGTCTAAAGCA
1 ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
* * *
83437391 ACCTATAAAAAAAGTTGGGATAGACCCGT-T-TAAGGCA
1 ACCTTTAAAAAAGGTTGGGATAGA-CCTTATCTAAGGCA
*
83437428 ACC-TT-AAAAAGGTTGGGAT-GACCTTGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
* *
83437463 ACCTTTAAAAAAGGTTGGGATAGACC-CATCTAAGGAA
1 ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
* *
83437500 ACCTTTAAAAATGGTTGGGATAAACAC--ATCTAAGGCA
1 ACCTTTAAAAAAGGTTGGGATAGAC-CTTATCTAAGGCA
* * **
83437537 ACC-CT-AAAAAGGTTCAGG-TAGACC-CGTCTAAGGCA
1 ACCTTTAAAAAAGGTT-GGGATAGACCTTATCTAAGGCA
*
83437572 ACC-CT-AAAAAGGTTGGGATAGA
1 ACCTTTAAAAAAGGTTGGGATAGA
83437594 TCTTGTCTCA
Statistics
Matches: 362, Mismatches: 42, Indels: 55
0.79 0.09 0.12
Matches are distributed among these distances:
33 3 0.01
34 7 0.02
35 118 0.33
36 28 0.08
37 82 0.23
38 35 0.10
39 35 0.10
40 6 0.02
41 12 0.03
42 36 0.10
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (38 bp):
ACCTTTAAAAAAGGTTGGGATAGACCTTATCTAAGGCA
Found at i:83437466 original size:72 final size:73
Alignment explanation
Indices: 83437133--83437601 Score: 472
Period size: 72 Copynumber: 6.3 Consensus size: 73
83437123 CCGACCTTTA
* * * * *
83437133 AAAAAGGTTGGGATAGACCTTGTCTAAGGAAACCTTTTTAAAAAGGTTGGGATAGATCTGTTTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAAGGTTGGGATAGACCCGTCTAA
83437198 GGCAACCTT
65 GGCAACCTT
* * * *
83437207 AAAAAGGTTGGGAT-GAACCTTCTTATCTAAGACAACATTTAAAAGAAGGTTGGGATAAACCTTC
1 AAAAAGGTTGGGATAG-A-C--CTTGTCTAAGGCAACCTTTAAAA-AAGGTTGGGATAGACC--C
* *
83437271 TTATCTAAGGAAACCTTT
59 --GTCTAAGGCAACC-TT
* * *
83437289 AAAAAAGGTTGGG-TAGACCTTATCTAAGGTAGCC-TT-AAAAAGGTTGGGATAGACCCGTCTAA
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCGTCTAA
83437351 GGCAACCTT
65 GGCAACCTT
** * * * *
83437360 AAAAAGGTTTAGATAGACCTTGTCTAAAGCAACCTATAAAAAAAGTTGGGATAGACCCGTTTAAG
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCGTCTAAG
83437425 GCAACCTT
66 GCAACCTT
*
83437433 AAAAAGGTTGGGAT-GACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCGTCTAAG
*
83437497 GAAACCTTT
66 GCAACC-TT
* * * *
83437506 AAAAATGGTTGGGATAAACAC--ATCTAAGGCAACC-CT-AAAAAGGTTCAGG-TAGACCCGTCT
1 AAAAA-GGTTGGGATAGAC-CTTGTCTAAGGCAACCTTTAAAAAAGGTT-GGGATAGACCCGTCT
*
83437566 AAGGCAACCCT
63 AAGGCAACCTT
*
83437577 AAAAAGGTTGGGATAGATCTTGTCT
1 AAAAAGGTTGGGATAGACCTTGTCT
83437602 CAGGTCCCAT
Statistics
Matches: 328, Mismatches: 45, Indels: 47
0.78 0.11 0.11
Matches are distributed among these distances:
69 1 0.00
70 21 0.06
71 28 0.09
72 89 0.27
73 56 0.17
74 37 0.11
75 3 0.01
76 22 0.07
77 29 0.09
78 2 0.01
79 12 0.04
81 11 0.03
82 4 0.01
83 13 0.04
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCGTCTAAG
GCAACCTT
Found at i:83441036 original size:30 final size:31
Alignment explanation
Indices: 83440985--83441047 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
83440975 ATCTACGATG
83440985 ATAAATTTTCATTTCCCAATAAGAACTCACT
1 ATAAATTTTCATTTCCCAATAAGAACTCACT
83441016 ATAAATTTTCATTT-CCAATAAGAACTCACT
1 ATAAATTTTCATTTCCCAATAAGAACTCACT
83441046 AT
1 AT
83441048 TTTTCAGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (31 bp):
ATAAATTTTCATTTCCCAATAAGAACTCACT
Found at i:83446123 original size:145 final size:146
Alignment explanation
Indices: 83445860--83446144 Score: 475
Period size: 145 Copynumber: 2.0 Consensus size: 146
83445850 AGAAAGCATT
* * *
83445860 GATTATGAAAGACATTAGCTAGTCTACTTTTATCAACAATCTTATTAAGTAAATATGTCAGGAAT
1 GATTATGAAAGACACTAGCTAATCTACTTTTATCAACAATCTTATTAACTAAATATGTCAGGAAT
* *
83445925 CCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAAT-AAGATGAA
66 CCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAATAAAAAGGAA
83445989 GTTTGTAAGCCTAATC
131 GTTTGTAAGCCTAATC
* *
83446005 GATTATGAAAGACACTAGCTAATCTACTTTTTTCAGCAATCTTATTAACTAAATATG-CTAGGAA
1 GATTATGAAAGACACTAGCTAATCTACTTTTATCAACAATCTTATTAACTAAATATGTC-AGGAA
*
83446069 TCCTATCCTTTTACTATTTAATAAGCTTGTCATTTATAATCCTTCGCTTCTATGAATAAAAAGGA
65 TCCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAATAAAAAGGA
83446134 AGTTTGTAAGC
130 AGTTTGTAAGC
83446145 TTAAGGGTCA
Statistics
Matches: 130, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
144 1 0.01
145 113 0.87
146 16 0.12
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (146 bp):
GATTATGAAAGACACTAGCTAATCTACTTTTATCAACAATCTTATTAACTAAATATGTCAGGAAT
CCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAATAAAAAGGAA
GTTTGTAAGCCTAATC
Found at i:83447217 original size:15 final size:15
Alignment explanation
Indices: 83447197--83447225 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
83447187 CAATAATTTT
83447197 TTATAATTATAATAA
1 TTATAATTATAATAA
83447212 TTATAATTATAATA
1 TTATAATTATAATA
83447226 GAGGAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATAATTATAATAA
Found at i:83450530 original size:16 final size:16
Alignment explanation
Indices: 83450509--83450541 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
83450499 ATGTGATATC
83450509 ACATTACTCAAATTTG
1 ACATTACTCAAATTTG
*
83450525 ACATTATTCAAATTTG
1 ACATTACTCAAATTTG
83450541 A
1 A
83450542 GTTGAAACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (16 bp):
ACATTACTCAAATTTG
Found at i:83457611 original size:41 final size:41
Alignment explanation
Indices: 83457566--83457649 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
83457556 TATATTTGCA
83457566 ATACCTTTATAATACTTTTCAAGAATTAAGCACCTCATGCC
1 ATACCTTTATAATACTTTTCAAGAATTAAGCACCTCATGCC
83457607 ATACCTTTATAATACTTTTCAAGAATTAAGCACCTCATGCC
1 ATACCTTTATAATACTTTTCAAGAATTAAGCACCTCATGCC
83457648 AT
1 AT
83457650 CATAGATCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (41 bp):
ATACCTTTATAATACTTTTCAAGAATTAAGCACCTCATGCC
Found at i:83463823 original size:46 final size:46
Alignment explanation
Indices: 83463773--83463948 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
83463763 TGGTTGAGCA
83463773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
83463819 TCCGAACTCGTTGAGTTGAGACCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
83463864 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
83463912 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83463949 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:83463929 original size:93 final size:93
Alignment explanation
Indices: 83463770--83463941 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
83463760 GGATGGTTGA
*
83463770 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
83463835 TGAGACCGAGTTCGTGAGATGTAACTAG
66 TGAGACCGAGTTCGTGAGATGTAACTAG
*
83463863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
*
83463927 TTGAGTCCGAGTTCG
65 TTGAGACCGAGTTCG
83463942 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGACCGAGTTCGTGAGATGTAACTAG
Found at i:83470026 original size:6 final size:6
Alignment explanation
Indices: 83470015--83470040 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
83470005 AAACCTTAAA
83470015 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
83470041 CCCTGCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:83470147 original size:5 final size:5
Alignment explanation
Indices: 83470137--83470173 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
83470127 TATTATAATT
*
83470137 ATATA ATATA ATATA ATATA ATATA CTTATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA -ATATA ATATA A
83470174 GCAAATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:83479455 original size:18 final size:20
Alignment explanation
Indices: 83479434--83479470 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
83479424 TTTTTAAATT
83479434 AAATT-ATTTCTTT-TTAAG
1 AAATTAATTTCTTTCTTAAG
83479452 AAATTAATTTCTTTCTTAA
1 AAATTAATTTCTTTCTTAA
83479471 ATTACTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
AAATTAATTTCTTTCTTAAG
Found at i:83479548 original size:24 final size:24
Alignment explanation
Indices: 83479499--83479549 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
83479489 TTATATTTCT
* *
83479499 TTTTCTTTTTCTCTTTATTCTTTC
1 TTTTCTTTTTCTCTTTACTCTCTC
*
83479523 TTTTC-TTTTCTTTTTACTCTCCTC
1 TTTTCTTTTTCTCTTTACTCT-CTC
83479547 TTT
1 TTT
83479550 CTTCCCTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTTTCTCTTTACTCTCTC
Found at i:83481140 original size:16 final size:16
Alignment explanation
Indices: 83481103--83481134 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
83481093 AGAATTGAGT
83481103 TAAG-AAATTATTTAA
1 TAAGAAAATTATTTAA
83481118 TAAGAAAATTATTTAA
1 TAAGAAAATTATTTAA
83481134 T
1 T
83481135 TGGAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
TAAGAAAATTATTTAA
Found at i:83482089 original size:23 final size:23
Alignment explanation
Indices: 83482059--83482105 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
83482049 AAAAAAAAGA
83482059 TACAACCCAGGTCAGTTTGCTTT
1 TACAACCCAGGTCAGTTTGCTTT
83482082 TACAACCCAGGTCAGTTTGCTTT
1 TACAACCCAGGTCAGTTTGCTTT
83482105 T
1 T
83482106 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (23 bp):
TACAACCCAGGTCAGTTTGCTTT
Found at i:83482718 original size:29 final size:28
Alignment explanation
Indices: 83482667--83482722 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
83482657 GTATATACAA
*
83482667 TTGAAAATATATAAAAGCCTATAATATT
1 TTGAAAATATATAAAAACCTATAATATT
**
83482695 TTGAAATATATATAAAAATTTATAATAT
1 TTGAAA-ATATATAAAAACCTATAATAT
83482723 AATATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (28 bp):
TTGAAAATATATAAAAACCTATAATATT
Found at i:83482782 original size:27 final size:29
Alignment explanation
Indices: 83482738--83482797 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
83482728 ATTAATTAAC
*
83482738 AAAAAAATAT-AA-ATATATAAAAGAACT
1 AAAAAAATATAAACATATATATAAGAACT
* * *
83482765 AAAAAATTATATACATATATATAATAACT
1 AAAAAAATATAAACATATATATAAGAACT
83482794 AAAA
1 AAAA
83482798 GTGTGTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.33
28 1 0.04
29 17 0.63
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAAAATATAAACATATATATAAGAACT
Found at i:83486902 original size:216 final size:216
Alignment explanation
Indices: 83486525--83486956 Score: 792
Period size: 216 Copynumber: 2.0 Consensus size: 216
83486515 ATACATTTAT
*
83486525 GCATTTAATATCAAAATCCATTTGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
1 GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
* *
83486590 AAACATGCTTAGAAGTGGTTCGAGACTAAACTGATATCATTTGCAAATTTTGAGAAACTTAGAAA
66 AAACATGCTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTGGAGAAACTTAGAAA
*
83486655 ATTTTAAAACATTTAATGGTCACATGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
131 ATTTTAAAACATTTAATGGTCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
* * *
83486720 AAGCTGTGTGAAAATAGGACA
196 AAGCTATGTCAAAACAGGACA
83486741 GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
1 GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
*
83486806 AAACATGCTTGGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTGGAGAAACTTAGAAA
66 AAACATGCTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTGGAGAAACTTAGAAA
83486871 ATTTTAAAACATTTAATGGTCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
131 ATTTTAAAACATTTAATGGTCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
83486936 AAGCTATGTCAAAACAGGACA
196 AAGCTATGTCAAAACAGGACA
83486957 TACATACTGA
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
216 208 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (216 bp):
GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
AAACATGCTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTGGAGAAACTTAGAAA
ATTTTAAAACATTTAATGGTCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
AAGCTATGTCAAAACAGGACA
Found at i:83493648 original size:20 final size:18
Alignment explanation
Indices: 83493625--83493674 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
83493615 AAAATATTTA
83493625 ATTAATTTAATATTAAAGT
1 ATTAATTTAATATTAAA-T
83493644 GATT-ATCTTAATATTAAAT
1 -ATTAAT-TTAATATTAAAT
83493663 -TTAATTTAATAT
1 ATTAATTTAATAT
83493675 AGATAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 3 0.11
20 14 0.50
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (18 bp):
ATTAATTTAATATTAAAT
Found at i:83493697 original size:42 final size:42
Alignment explanation
Indices: 83493645--83493746 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
83493635 TATTAAAGTG
** *
83493645 ATTATCTTAATATTAAATTTAATTTAATATAGATAAACATTCT
1 ATTAT-TTAATATTAAATTTAACCTAATATAGATAAACATTAT
* **
83493688 ATTATTTAATATTAAATTTAACCTAATATTGATAAATGTTAT
1 ATTATTTAATATTAAATTTAACCTAATATAGATAAACATTAT
83493730 ATTAATTTAATATTAAA
1 ATT-ATTTAATATTAAA
83493747 GTAATTAAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 34 0.65
43 18 0.35
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (42 bp):
ATTATTTAATATTAAATTTAACCTAATATAGATAAACATTAT
Found at i:83499560 original size:43 final size:42
Alignment explanation
Indices: 83499491--83499593 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
83499481 TGAAAAGGGG
* * * * *
83499491 TGTTTGGCTGCAGGTTTTGGGGATTCTAAGGCTGGAATAGGAT
1 TGTTTGGCTGCAGGATATGGGCATTCT-AGGCTGGAATAGAAC
*
83499534 TGTTTGGCTGCAGAGATAT-GGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAG-GATATGGGCATTCTAGGCTGGAATAGAAC
*
83499576 TGTTTGGCAGCATGGATA
1 TGTTTGGCTGCA-GGATA
83499594 GGGTTGTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.53
43 21 0.41
44 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.32
Consensus pattern (42 bp):
TGTTTGGCTGCAGGATATGGGCATTCTAGGCTGGAATAGAAC
Found at i:83499714 original size:16 final size:15
Alignment explanation
Indices: 83499689--83499753 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 15
83499679 AATATTTAAC
83499689 TAAAATAAAATAAAAA
1 TAAAA-AAAATAAAAA
83499705 TAAAAGAAAATAATAAA
1 TAAAA-AAAATAA-AAA
83499722 TAATAAAAGAA-AAAAA
1 TAA-AAAA-AATAAAAA
83499738 TAAATAAAAATAAAAA
1 TAAA-AAAAATAAAAA
83499754 GAAAGATTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
15 3 0.07
16 26 0.60
17 10 0.23
18 4 0.09
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:83499737 original size:23 final size:23
Alignment explanation
Indices: 83499690--83499757 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 23
83499680 ATATTTAACT
83499690 AAAATAAAATAAAAATAAAAGAAA
1 AAAAT-AAATAAAAATAAAAGAAA
*
83499714 ATAATAAAT---AATAAAAGAAA
1 AAAATAAATAAAAATAAAAGAAA
83499734 AAAATAAATAAAAATAAAAAGAAA
1 AAAATAAATAAAAAT-AAAAGAAA
83499758 GATTGGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 19 0.50
23 7 0.18
24 12 0.32
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAATAAATAAAAATAAAAGAAA
Done.