Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 22 of 38
Found at i:3371885 original size:32 final size:32
Alignment explanation
Indices: 3371840--3371922 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
3371830 GTATCGATAT
* *
3371840 TGTAGCGATACATTGTATTGATACAACAGTTA
1 TGTATCGATACATTGTATTGATACAACACTTA
*
3371872 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATTGATACAACACTTA
3371904 TGTATCGATACATT-TATTG
1 TGTATCGATACATTGTATTG
3371923 TTTGTATCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.09
32 43 0.91
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATTGTATTGATACAACACTTA
Found at i:3371890 original size:13 final size:13
Alignment explanation
Indices: 3371872--3371896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3371862 ACAACAGTTA
3371872 TGTATCGATACAT
1 TGTATCGATACAT
3371885 TGTATCGATACA
1 TGTATCGATACA
3371897 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3371943 original size:19 final size:19
Alignment explanation
Indices: 3371884--3371943 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
3371874 TATCGATACA
*
3371884 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ATTGT
* *
3371903 ATGTATCGATACATTTATTGT
1 TTGTATCGATACA--AATTGT
3371924 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAATTGT
3371943 T
1 T
3371944 GAAATTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACAAATTGT
Found at i:3372499 original size:51 final size:50
Alignment explanation
Indices: 3372343--3372508 Score: 145
Period size: 51 Copynumber: 3.3 Consensus size: 50
3372333 TTTCATCTTC
* ** * **
3372343 GGGATACTCCAAC-CCCAGTTCCATTTCCAAAACATCAATTTTTCTTAATCG
1 GGGATACTCCAACTCCGA-TTTTATTTCCAAAACA-CAAATTTTCACAATCG
** * *** * *
3372394 GGGATACTCCAACTCCGATTTTATTTTTAAAGCATTGATTTACTGCAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTTC-ACAATCG
* *
3372445 GGGATACTGCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAATTG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACA-CAAATTTTCACAATCG
3372496 GGGATACTCCAAC
1 GGGATACTCCAAC
3372509 CCTGTTATTT
Statistics
Matches: 88, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
50 4 0.05
51 76 0.86
52 8 0.09
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTTCACAATCG
Found at i:3372527 original size:28 final size:28
Alignment explanation
Indices: 3372495--3372568 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
3372485 TTTCACAATT
** **
3372495 GGGGATACTCCAACCCTGTTATTTCATC
1 GGGGATACTCCAACCCCATTATTTCAGA
*
3372523 GGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCATTATTTCAGA
3372551 GGGGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
3372569 GCTTTATATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCAGA
Found at i:3372717 original size:51 final size:52
Alignment explanation
Indices: 3372660--3372881 Score: 195
Period size: 51 Copynumber: 4.3 Consensus size: 52
3372650 ATTACTTCCG
* **
3372660 AGGGGATACTTCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAAT-
1 AGGGGATACTCCAACCCCGATTTTATTTCTAAAATACTGATTTTCCACAATC
* ** * * * *
3372711 AGGGGATGCTCCAACTTCGATTTTATTTCCAAAATATTGA-TTTCTAATAATC
1 AGGGGATACTCCAACCCCGATTTTATTTCTAAAATACTGATTTTC-CACAATC
* * *** * *
3372763 GGGGGATACTTCAACCCCGGCCTTATTTCT-AAATCATTGATTTTTCACAATC
1 AGGGGATACTCCAACCCCGATTTTATTTCTAAAAT-ACTGATTTTCCACAATC
* * *
3372815 -GGGGATACTCCAACCTCGATTTTATTT-TCAAAATACTGATTTTCTATAATC
1 AGGGGATACTCCAACCCCGATTTTATTTCT-AAAATACTGATTTTCCACAATC
3372866 A-GGGATACTCCAACCC
1 AGGGGATACTCCAACCC
3372882 TATTATTTCC
Statistics
Matches: 132, Mismatches: 32, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
50 5 0.04
51 89 0.67
52 35 0.27
53 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (52 bp):
AGGGGATACTCCAACCCCGATTTTATTTCTAAAATACTGATTTTCCACAATC
Found at i:3372739 original size:110 final size:106
Alignment explanation
Indices: 3372444--3372725 Score: 316
Period size: 110 Copynumber: 2.6 Consensus size: 106
3372434 TACTGCAATC
* * * * *
3372444 GGGGATACTGCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACC-AATTTTCACAATAGGGGATACTCCAAC
** *
3372509 CCTGTTATTTCATCGGGGATACTCCAACCCCATTATTTCCGA
65 CCTGTTATTTCATCGAAGATACTCCAACCCCATTACTTCCGA
* * ** * * *
3372551 GGGGATACTCCAACCCC-AGCTTTATATCTAAAAATATTGATTTTTTTCATAATCGAGGG-TACT
1 GGGGATACTCCAACCCCGA-TTTTATTTCT-AAAATA-CCA--ATTTTCACAATAG-GGGATACT
*
3372614 CCAACCCTGTTATTTCATCGAAGATACTCCAATCCCATTACTTCCGA
60 CCAACCCTGTTATTTCATCGAAGATACTCCAACCCCATTACTTCCGA
* *
3372661 GGGGATACTTCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATAGGGGATGCTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTT-CACAATAGGGGATACTCCAAC
3372726 TTCGATTTTA
Statistics
Matches: 142, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
106 8 0.06
107 36 0.25
108 7 0.05
109 6 0.04
110 81 0.57
111 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCACAATAGGGGATACTCCAACC
CTGTTATTTCATCGAAGATACTCCAACCCCATTACTTCCGA
Found at i:3372789 original size:103 final size:102
Alignment explanation
Indices: 3372661--3372881 Score: 275
Period size: 103 Copynumber: 2.2 Consensus size: 102
3372651 TTACTTCCGA
** *
3372661 GGGGATACTTCAACCCCGATTTTATTTCTAAAAT-ACCAATTTTCCACAATAGGGGATGCTCCAA
1 GGGGATACTTCAACCCCGACCTTATTTCT-AAATCACCAATTTTCCACAATAGGGGATACTCCAA
* *
3372725 CTTCGATTTTATTTCCAAAATATTGA-TTTCTAATAATC
65 CCTCGATTTTATTTCCAAAATACTGATTTTCT-ATAATC
* *** * *
3372763 GGGGGATACTTCAACCCCGGCCTTATTTCTAAATCATTGATTTTTCACAATCGGGGATACTCCAA
1 -GGGGATACTTCAACCCCGACCTTATTTCTAAATCACCAATTTTCCACAATAGGGGATACTCCAA
*
3372828 CCTCGATTTTATTTTCAAAATACTGATTTTCTATAATC
65 CCTCGATTTTATTTCCAAAATACTGATTTTCTATAATC
* *
3372866 AGGGATACTCCAACCC
1 GGGGATACTTCAACCC
3372882 TATTATTTCC
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
102 18 0.18
103 79 0.77
104 5 0.05
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (102 bp):
GGGGATACTTCAACCCCGACCTTATTTCTAAATCACCAATTTTCCACAATAGGGGATACTCCAAC
CTCGATTTTATTTCCAAAATACTGATTTTCTATAATC
Found at i:3376842 original size:61 final size:61
Alignment explanation
Indices: 3376523--3377073 Score: 689
Period size: 61 Copynumber: 9.0 Consensus size: 61
3376513 CCCGCTTATG
* * * * *
3376523 CCTTTAGTCTTCAAAGAGTAGGACGCCTTCT-CTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
** * *
3376583 CCTCCAGTCTTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CCTTTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * ***
3376645 CCTTTAGTGCTCAAAGAGCAGGACCCCTTTTCC-TTCAAAGCCCACATGTGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
** * * *
3376705 CCTCCAGTCCTCAAAGAACAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CCTTTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
3376767 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
3376828 CCTTTAGTCCTCAAAGAGGAGGACCCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
3376889 CCTTTAGTCCTCAAAGAGGAGGACGCCTTTTCCTTTTAAGGCCCACACAAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
3376950 CCTTTAGTCCTCAAAGAGCAGGACGCCATCTCC-TTCAAAACCCACACGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
** * * * * *
3377010 CCTCCAATCCTCAAAAAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
3377073 C
1 C
3377074 TCCTAGTCTT
Statistics
Matches: 425, Mismatches: 55, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
59 22 0.05
60 127 0.30
61 148 0.35
62 56 0.13
63 72 0.17
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (61 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:3377074 original size:305 final size:304
Alignment explanation
Indices: 3376523--3377074 Score: 847
Period size: 305 Copynumber: 1.8 Consensus size: 304
3376513 CCCGCTTATG
* * * *
3376523 CCTTTAGTCTTCAAAGAGTAGGACGCCTTCTCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCC
1 CCTTTAGTCCTCAAAGAGGAGGACCCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCC
* *
3376588 AGTCTTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGT
66 AGTCCTCAAAGAGCAGGACGCC-TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGT
* * * * * * *
3376653 GCTCAAAGAGCAGGACCCCTTTTCCTTCAAAGCCCACATGTGTTGGTGGCACCCTCCAGTCCTCA
130 CCTCAAAGAGCAGGACCCCATCTCCTTCAAAACCCACACGAGTTGGTGGCACCCTCCAATCCTCA
3376718 AAGAACAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
195 AAGAACAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
3376783 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
260 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
3376828 CCTTTAGTCCTCAAAGAGGAGGACCCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTT
1 CCTTTAGTCCTCAAAGAGGAGGACCCCTTCT-CTTTCAAAGCCCACACAAGTTGGTGGCACCCTC
* * *
3376893 TAGTCCTCAAAGAGGAGGACGCC-TTTTCCTTTTAAGGCCCACACAAGTTGGTGGCACCCTTTAG
65 CAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAG
*
3376957 TCCTCAAAGAGCAGGACGCCATCTCCTTCAAAACCCACACGAGTTGGTGGCACCCTCCAATCCTC
129 TCCTCAAAGAGCAGGACCCCATCTCCTTCAAAACCCACACGAGTTGGTGGCACCCTCCAATCCTC
* **
3377022 AAA-AAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
194 AAAGAA-CAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
3377075 CCTAGTCTTC
Statistics
Matches: 221, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
304 33 0.15
305 138 0.62
306 50 0.23
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (304 bp):
CCTTTAGTCCTCAAAGAGGAGGACCCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCC
AGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
CTCAAAGAGCAGGACCCCATCTCCTTCAAAACCCACACGAGTTGGTGGCACCCTCCAATCCTCAA
AGAACAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGA
GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:3377331 original size:131 final size:134
Alignment explanation
Indices: 3377076--3377411 Score: 335
Period size: 131 Copynumber: 2.5 Consensus size: 134
3377066 GTGGCACCTC
* * * * * * *
3377076 CTAGTCTTCAAGGAGTGGGATGCACTTTATTTTCCTCTTTC-CCCTTGTCCTCGAAGAGCAGGAC
1 CTAGTCCTCAAAGAGTAGGACGCACTTTATTTT-CTTTTTCTCCTTTGTCCTCAAAGAGCAGGAC
* * * * * * * *
3377140 GCACTTTATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGCATTTTATTTTCCTT-TTC
65 -CACTTCATTCCCTTATTTTCCCTTTTATCCTCAAAAAGCAAGATGCACTTCATTTTCCTTCTTC
3377204 T-CCT-
129 TCCCTG
*
3377208 CTA-TCCTCAAAGAGTAGGACGCACTTTATTTTCTTTTTCTCCTTTGTCCTCAAAGAGTAGGA-C
1 CTAGTCCTCAAAGAGTAGGACGCACTTTATTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACC
3377271 ACGTTCCATTCCCTTATTTTCTCCTTTTATCCTCAAAAAGCAAGATGCACTTCA-TTTCCTTCTT
66 AC-TT-CATTCCCTTATTTTC-CCTTTTATCCTCAAAAAGCAAGATGCACTTCATTTTCCTTCTT
*
3377335 TTCCCTG
128 CTCCCTG
* * * *
3377342 CTAGTTCTCAAAGAGCAGGACACACTTTATTTTCCTTTTTCCTTTTTCCTTTATCCTCAAAGAGC
1 CTAGTCCTCAAAGAGTAGGACGCACTTTATTTT-CTTTTT-C----TCCTTTGTCCTCAAAGAGC
3377407 AGGAC
60 AGGAC
3377412 GTATTTCGTT
Statistics
Matches: 167, Mismatches: 22, Indels: 20
0.80 0.11 0.10
Matches are distributed among these distances:
129 3 0.02
130 8 0.05
131 63 0.38
132 33 0.20
133 3 0.02
134 3 0.02
135 26 0.16
136 6 0.04
137 1 0.01
141 21 0.13
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (134 bp):
CTAGTCCTCAAAGAGTAGGACGCACTTTATTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACC
ACTTCATTCCCTTATTTTCCCTTTTATCCTCAAAAAGCAAGATGCACTTCATTTTCCTTCTTCTC
CCTG
Found at i:3377337 original size:46 final size:45
Alignment explanation
Indices: 3377093--3377410 Score: 237
Period size: 43 Copynumber: 7.1 Consensus size: 45
3377083 TCAAGGAGTG
* * *
3377093 GGATGCACTTTATTTTCC-TC-TTTC-CCCTTGTCCTCGAAGAGCA
1 GGATGCACTTTA-TTTCCTTCTTTTCTCCTTTATCCTCAAAGAGCA
* *
3377136 GGACGCACTTTATTTCCTTCTTTTC-CCTTTTGTCCTCAAAGAGCA
1 GGATGCACTTTATTTCCTTCTTTTCTCC-TTTATCCTCAAAGAGCA
* * * *
3377181 GGATGCATTTTATTT--TCCTTTTCTCCTCTATCCTCAAAGAGTA
1 GGATGCACTTTATTTCCTTCTTTTCTCCTTTATCCTCAAAGAGCA
* * * *
3377224 GGACGCACTTTATTTTC-T-TTTTCTCCTTTGTCCTCAAAGAGTA
1 GGATGCACTTTATTTCCTTCTTTTCTCCTTTATCCTCAAAGAGCA
* * * *
3377267 GGA--CACGTTCCATTCCCTTATTTTCTCCTTTTATCCTCAAAAAGCA
1 GGATGCAC-TT-TATTTCCTTCTTTTCTCC-TTTATCCTCAAAGAGCA
* * * *
3377313 AGATGCACTTCATTTCCTTCTTTTC-CCTGCTAGTTCTCAAAGAGCA
1 GGATGCACTTTATTTCCTTCTTTTCTCCT-TTA-TCCTCAAAGAGCA
**
3377359 GGACACACTTTATTTTCCTTTTTCCTTTT-TCCTTTATCCTCAAAGAGCA
1 GGATGCACTTTA-TTTCC---TT-CTTTTCTCCTTTATCCTCAAAGAGCA
3377408 GGA
1 GGA
3377411 CGTATTTCGT
Statistics
Matches: 222, Mismatches: 32, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.01
42 7 0.03
43 77 0.35
44 10 0.05
45 40 0.18
46 48 0.22
47 7 0.03
48 3 0.01
49 15 0.07
50 4 0.02
51 8 0.04
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (45 bp):
GGATGCACTTTATTTCCTTCTTTTCTCCTTTATCCTCAAAGAGCA
Found at i:3378209 original size:20 final size:19
Alignment explanation
Indices: 3378184--3378290 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 19
3378174 TTTACCCAGA
3378184 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
3378204 TGTATCGATGCATTGCTCAT
1 TGTATCGATACATT-TTCAT
3378224 TGTATCGATACA-----A-
1 TGTATCGATACATTTTCAT
3378237 TGTATCGATAC-TTTGCTCAT
1 TGTATCGATACATTT--TCAT
*
3378257 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
3378277 TGTATCGATACATT
1 TGTATCGATACATT
3378291 CTGGCATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 22
0.73 0.04 0.22
Matches are distributed among these distances:
13 11 0.15
14 1 0.01
19 2 0.03
20 54 0.75
21 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:3378245 original size:53 final size:52
Alignment explanation
Indices: 3378183--3378288 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 52
3378173 GTTTACCCAG
* *
3378183 ATGTATCGATACATTTTG-CATTGTATCGATGCATTGCT-CATTGTATCGATACA
1 ATGTATCGATAC--TTTGCCATTGTATCGATACATT-CTACAATGTATCGATACA
*
3378236 ATGTATCGATACTTTGCTCATTGTATCGATACATTTTACAATGTATCGATACA
1 ATGTATCGATACTTTGC-CATTGTATCGATACATTCTACAATGTATCGATACA
3378289 TTCTGGCATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 4 0.09
52 1 0.02
53 42 0.89
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (52 bp):
ATGTATCGATACTTTGCCATTGTATCGATACATTCTACAATGTATCGATACA
Found at i:3378253 original size:33 final size:33
Alignment explanation
Indices: 3378204--3378268 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
3378194 CATTTTGCAT
*
3378204 TGTATCGATGCATTGCTCATTGTATCGATACAA
1 TGTATCGATACATTGCTCATTGTATCGATACAA
*
3378237 TGTATCGATACTTTGCTCATTGTATCGATACA
1 TGTATCGATACATTGCTCATTGTATCGATACA
3378269 TTTTACAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTGCTCATTGTATCGATACAA
Found at i:3380219 original size:18 final size:18
Alignment explanation
Indices: 3380198--3380232 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3380188 ATTAATAATC
3380198 ATAAAAAATAAAAAATAA
1 ATAAAAAATAAAAAATAA
*
3380216 ATAAAAATTAAAAAATA
1 ATAAAAAATAAAAAATA
3380233 TATCGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAAAATAA
Found at i:3380228 original size:24 final size:24
Alignment explanation
Indices: 3380182--3380232 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3380172 CTGAATTAAT
* **
3380182 TAAAAAATTAATAATCATAAAAAA
1 TAAAAAATAAATAAAAATAAAAAA
3380206 TAAAAAATAAATAAAAATTAAAAAA
1 TAAAAAATAAATAAAAA-TAAAAAA
3380231 TA
1 TA
3380233 TATCGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAAAAATAAATAAAAATAAAAAA
Found at i:3380462 original size:17 final size:17
Alignment explanation
Indices: 3380411--3380472 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
3380401 TACGTGTCAT
3380411 TGCATGCTTTTACTTTCA
1 TGCATGCTTTTAC-TTCA
* * * *
3380429 TGCATACCTTCATTTCA
1 TGCATGCTTTTACTTCA
3380446 TGCATGCTTTTACTTCA
1 TGCATGCTTTTACTTCA
3380463 TGCATGCTTT
1 TGCATGCTTT
3380473 CATGCGAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 27 0.75
18 9 0.25
ACGTcount: A:0.18, C:0.24, G:0.11, T:0.47
Consensus pattern (17 bp):
TGCATGCTTTTACTTCA
Found at i:3388195 original size:85 final size:85
Alignment explanation
Indices: 3388061--3388507 Score: 268
Period size: 85 Copynumber: 5.3 Consensus size: 85
3388051 AACTTTCCTA
* * * **
3388061 CTTTCAGTCTGCCTTGTAAGCTTTGACCCTAGAGACTACCTTATCTAAAGT-TTGTTTGTCGGCT
1 CTTT-AGTCTG-CTTGTCAGCTTTGACCTTGGAGACTACCTTATCTAAAGTCTT-CATGTCGGCT
*
3388125 TT-A-ACCTTGAAGACTTTCTTACC
63 TTGACACC-AG-AGACTTTCTTACC
* *
3388148 CTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTGCTTTATCTAAAGTCTTCATGTCGGCTTTG
1 CTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTACCTTATCTAAAGTCTTCATGTCGGCTTTG
3388213 ACACCAGAGACTTTCTTACC
66 ACACCAGAGACTTTCTTACC
* * * * * * ** * ****
3388233 CTTCT-GTCTGCTTGTCGGCTTTGACCTTGGTGATTGCCTCATCTTAAGTCGACCTGTTAATTTT
1 CTT-TAGTCTGCTTGTCAGCTTTGACCTTGGAGACTACCTTATCTAAAGTCTTCATGTCGGCTTT
* * *
3388297 GACCCCGGAGACTTTCTTATC
65 GACACCAGAGACTTTCTTACC
* * * * ** * * * * ** * * * *
3388318 CTTCAGTCTACCTATTGGCCTTGACCCTAGAGATTGTCTTACCTAAATTCTGCTTGTCGGCTTTG
1 CTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTACCTTATCTAAAGTCTTCATGTCGGCTTTG
* * *
3388383 ACACTAGAAACTTTCTTATC
66 ACACCAGAGACTTTCTTACC
* * * * * * *
3388403 CTCTAGTCTGCCTGTCAGC--T--CC-TAGAGACTGCCTTATCTAAAGTCTACTTGTCGAC-TTG
1 CTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTACCTTATCTAAAGTCTTCATGTCGGCTTTG
* *
3388462 AC-CTTAGAGACTTTCTTAAC
66 ACAC-CAGAGACTTTCTTACC
* *
3388482 CTTTAGACTGTTTGTCAGCTTTGACC
1 CTTTAGTCTGCTTGTCAGCTTTGACC
3388508 CTAGAGATTT
Statistics
Matches: 283, Mismatches: 67, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
78 1 0.00
79 34 0.12
80 28 0.10
81 3 0.01
83 3 0.01
85 196 0.69
86 11 0.04
87 7 0.02
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (85 bp):
CTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTACCTTATCTAAAGTCTTCATGTCGGCTTTG
ACACCAGAGACTTTCTTACC
Found at i:3388499 original size:79 final size:80
Alignment explanation
Indices: 3388343--3388501 Score: 187
Period size: 79 Copynumber: 2.0 Consensus size: 80
3388333 TGGCCTTGAC
* * * * * *
3388343 CCTAGAGATTGTCTTACCTAAATTCTGCTTGTCGGCTTTGACACTAGAAACTTTCTTATCCTCTA
1 CCTAGAGACTGCCTTACCTAAAGTCTACTTGTCGACTTTGACACTAGAAACTTTCTTAACCTCTA
*
3388408 GTCTGCCTGTCAGCT
66 GACTGCCTGTCAGCT
* * *
3388423 CCTAGAGACTGCCTTATCTAAAGTCTACTTGTCGAC-TTGAC-CTTAGAGACTTTCTTAACCTTT
1 CCTAGAGACTGCCTTACCTAAAGTCTACTTGTCGACTTTGACAC-TAGAAACTTTCTTAACCTCT
**
3388486 AGACTGTTTGTCAGCT
65 AGACTGCCTGTCAGCT
3388502 TTGACCCTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.02
79 35 0.53
80 30 0.45
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.37
Consensus pattern (80 bp):
CCTAGAGACTGCCTTACCTAAAGTCTACTTGTCGACTTTGACACTAGAAACTTTCTTAACCTCTA
GACTGCCTGTCAGCT
Found at i:3388513 original size:43 final size:43
Alignment explanation
Indices: 3388459--3388552 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
3388449 ACTTGTCGAC
* * ** *
3388459 TTGACCTTAGAGACTTTCTTAACCTTTAGACTGTTTGTCAGCT
1 TTGACCCTAGAGACTTTCTTAACCCTTAGACTACTTATCAGCT
* * *
3388502 TTGACCCTAGAGATTTTCTTACCCCTTAGTCTACTTATCAGCT
1 TTGACCCTAGAGACTTTCTTAACCCTTAGACTACTTATCAGCT
3388545 TTGACCCT
1 TTGACCCT
3388553 CAGTCTGCCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (43 bp):
TTGACCCTAGAGACTTTCTTAACCCTTAGACTACTTATCAGCT
Found at i:3388557 original size:25 final size:25
Alignment explanation
Indices: 3388524--3388577 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
3388514 ATTTTCTTAC
* *
3388524 CCCTTAGTCTACTTATCAGCTTTGA
1 CCCTCAGTCTACCTATCAGCTTTGA
* * *
3388549 CCCTCAGTCTGCCTGTCAGTTTTGA
1 CCCTCAGTCTACCTATCAGCTTTGA
3388574 CCCT
1 CCCT
3388578 GCTGGCTGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (25 bp):
CCCTCAGTCTACCTATCAGCTTTGA
Found at i:3388684 original size:42 final size:42
Alignment explanation
Indices: 3388554--3389513 Score: 542
Period size: 42 Copynumber: 22.8 Consensus size: 42
3388544 TTTGACCCTC
* * ** * * *
3388554 AGTCTGCCTGTCAGTTTTGACCCTGCTGGCTGCCTTACCTCA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * * * * *
3388596 AGTCTACCTGTTGACTTTGACCTTGGAGACTT-TTCTACCCTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCT-TACCTTA
* * *
3388638 AGTCTCCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTTA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * *
3388680 AGTCTGCCTGTCAGCTTTGACCCTGGAGACTTACTATCCCCTCA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCT-T-ACCTTA
* ** * *
3388724 A-TCTGCTTGTCATCTTTGACCCTGGAGACTACCTTA-TTTA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * * * *
3388764 TAGTTTGCCTATCAGCTTTGACCCTAGAGACTTTCTTACCTTC
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * * * *
3388807 AGTCTGCCTATCGGCTTTGACCTTAGAGACTACCTTATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
*
3388849 AGTCTGCCTGTCAGCTTTGACCCTGGAGACTTTCC-TACCGTT-
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTTACC-TTA
** ** * * * *
3388891 AGTCTGCCCATCTACTTTGACCCTGAAGA-TTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-CCTTACCTTA
* * * * *
3388933 AATCTGCCTATCGACTTTGA-CCTAGAGACCTT-TTTACCCTT-
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGA-CTTCCTTA-CCTTA
* * ** * * *
3388974 CGTCTGCCTGTCGACTTTGACCCTAAAGAC-TGCTTCGCCTCA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTT-ACCTTA
* * * * * *
3389016 AGTTTGCCTGTCGACTTTCACCTTGGAGACTTTCTTACCTTTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACC-TTA
* * * * * *
3389059 AGTCTGCGTGTCAGTTTTGACCTTGGAGACTGCCTTACCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * * * * *
3389101 AGTCTGCTTATTGACTTTGACCTTGGAGACTTTCTTACCCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTA-CCTTA
* * * * *
3389144 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * ** * * * *
3389186 AGTTTTCCTGTCAACTTTGACCTTGGAGACTTTCTTACCCCTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTA-CCTTA
* * * * *
3389229 AGTCTGCTTGTCGGCTTTGACCCTAGACACTACCTTACCTCA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * ** *
3389271 AGTTTGCCTATCGGCTTTGACGTTGGAGACTTCCTTACCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * * * *
3389313 AGTCTACCTGTTGGCTTTGACTCTAGAGACTTTCTTATCCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTA-CCTTA
* * * * *
3389356 AGTCTGCC-ATCGGCTTTGACCCTAGAGACTACCTTATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
* * * *
3389397 AGTCTGCCTATCAGCTTTGACCTTGGAGACTTTCC-TACCCTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTTA-CCTTA
* *** * * *
3389440 AGTCTGCCTGTCGGCTTTGACTCAAAAGA-TTGCTTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTT-ACCTTA
* * *
3389482 AGTCTGCTTCTCGGCTTTGACCCTAGAGACTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT
3389514 TTCCACCTTT
Statistics
Matches: 688, Mismatches: 200, Indels: 59
0.73 0.21 0.06
Matches are distributed among these distances:
40 5 0.01
41 49 0.07
42 454 0.66
43 175 0.25
44 5 0.01
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (42 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTA
Found at i:3388690 original size:84 final size:84
Alignment explanation
Indices: 3388548--3389343 Score: 620
Period size: 85 Copynumber: 9.4 Consensus size: 84
3388538 ATCAGCTTTG
* * ** * * *
3388548 ACCCTCAGTCTGCCTGTCAGTTTTGACCCTGCTGGCTGCCTTACCTCAAGTCTACCTGTTGACTT
1 ACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGACTT
3388613 TGACCTTGGAGACTTT-TCT
66 TGACCTTGGAGACTTTCT-T
* * * *
3388632 ACCCTCAGTCTCCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTTAAGTCTGCCTG-TCAGCT
1 ACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGA-CT
* *
3388696 TTGACCCTGGAGACTTACTAT
65 TTGACCTTGGAGACTTTCT-T
* * * ** * ** * * * *
3388717 CCCCTCAATCTGCTTGTCATCTTTGACCCTGGAGACTACCTTATTTATAGTTTGCCT-ATCAGCT
1 ACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGA-CT
* *
3388781 TTGACCCTAGAGACTTTCTT
65 TTGACCTTGGAGACTTTCTT
* * * * * * *
3388801 ACCTTCAGTCTGCCTATCGGCTTTGACCTTAGAGACTACCTTATCTAAAGTCTGCCTG-TCAGCT
1 ACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGA-CT
* *
3388865 TTGACCCTGGAGACTTTCCT
65 TTGACCTTGGAGACTTTCTT
* * ** ** * * * * * * *
3388885 ACCGTTAGTCTGCCCATCTACTTTGACCCTGAAGATTGCCTCATCTAAAATCTGCCTATCGACTT
1 ACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGACTT
*
3388950 TGACC-TAGAGACCTTT-TT
66 TGACCTTGGAGA-CTTTCTT
* ** * * * *
3388968 ACCCTTC-GTCTGCCTGTCGACTTTGACCCTAAAGACTG-CTTCGCCTCAAGTTTGCCTGTCGAC
1 ACCC-TCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTT-ACCTAAAGTCTGCCTGTTGAC
*
3389031 TTTCACCTTGGAGACTTTCTT
64 TTTGACCTTGGAGACTTTCTT
* * * * * * * *
3389052 ACCTTTTAGTCTGCGTGTCAGTTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCTTATTGACT
1 ACC-CTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGACT
3389117 TTGACCTTGGAGACTTTCTT
65 TTGACCTTGGAGACTTTCTT
* * * * * **
3389137 ACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTTTTCCTGTCAACT
1 ACCC-TCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGACT
3389202 TTGACCTTGGAGACTTTCTT
65 TTGACCTTGGAGACTTTCTT
* * * * * * * * *
3389222 ACCCCTCAGTCTGCTTGTCGGCTTTGACCCTAGACACTACCTTACCTCAAGTTTGCCTATCGGCT
1 A-CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGACT
* *
3389287 TTGACGTTGGAGACTTCCTT
65 TTGACCTTGGAGACTTTCTT
* * * * *
3389307 A-CCTAAAGTCTACCTGTTGGCTTTGACTCTAGAGACT
1 ACCCT-CAGTCTGCCTGTCGGCTTTGACCCTGGAGACT
3389344 TTCTTATCCT
Statistics
Matches: 572, Mismatches: 124, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
82 2 0.00
83 65 0.11
84 231 0.40
85 268 0.47
86 6 0.01
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (84 bp):
ACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCTAAAGTCTGCCTGTTGACTT
TGACCTTGGAGACTTTCTT
Found at i:3389368 original size:84 final size:83
Alignment explanation
Indices: 3388610--3389514 Score: 334
Period size: 85 Copynumber: 10.7 Consensus size: 83
3388600 TACCTGTTGA
* * * * **
3388610 CTTTGACCTTGGAGACTT-TTCTACCCT-CAGTCTCCCTGTCGGCTTTGACCCTGGAGACTGCCT
1 CTTTGACCTTGGAGACTTCCT-TA-CCTAAAGTCTGCCTGTCGGCTTTGA-CCTAGAGACTTTCT
* * * *
3388673 CACCTTAAGTCTGCCTGTCAG
63 TACCTTCAGTCTGCCTATCGG
* * * * * ** * **
3388694 CTTTGACCCTGGAGACTTACTATCCCCTCAA-TCTGCTTGTCATCTTTGACCCTGGAGACTACCT
1 CTTTGACCTTGGAGACTTCCT-T-ACCTAAAGTCTGCCTGTCGGCTTTGA-CCTAGAGACTTTCT
* * * *
3388758 TA-TTTATAGTTTGCCTATCAG
63 TACCTT-CAGTCTGCCTATCGG
* * * ** * **
3388779 CTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCTTAGAGACTACCTTA
1 CTTTGACCTTGGAGACTTCCTTACCTAAAGTCTGCCTGTCGGCTTTGACC-TAGAGACTTTCTTA
* ** * *
3388844 TCTAAAGTCTGCCTGTCAG
65 CCTTCAGTCTGCCTATCGG
* * ** ** *
3388863 CTTTGACCCTGGAGACTTTCC-TACCGT-TAGTCTGCCCATCTACTTTGACCCT-GAAGA-TTGC
1 CTTTGACCTTGGAGAC-TTCCTTACC-TAAAGTCTGCCTGTCGGCTTTGA-CCTAG-AGACTT-T
* * ** * *
3388924 CTCATCTAAAATCTGCCTATCGA
61 CTTACCTTCAGTCTGCCTATCGG
* * ** * * *
3388947 CTTTGACC-TAGAGACCTT-TTTACCCT-TCGTCTGCCTGTCGACTTTGACCCTAAAGAC-TGCT
1 CTTTGACCTTGGAGA-CTTCCTTA-CCTAAAGTCTGCCTGTCGGCTTTGA-CCTAGAGACTTTCT
* * * *
3389008 T-CGCCTCAAGTTTGCCTGTCGA
63 TAC-CTTC-AGTCTGCCTATCGG
* * ** * * * * **
3389030 CTTTCACCTTGGAGACTTTCTTACCTTTTAGTCTGCGTGTCAGTTTTGACCTTGGAGACTGCCTT
1 CTTTGACCTTGGAGACTTCCTTACC-TAAAGTCTGCCTGTCGGCTTTGACC-TAGAGACTTTCTT
** * * *
3389095 ACCTAAAGTCTGCTTATTGA
64 ACCTTCAGTCTGCCTATCGG
* ** * ** *
3389115 CTTTGACCTTGGAGACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTC
1 CTTTGACCTTGGAGACTTCCTTA-CCTAAAGTCTGCCTGTCGGCTTTGACC-TAGAGACTTTCTT
* ** * * * **
3389180 ATCTAAAGTTTTCCTGTCAA
64 ACCTTCAGTCTGCCTATCGG
* * * * **
3389200 CTTTGACCTTGGAGACTTTCTTACCCCT-CAGTCTGCTTGTCGGCTTTGACCCTAGACACTACCT
1 CTTTGACCTTGGAGACTTCCTTA--CCTAAAGTCTGCCTGTCGGCTTTGA-CCTAGAGACTTTCT
*
3389264 TACC-TCAAGTTTGCCTATCGG
63 TACCTTC-AGTCTGCCTATCGG
* * *
3389285 CTTTGACGTTGGAGACTTCCTTACCTAAAGTCTACCTGTTGGCTTTGACTCTAGAGACTTTCTTA
1 CTTTGACCTTGGAGACTTCCTTACCTAAAGTCTGCCTGTCGGCTTTGAC-CTAGAGACTTTCTTA
3389350 TCCTTCAGTCTGCC-ATCGG
65 -CCTTCAGTCTGCCTATCGG
* * * * * * * *
3389369 CTTTGACCCTAGAGACTACCTTATCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTTCCTA
1 CTTTGACCTTGGAGACTTCCTTACCTAAAGTCTGCCTGTCGGCTTTGACC-TAGAGACTTTCTTA
*
3389434 CCCTTCAGTCTGCCTGTCGG
65 -CCTTCAGTCTGCCTATCGG
*** * * * *
3389454 CTTTGA-CTCAAAAGA-TTGCTTCATCTAAAGTCTGCTTCTCGGCTTTGACCCTAGAGACTTT
1 CTTTGACCT-TGGAGACTTCCTT-ACCTAAAGTCTGCCTGTCGGCTTTGA-CCTAGAGACTTT
3389515 TCCACCTTTT
Statistics
Matches: 648, Mismatches: 134, Indels: 77
0.75 0.16 0.09
Matches are distributed among these distances:
82 3 0.00
83 71 0.11
84 244 0.38
85 312 0.48
86 17 0.03
87 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (83 bp):
CTTTGACCTTGGAGACTTCCTTACCTAAAGTCTGCCTGTCGGCTTTGACCTAGAGACTTTCTTAC
CTTCAGTCTGCCTATCGG
Found at i:3389486 original size:126 final size:126
Alignment explanation
Indices: 3388737--3389512 Score: 350
Period size: 127 Copynumber: 6.1 Consensus size: 126
3388727 TGCTTGTCAT
* ** * * * * *
3388737 CTTTGACCCTGGAGACTACCTTATTTATAGTTTGCCTATCAGCTTTGACCCTAGAGACTTTCTTA
1 CTTTGACCCTAGAGACTACCTTACCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTCCTTA
** * * * * ** * *
3388802 CCTTCAGTCTGCCTATCGGCTTTGAC-CTTAGAGACTACCTTAT-CTAAAGTCTGCCTGTCAG
66 CCTAAAGTCTACCTGTCGGCTTTGACTC-AAAAGACTTGCTTATCCTAAAGTCTG-CTCTCGG
* * * * * *
3388863 CTTTGACCCTGGAGACTTTCC-TACCGT-TAGTCTGCCCATCTA-CTTTGACCCTGAAGA-TTGC
1 CTTTGACCCTAGAGAC-TACCTTACC-TAAAGTCTGCCTATC-AGCTTTGACCTTGGAGACTT-C
* * * * * * * * * * ** *
3388924 CTCATCTAAAATCTGCCTATCGACTTTGAC-CTAGAGACCTT-TTTACCCT-TCGTCTGCCTGTC
62 CTTACCTAAAGTCTACCTGTCGGCTTTGACTCAAAAGA-CTTGCTTATCCTAAAGTCTG-CTCTC
*
3388986 GA
125 GG
* * * * * * * *
3388988 CTTTGACCCTAAAGACT-GCTTCGCCTCAAGTTTGCCTGTC-GACTTTCACCTTGGAGACTTTCT
1 CTTTGACCCTAGAGACTACCTT-ACCTAAAGTCTGCCTATCAG-CTTTGACCTTGGAGACTTCCT
** * * * * *** * *
3389051 TACCTTTTAGTCTGCGTGTCAGTTTTGAC-CTTGGAGAC-TGCCTTA-CCTAAAGTCTGCTTATT
64 TACC-TAAAGTCTACCTGTCGGCTTTGACTC-AAAAGACTTG-CTTATCCTAAAGTCTGC-TCTC
*
3389113 GA
125 GG
* * ** ** * * * *
3389115 CTTTGACCTTGGAGACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTC
1 CTTTGACCCTAGAGACTACCTTA-CCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTCCTT
* * * ** *** * * * *
3389180 ATCTAAAGTTTTCCTGTCAACTTTGAC-CTTGGAGACTTTCTTACCCCT-CAGTCTGCTTGTCGG
65 ACCTAAAGTCTACCTGTCGGCTTTGACTC-AAAAGACTTGCTTA-TCCTAAAGTCTGC-TCTCGG
* * * * *
3389243 CTTTGACCCTAGACACTACCTTACCTCAAGTTTGCCTATCGGCTTTGACGTTGGAGACTTCCTTA
1 CTTTGACCCTAGAGACTACCTTACCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTCCTTA
* * * * **
3389308 CCTAAAGTCTACCTGTTGGCTTTGACTCTAGAGACTTTCTTATCCTTCAGTCTGC-CATCGG
66 CCTAAAGTCTACCTGTCGGCTTTGACTCAAAAGACTTGCTTATCCTAAAGTCTGCTC-TCGG
*
3389369 CTTTGACCCTAGAGACTACCTTATCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTTCC-T
1 CTTTGACCCTAGAGACTACCTTACCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGAC-TTCCTT
** *
3389433 ACCCTTCAGTCTGCCTGTCGGCTTTGACTCAAAAGA-TTGCTTCAT-CTAAAGTCTGCTTCTCGG
65 A-CCTAAAGTCTACCTGTCGGCTTTGACTCAAAAGACTTGCTT-ATCCTAAAGTCTGC-TCTCGG
3389496 CTTTGACCCTAGAGACT
1 CTTTGACCCTAGAGACT
3389513 TTTCCACCTT
Statistics
Matches: 508, Mismatches: 110, Indels: 63
0.75 0.16 0.09
Matches are distributed among these distances:
123 1 0.00
124 3 0.01
125 64 0.13
126 170 0.33
127 197 0.39
128 69 0.14
129 4 0.01
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (126 bp):
CTTTGACCCTAGAGACTACCTTACCTAAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTCCTTA
CCTAAAGTCTACCTGTCGGCTTTGACTCAAAAGACTTGCTTATCCTAAAGTCTGCTCTCGG
Found at i:3390696 original size:82 final size:81
Alignment explanation
Indices: 3390593--3390771 Score: 252
Period size: 82 Copynumber: 2.2 Consensus size: 81
3390583 AGCAAGAAGT
* * * *
3390593 AATGAAGAAGAAATGGTAGCAACCAAAGAAGAAAAACTATTGCAATTAAAAGATAAAATGAAATA
1 AATGAAGAAGAAATGGCAGCAACCAAAGAAGAAAAACTACTACAATTAAAAGATAAAATGAAACA
3390658 GTCCTGAGCTGCAATGC
66 GTCCTGAGCTGCAAT-C
* * *
3390675 AATGAAGAAGAAATGGCAGCAACCAAAGAAGAAAAATTGCTACAATTAAAAGATGAAATGAAACA
1 AATGAAGAAGAAATGGCAGCAACCAAAGAAGAAAAACTACTACAATTAAAAGATAAAATGAAACA
*
3390740 GTCTTGAGCTGCAATC
66 GTCCTGAGCTGCAATC
* *
3390756 AA-GAGGGAGAAATGGC
1 AATGAAGAAGAAATGGC
3390772 TACAATGAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 12 0.14
81 3 0.03
82 72 0.83
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (81 bp):
AATGAAGAAGAAATGGCAGCAACCAAAGAAGAAAAACTACTACAATTAAAAGATAAAATGAAACA
GTCCTGAGCTGCAATC
Found at i:3391243 original size:12 final size:12
Alignment explanation
Indices: 3391226--3391279 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
3391216 ACAGCAACCA
3391226 AAGCAAAACAAC
1 AAGCAAAACAAC
*
3391238 AAGCAAAAACAGC
1 AAGC-AAAACAAC
* *
3391251 AACCAAAA-TAC
1 AAGCAAAACAAC
*
3391262 CAGCAAAACAAC
1 AAGCAAAACAAC
3391274 AAGCAA
1 AAGCAA
3391280 GGAAGACAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
11 7 0.22
12 15 0.47
13 10 0.31
ACGTcount: A:0.63, C:0.26, G:0.09, T:0.02
Consensus pattern (12 bp):
AAGCAAAACAAC
Found at i:3392095 original size:13 final size:13
Alignment explanation
Indices: 3392077--3392101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3392067 CAATTTTTTG
3392077 TGTATCGATACAT
1 TGTATCGATACAT
3392090 TGTATCGATACA
1 TGTATCGATACA
3392102 CACTTGCTGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3392167 original size:21 final size:21
Alignment explanation
Indices: 3392141--3392216 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
3392131 CTGCCAAGAA
*
3392141 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
3392162 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3392182 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3392203 ATGTATCGATACAT
1 ATGTATCGATACAT
3392217 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3392187 original size:20 final size:20
Alignment explanation
Indices: 3392162--3392234 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3392152 CATCTTTTTT
3392162 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3392182 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3392203 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3392223 ATGTATCGATAC
1 ATGTATCGATAC
3392235 TTTGAATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3392198 original size:41 final size:41
Alignment explanation
Indices: 3392141--3392234 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
3392131 CTGCCAAGAA
*
3392141 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3392182 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3392223 ATGTATCGATAC
1 ATGTATCGATAC
3392235 TTTGAATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:3394705 original size:13 final size:13
Alignment explanation
Indices: 3394687--3394722 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3394677 AAACACCCTA
3394687 TATCGATACAGTG
1 TATCGATACAGTG
*
3394700 TATCGATACATTG
1 TATCGATACAGTG
3394713 TATCGATACA
1 TATCGATACA
3394723 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:3394736 original size:20 final size:20
Alignment explanation
Indices: 3394711--3394787 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
3394701 ATCGATACAT
3394711 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
3394731 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
3394756 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
3394776 TGTATCGATACA
1 TGTATCGATACA
3394788 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:3398650 original size:21 final size:21
Alignment explanation
Indices: 3398621--3398665 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3398611 AAGTTTTCAT
*
3398621 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3398641 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3398663 TTT
1 TTT
3398666 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3400900 original size:13 final size:13
Alignment explanation
Indices: 3400882--3400907 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3400872 CAATTTTTTG
3400882 TGTATCGATACAT
1 TGTATCGATACAT
3400895 TGTATCGATACAT
1 TGTATCGATACAT
3400908 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3400972 original size:21 final size:21
Alignment explanation
Indices: 3400946--3401021 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
3400936 CTGCCAAGAA
*
3400946 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
3400967 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3400987 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3401008 ATGTATCGATACAT
1 ATGTATCGATACAT
3401022 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3400992 original size:20 final size:20
Alignment explanation
Indices: 3400967--3401039 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3400957 CATCTTTTTT
3400967 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3400987 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3401008 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3401028 ATGTATCGATAC
1 ATGTATCGATAC
3401040 TTTGAATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3401003 original size:41 final size:41
Alignment explanation
Indices: 3400946--3401039 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
3400936 CTGCCAAGAA
*
3400946 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3400987 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3401028 ATGTATCGATAC
1 ATGTATCGATAC
3401040 TTTGAATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:3406390 original size:11 final size:11
Alignment explanation
Indices: 3406374--3406414 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
3406364 AAACGAAGGG
3406374 AGAAAAAAGAA
1 AGAAAAAAGAA
3406385 AGAAAAAAGAA
1 AGAAAAAAGAA
3406396 AGAAAAAAGGAA
1 AGAAAAAA-GAA
3406408 AGAAAAA
1 AGAAAAA
3406415 TAATGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:3406769 original size:17 final size:16
Alignment explanation
Indices: 3406738--3406768 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3406728 AGATAAAGTG
3406738 TTTGAAAAAAAAAAAT
1 TTTGAAAAAAAAAAAT
3406754 TTTGAAAAAAAAAAA
1 TTTGAAAAAAAAAAA
3406769 AAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
TTTGAAAAAAAAAAAT
Found at i:3406806 original size:21 final size:21
Alignment explanation
Indices: 3406782--3406838 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3406772 AAAAAATTTA
3406782 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
3406803 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
3406824 AATGTATCGATACAT
1 AATGTATCGATACAT
3406839 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:3406918 original size:19 final size:19
Alignment explanation
Indices: 3406894--3406961 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3406884 AATTCAACAA
3406894 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3406913 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3406928 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3406945 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3406962 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3406933 original size:13 final size:13
Alignment explanation
Indices: 3406915--3406939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3406905 ACATAAGTTT
3406915 TGTATCGATACAA
1 TGTATCGATACAA
3406928 TGTATCGATACA
1 TGTATCGATACA
3406940 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3406937 original size:32 final size:32
Alignment explanation
Indices: 3406896--3406958 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3406886 TTCAACAATT
*
3406896 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3406928 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3406959 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3407019 original size:13 final size:13
Alignment explanation
Indices: 3407001--3407026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3406991 CATTTTTCTG
3407001 TGTATCGATACAT
1 TGTATCGATACAT
3407014 TGTATCGATACAT
1 TGTATCGATACAT
3407027 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3407023 original size:33 final size:33
Alignment explanation
Indices: 3406981--3407044 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
3406971 GCCAAGGAAA
***
3406981 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3407014 TGTATCGATACATGGATCTTTGTATCGATAC
1 TGTATCGATACATGGATCTGTGTATCGATAC
3407045 GTTTGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3409571 original size:51 final size:50
Alignment explanation
Indices: 3409507--3409676 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
3409497 TTATTTTCGA
*
3409507 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCATAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCATAATC
* * * *
3409558 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACTCCGGTTTTA-TTTCAAAACACCAATTT-TTC-ATAATC
* * * *
3409611 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCATAATC
*
3409663 GAGGATACTCCAAC
1 GGGGATACTCCAAC
3409677 CTCGTTATTT
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
50 2 0.02
51 34 0.35
52 22 0.22
53 29 0.30
54 11 0.11
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCATAATC
Found at i:3409696 original size:28 final size:28
Alignment explanation
Indices: 3409660--3409741 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3409650 ATTTTTCACA
*
3409660 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3409688 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
3409716 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
3409742 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:3411191 original size:13 final size:13
Alignment explanation
Indices: 3411173--3411199 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3411163 ACATTATGCT
3411173 TTGTATCGATACA
1 TTGTATCGATACA
3411186 TTGTATCGATACA
1 TTGTATCGATACA
3411199 T
1 T
3411200 ACTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3411196 original size:33 final size:32
Alignment explanation
Indices: 3411154--3411217 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
3411144 CTCATCCAGA
*
3411154 TGTATCGATACATTA-TGCTTTGTATCGATACAT
1 TGTATCGATACA-TACT-CATTGTATCGATACAT
3411187 TGTATCGATACATACTCATTGTATCGATACA
1 TGTATCGATACATACTCATTGTATCGATACA
3411218 CACTCAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:3411208 original size:19 final size:19
Alignment explanation
Indices: 3411184--3411238 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
3411174 TGTATCGATA
3411184 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
*
3411203 CATTGTATCGATACACACT
1 CATTGTATCGATACATACT
*
3411222 CAATTCTATCGATACAT
1 C-ATTGTATCGATACAT
3411239 GAAATTGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:3415746 original size:80 final size:79
Alignment explanation
Indices: 3415629--3415834 Score: 277
Period size: 80 Copynumber: 2.6 Consensus size: 79
3415619 TCCATTCATG
* ** * * **
3415629 TTTTATTTCCAAAACACCAATTTTTTGCAATTGGGGATACTCCAACCCCGTTATTTCTGAGAGGA
1 TTTTATTTCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATCTCCAAGAGGA
3415694 TACTCCAACCCCGA
66 TACTCCAACCCCGA
* * *
3415708 TTTTATTTTCAAAAACACCAATTTTTCATAATCAGGGATACTCCAACCCCGTTATCTCCAAGGGG
1 TTTTA-TTTCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATCTCCAAGAGG
*
3415773 ATACTCCAACCCCGG
65 ATACTCCAACCCCGA
* * *
3415788 TTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACC
1 TTTTATTTCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
3415835 TCAGTTTCTA
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 42 0.38
80 68 0.62
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (79 bp):
TTTTATTTCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATCTCCAAGAGGA
TACTCCAACCCCGA
Found at i:3415863 original size:52 final size:51
Alignment explanation
Indices: 3415769--3415888 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 51
3415759 TTATCTCCAA
*
3415769 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTCCACAATC
* * *
3415820 GGGGATACTCCAACCTCAGTTTCTATTT-TCAAAACATCGATTTTCCACCATC
1 GGGGATACTCCAACCCCAGTTT-TATTTCT-AAAACATCAATTTTCCACAATC
* *
3415872 AGGGATACTCTAACCCC
1 GGGGATACTCCAACCCC
3415889 CATTATTTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 21 0.35
52 39 0.65
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:3415929 original size:132 final size:131
Alignment explanation
Indices: 3415691--3416045 Score: 470
Period size: 132 Copynumber: 2.7 Consensus size: 131
3415681 ATTTCTGAGA
* * *
3415691 GGATACTCCAACC-CCGATTTTATTTTCAAAAACACCAATTTTTCATAATCAGGGATACTCCAAC
1 GGATACTCCAACCTCAG-TTTTATTTTCAAAAACACCAATTTTTCACAATCAGGGATACTCTAAC
* * * *
3415755 CCCGTTATCTCCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
65 CCCATTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATC
3415820 GG
130 GG
* * * *
3415822 GGATACTCCAACCTCAGTTTCTATTTTC-AAAACATCGATTTTCCACCATCAGGGATACTCTAAC
1 GGATACTCCAACCTCAGTTT-TATTTTCAAAAACACCAATTTTTCACAATCAGGGATACTCTAA-
*
3415886 CCCCATTATTTCCAAGGGGATACTCTAACCCTGGTTTTATTTCTAAAACACCAATTTTCCACAAT
64 CCCCATTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAAT
3415951 CGG
129 CGG
* * *
3415954 GGATACTCCAACTTTCA-TTTTA-TTTCTAAAACACCAATTTTTCACAATCGGGGATACT-TCAA
1 GGATACTCCAAC-CTCAGTTTTATTTTCAAAAACACCAATTTTTCACAATCAGGGATACTCT-AA
*
3416016 CCCCATTATTT-CATCGGGGATACTCTAACC
64 CCCCATTATTTCCA-AGGGGATACTCTAACC
3416046 TCGTTATTTC
Statistics
Matches: 198, Mismatches: 19, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
129 2 0.01
130 31 0.16
131 75 0.38
132 87 0.44
133 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.32
Consensus pattern (131 bp):
GGATACTCCAACCTCAGTTTTATTTTCAAAAACACCAATTTTTCACAATCAGGGATACTCTAACC
CCATTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCG
G
Found at i:3415975 original size:51 final size:51
Alignment explanation
Indices: 3415920--3416016 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
3415910 CTAACCCTGG
3415920 TTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACTTTCA
1 TTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACTTTCA
* *
3415971 TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTTCAAC
1 TTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
3416017 CCCATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (51 bp):
TTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACTTTCA
Found at i:3416324 original size:79 final size:79
Alignment explanation
Indices: 3416146--3416329 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 79
3416136 CTAAATCATT
* * ** *
3416146 GATTTTTCACAATCAGGGATACTCTAACCCTGTTATTTTTGAGGGGATACTCCAACCCCGATTTT
1 GATTTTTCATAATCAGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
* *
3416211 ATTTTCAAAATATC
66 ATTTTCAAAACACC
** * *
3416225 GATTTTTTGTAACCAAGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
1 GATTTTTCATAATCAGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
*
3416290 A-TTTCTAGAACACC
66 ATTTTC-AAAACACC
*
3416304 GATTTTTCATAATCGGGGATACTCCA
1 GATTTTTCATAATCAGGGATACTCCA
3416330 GCCCCATTGT
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 4 0.05
79 83 0.95
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GATTTTTCATAATCAGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
ATTTTCAAAACACC
Found at i:3422126 original size:19 final size:19
Alignment explanation
Indices: 3422102--3422151 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3422092 AGCGATACAT
*
3422102 TGTATCGATGCAAAACTTA
1 TGTATCGATACAAAACTTA
*
3422121 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
3422140 TGTATCGATACA
1 TGTATCGATACA
3422152 TTTTCTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3422242 original size:21 final size:21
Alignment explanation
Indices: 3422211--3422266 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
3422201 GTTGGGACCT
*
3422211 TGTATCAATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
3422232 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3422253 TGTATCGATACATT
1 TGTATCGATACATT
3422267 TGGATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:3427207 original size:79 final size:78
Alignment explanation
Indices: 3427076--3427307 Score: 313
Period size: 79 Copynumber: 2.9 Consensus size: 78
3427066 ATTCATATTT
* * *
3427076 TTATTTTCGAGGAGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAATTGGGA
1 TTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAATAGGG-
*
3427141 ATACTCTAACCTCG
65 ATACTCTAACCCCG
* * * *
3427155 TTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGG
1 TTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAAT-AGGG
*
3427220 ATACTCCAACCCCG
65 ATACTCTAACCCCG
* * * *
3427234 TTATTTCTGAGGGGATACTCAAAACCCGATTTTATTTCCAAAAC-TCGATTTTTCACAATCAGGG
1 TTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAAT-AGGG
3427298 ATACTCTAAC
65 ATACTCTAAC
3427308 TCCAATTTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 26 0.19
79 106 0.79
80 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (78 bp):
TTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAATAGGGA
TACTCTAACCCCG
Found at i:3427316 original size:50 final size:50
Alignment explanation
Indices: 3427245--3427361 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 50
3427235 TATTTCTGAG
* * *
3427245 GGGATACTCAAAACCCGATTTTATTTCCAAAAC-TCGATTTTTCACAATCA
1 GGGATACTC-TAACCCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
3427295 GGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
1 GGGATACTCTAAC-CCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
* *
3427346 AGGATACTCTTACCCA
1 GGGATACTCTAACCCA
3427362 TTATTTCTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 3 0.05
50 30 0.50
51 27 0.45
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (50 bp):
GGGATACTCTAACCCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
Found at i:3427317 original size:129 final size:129
Alignment explanation
Indices: 3427166--3427437 Score: 339
Period size: 129 Copynumber: 2.1 Consensus size: 129
3427156 TATTTTTGAG
** * * **
3427166 GGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCTAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAAGGATACTCCAA-C
* * * *
3427231 CCGTTATTTCTGAGGGGATACTCAAAACCCGATTTTATTTCCAAAACTC-GATTTTTCACAATCA
65 CCATTATTTCTGAAGGGATACTCAAAACCCGATTTTATTTCCAAAACACTAATTTTTCACAATCA
* * * **
3427295 GGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTTACC
1 GGGATACTCTAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAAGGATACTCCAACC
* * * **
3427360 CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATTG
66 CATTATTTCTGAAGGGATACTCAAAACCCGATTTTATTTCCAAAACACTAATTTTTCACAATCA
*
3427424 GGGATACTTTAACC
1 GGGATACTCTAACC
3427438 TCGTTATGTT
Statistics
Matches: 120, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
128 44 0.37
129 76 0.63
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (129 bp):
GGGATACTCTAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAAGGATACTCCAACC
CATTATTTCTGAAGGGATACTCAAAACCCGATTTTATTTCCAAAACACTAATTTTTCACAATCA
Found at i:3427455 original size:207 final size:209
Alignment explanation
Indices: 3427089--3427517 Score: 591
Period size: 207 Copynumber: 2.1 Consensus size: 209
3427079 TTTTCGAGGA
** * **
3427089 GATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAATTGGGAATACTCTAACCTC
1 GATACTCTAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATAAGGAATACTCTAACCTC
* * * * *
3427154 GTTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGG
66 ATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGG
*
3427219 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAAACCC-GATTTTATTTCCAAAAC-TCGA
131 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAACCCCAG-TTTTATTTCCAAAACATCGA
3427282 TTTTTCACAATC-AGG
195 TTTTTCACAATCGA-G
* *
3427297 GATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGG-ATACTCTTACC-
1 GATACTCTAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAAT-AAGGAATACTCTAACCT
* *
3427360 CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATTGG
65 CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGG
** * * *
3427425 GGATACTTTAACCTCGTTATGTTC-GAGGGGATACTCCAACCCCAGTTTTATTTTCAAAACATCG
130 GGATACTCCAACCCCGTTAT-TTCTGAGGGGATACTCAAACCCCAGTTTTATTTCCAAAACATCG
*
3427489 ATTTTTCACAGTCGAG
194 ATTTTTCACAATCGAG
3427505 GATACTCTAACCC
1 GATACTCTAACCC
3427518 TATTATTTTT
Statistics
Matches: 194, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
207 106 0.55
208 85 0.44
209 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (209 bp):
GATACTCTAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATAAGGAATACTCTAACCTC
ATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGG
GATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAACCCCAGTTTTATTTCCAAAACATCGAT
TTTTCACAATCGAG
Found at i:3427475 original size:79 final size:78
Alignment explanation
Indices: 3427294--3427562 Score: 276
Period size: 79 Copynumber: 3.4 Consensus size: 78
3427284 TTTCACAATC
* * * * *
3427294 AGGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTT-A
1 AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACT-TTAA
3427358 CCCATTATTTCTGA
65 CCCATTATTTCTGA
* * * *
3427372 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CTAATTTTTCACAATTGGGGATACTTTAA
1 AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATC-GATTTTTCACAATCGAGGATACTTTAA
*
3427436 CCTCGTTATGTTC-GA
65 CC-CATTAT-TTCTGA
* * * *
3427451 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACATCGATTTTTCACAGTCGAGGATACTCTAAC
1 AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTTTAAC
*
3427516 CCTATTATTTTTG-
66 CC-ATTATTTCTGA
* * * * *
3427529 AGGATATACTCTAACTCCTGTTTTATCTCCAAAA
1 AGG-GATACTCCAACCCCAGTTTTATTTCCAAAA
3427563 TATTAAACTT
Statistics
Matches: 156, Mismatches: 27, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
77 3 0.02
78 57 0.37
79 92 0.59
80 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (78 bp):
AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTTTAAC
CCATTATTTCTGA
Found at i:3427584 original size:157 final size:155
Alignment explanation
Indices: 3427295--3427585 Score: 352
Period size: 157 Copynumber: 1.9 Consensus size: 155
3427285 TTCACAATCA
* * *
3427295 GGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTTACC
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTAACC
* * *
3427360 CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATTGG
66 CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATCTCCAAAACACTAACTTTTCAC-A-GGG
3427425 GGATACTTTAACCTCGTTATGTTCGAG
129 GGATACTTTAACCTCGTTATGTTCGAG
* * * * *
3427452 GGGATACTCCAACCCCAGTTTTATTTTCAAAACATCGATTTTTCACAGTCGAGGATACTCTAACC
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTAACC
* * * * * * *
3427517 CTATTATTTTTG-AGGATATACTCTAACTCCTGTTTTATCTCCAAAATATTAAACTTTTCATC-G
66 C-ATTATTTCTGAAGG-GATACTCCAACCCCGGTTTTATCTCCAAAACACT-AACTTTTCA-CAG
3427580 GGGGAT
127 GGGGAT
3427586 GAATTCCAAC
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
157 67 0.60
158 36 0.32
159 8 0.07
160 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (155 bp):
GGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTAACC
CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATCTCCAAAACACTAACTTTTCACAGGGGG
ATACTTTAACCTCGTTATGTTCGAG
Found at i:3440908 original size:61 final size:61
Alignment explanation
Indices: 3440808--3441203 Score: 460
Period size: 61 Copynumber: 6.4 Consensus size: 61
3440798 AACTTTTTAT
*
3440808 CCTTTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
3440869 CCTTCCAGTCCTCAAAGAGTAAGATGCCTTATCCTTTTAAAGCCCACACAAATTGGTGG-A
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
3440929 ACTTTCTAGTCCTCAAAAAGCAGGA--CACTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
3440990 CCTTTTAGTCCTCAAAGAGCAGGATTCCTTTT-TTTTTAAAGTCCACAAAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
3441050 CCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTATAAAGCCCATACAAGTTGATGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
3441111 CCTTTCAGTCCCCAAAGAGCAGGACATTTTCCTTTTTCCTTTTAAAGCCCACACAAGTTGTTGGC
1 CCTTTCAGTCCTCAAAGAGCAGG--A--TGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
3441176 A
61 A
* **
3441177 CCTTTTAGTCCTCAAAGAATAGGATGC
1 CCTTTCAGTCCTCAAAGAGCAGGATGC
3441204 ACTTCATTTC
Statistics
Matches: 284, Mismatches: 38, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
59 5 0.02
60 100 0.35
61 123 0.43
62 3 0.01
63 1 0.00
64 1 0.00
65 1 0.00
66 47 0.17
67 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:3441091 original size:121 final size:120
Alignment explanation
Indices: 3440808--3441203 Score: 443
Period size: 121 Copynumber: 3.2 Consensus size: 120
3440798 AACTTTTTAT
* *
3440808 CCTTTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * ** *
3440873 CCAGTCCTCAAAGAGTAAGATGCCTTATCCTTTTAAAGCCCACACAAA-TTGGTGGAA
65 TCAGTCCTCAAAGAGCAGGATTCCTT-TTTTTTTAAAGCCCACA-AAAGTTGGTGGCA
* * * ** **
3440930 CTTTCTAGTCCTCAAAAAGCAGGACACTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
3440995 TAGTCCTCAAAGAGCAGGATTCCTTTTTTTTTAAAGTCCACAAAAGTTGGTGGCA
66 CAGTCCTCAAAGAGCAGGATTCCTTTTTTTTTAAAGCCCACAAAAGTTGGTGGCA
* * *
3441050 CCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTATAAAGCCCATACAAGTTGATGGCACCTT
1 CCTTCCAGTCCTCAAAGAGCAGGATGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
3441115 TCAGTCCCCAAAGAGCAGGACATTTTCCTTTTTCCTTTTAAAGCCCACACAAGTTGTTGGCA
65 TCAGTCCTCAAAGAGCAGG--A--TTCCTTTTT--TTTTAAAGCCCACAAAAGTTGGTGGCA
** **
3441177 CCTTTTAGTCCTCAAAGAATAGGATGC
1 CCTTCCAGTCCTCAAAGAGCAGGATGC
3441204 ACTTCATTTC
Statistics
Matches: 229, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
119 3 0.01
120 47 0.21
121 103 0.45
122 19 0.08
123 1 0.00
125 9 0.04
127 47 0.21
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (120 bp):
CCTTCCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGATTCCTTTTTTTTTAAAGCCCACAAAAGTTGGTGGCA
Found at i:3441311 original size:41 final size:40
Alignment explanation
Indices: 3441224--3441313 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
3441214 TTTCTGTTCT
*
3441224 CTTTTGTCCCCAAAGAGGAGGACGCACTTATTTCCTTTTC
1 CTTTTGTCCCCAAAGAGGAGGACGAACTTATTTCCTTTTC
* ** *
3441264 CCTTTGTCTTCAAAGAGTAGGACGAACTTTATTTCCTTTTC
1 CTTTTGTCCCCAAAGAGGAGGACGAAC-TTATTTCCTTTTC
3441305 CTTTTGTCC
1 CTTTTGTCC
3441314 TTAACAAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 22 0.52
41 20 0.48
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (40 bp):
CTTTTGTCCCCAAAGAGGAGGACGAACTTATTTCCTTTTC
Found at i:3441327 original size:41 final size:40
Alignment explanation
Indices: 3441234--3441369 Score: 116
Period size: 41 Copynumber: 3.3 Consensus size: 40
3441224 CTTTTGTCCC
* *
3441234 CAAAGAGGAGGACGCACTTATTTCCTTTTCCCTTTGTCTT
1 CAAAGAGCAGGACGAACTTATTTCCTTTTCCCTTTGTCTT
* *
3441274 CAAAGAGTAGGACGAACTTTATTTCCTTTTCCTTTTGTCCTT
1 CAAAGAGCAGGACGAAC-TTATTTCCTTTTCCCTTTGT-CTT
* ** *
3441316 -AACA-AGCAGGAC-ACACTTAATTTTCTTCTTTTCTTTCGTCCT
1 CAA-AGAGCAGGACGA-ACTT-ATTTCCTT-TTCCCTTT-GTCTT
3441358 CAAAGAGCAGGA
1 CAAAGAGCAGGA
3441370 TGTGTCCCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
40 18 0.23
41 37 0.47
42 12 0.15
43 11 0.14
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (40 bp):
CAAAGAGCAGGACGAACTTATTTCCTTTTCCCTTTGTCTT
Found at i:3444320 original size:79 final size:78
Alignment explanation
Indices: 3444208--3444648 Score: 400
Period size: 79 Copynumber: 5.6 Consensus size: 78
3444198 ATTCATATTT
* * * *
3444208 TTATTTCCTAGGGGATACTCTAACCCCGATTTTATTTTCAAAATACCGA-TTTTCTATAATCGGG
1 TTATTT-CGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTC-ATAATCGGG
* * *
3444272 GAAACTCCAACTCCG
64 GATACTCCAACCCCA
* * * * *
3444287 TTAGTTTCGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATTGATTTTTCACAATCGGGG
1 TTA-TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
*
3444352 ATACTCCAACCCCG
65 ATACTCCAACCCCA
* * * * ** * * *
3444366 TTATTTTCGAGGAGACACTCCAACCCTGATTTTATTTTCAAAATGCCAATTTTTCATGATCGGGA
1 TTA-TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
* *
3444431 ATACTCCAATCCCT
65 ATACTCCAACCCCA
* * * * * *
3444445 TTATTTCTGAGGGGATACTCCAACCCCAATTTTCTTTCCAAAACATCAATTTTCCATAATCGGAG
1 TTATTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
*
3444510 ATACTCTAACCCCA
65 ATACTCCAACCCCA
** *** * * * *
3444524 TTATTTCTGAGGGGATACTTTAACTTAGGTTTTATTTCCAAAAGATCGATTTTTCAAAATCGAGG
1 TTATTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
*
3444589 ATACTCCAACCCTA
65 ATACTCCAACCCCA
* * *
3444603 TTATTTTCGAGGAGATACTCCAACCTCTG-TTTTATCTCCAAAATAT
1 TTA-TTTCGAGGGGATACTCCAACC-CCGATTTTATTTCCAAAATAT
3444649 TAAACTTTTC
Statistics
Matches: 291, Mismatches: 66, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
78 4 0.01
79 274 0.94
80 13 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
TTATTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGGA
TACTCCAACCCCA
Found at i:3444625 original size:237 final size:237
Alignment explanation
Indices: 3444207--3444646 Score: 598
Period size: 237 Copynumber: 1.9 Consensus size: 237
3444197 CATTCATATT
* * * * * * *
3444207 TTTATTTCCTAGGGGATACTCTAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAATCGGG
1 TTTATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCATAATCGGA
* * * *
3444272 GAAACTCCAACTCCGTTAGTTTCGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATTGAT
66 GAAACTCCAACCCCATTAGTTTCGAGGGGATACTCTAACCCAGGTTTTATTTCCAAAACATCGAT
* * *
3444337 TTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGACACTCCAACC-CTGATTTTAT
131 TTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGAGACACTCCAACCTCTG-TTTTAT
* *
3444401 TTTCAAAATGCCAATTTTTCATGATCGGGAATACTCCAATCCC
195 CTCCAAAATGCCAATTTTTCATGATCGGGAATACTCCAATCCC
* *
3444444 TTTATTT-CTGAGGGGATACTCCAACCCCAATTTTCTTTCCAAAACATCAATTTTCCATAATCGG
1 TTTATTTCCT-AGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCATAATCGG
* * * ** *
3444508 AGATACTCTAACCCCATTA-TTTCTGAGGGGATACTTTAACTTAGGTTTTATTTCCAAAAGATCG
65 AGAAACTCCAACCCCATTAGTTTC-GAGGGGATACTCTAACCCAGGTTTTATTTCCAAAACATCG
* *
3444572 ATTTTTCAAAATCGAGGATACTCCAACCCTATTATTTTCGAGGAGATACTCCAACCTCTGTTTTA
129 ATTTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGAGACACTCCAACCTCTGTTTTA
3444637 TCTCCAAAAT
194 TCTCCAAAAT
3444647 ATTAAACTTT
Statistics
Matches: 174, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
236 6 0.03
237 165 0.95
238 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (237 bp):
TTTATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCATAATCGGA
GAAACTCCAACCCCATTAGTTTCGAGGGGATACTCTAACCCAGGTTTTATTTCCAAAACATCGAT
TTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGAGACACTCCAACCTCTGTTTTATC
TCCAAAATGCCAATTTTTCATGATCGGGAATACTCCAATCCC
Found at i:3449676 original size:13 final size:13
Alignment explanation
Indices: 3449658--3449693 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3449648 GTATCGATAC
*
3449658 TATCGATACACTG
1 TATCGATACAATG
3449671 TATCGATACAATG
1 TATCGATACAATG
3449684 TATCGATACA
1 TATCGATACA
3449694 TGAATAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:3449763 original size:31 final size:31
Alignment explanation
Indices: 3449637--3449779 Score: 130
Period size: 31 Copynumber: 4.4 Consensus size: 31
3449627 TTAAATGGTG
3449637 TGAACAGTGATGTATCGATACTATCGATACACTGTA
1 TGAACAGTGATGTATCGATAC-AT-GA-ACA--GTA
*
3449673 TCGATACA---ATGTATCGATACATGAATAGTGA
1 T-GA-ACAGTGATGTATCGATACATGAACAGT-A
* * *
3449704 TGAACAGTGATTTTTAACGATACGTGAACAGTA
1 TGAACAGTGA--TGTATCGATACATGAACAGTA
3449737 TGAACAGTGATGTATCGATACATGAACAGTA
1 TGAACAGTGATGTATCGATACATGAACAGTA
*
3449768 TGAATAGTGATG
1 TGAACAGTGATG
3449780 AACAGTGAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
29 3 0.03
30 4 0.04
31 31 0.34
32 3 0.03
33 13 0.14
34 18 0.20
35 12 0.13
36 1 0.01
37 2 0.02
38 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (31 bp):
TGAACAGTGATGTATCGATACATGAACAGTA
Found at i:3449875 original size:53 final size:53
Alignment explanation
Indices: 3449811--3449947 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
3449801 CTACTACCAA
*
3449811 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
3449864 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
3449917 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
3449948 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:3449980 original size:20 final size:20
Alignment explanation
Indices: 3449917--3449987 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
3449907 GCCAATGTCC
**
3449917 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
3449937 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
3449957 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
3449977 TGTATCGATAC
1 TGTATCGATAC
3449988 TTTTCAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:3456299 original size:20 final size:19
Alignment explanation
Indices: 3456250--3456304 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
3456240 TGTATCAATA
***
3456250 CATTGTATCGATACATGTT
1 CATTGTATCGATACATACC
*
3456269 CATTCTATCGATACATACC
1 CATTGTATCGATACATACC
3456288 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
3456305 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATACC
Found at i:3456394 original size:20 final size:20
Alignment explanation
Indices: 3456369--3456459 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
3456359 CTATACATTA
*
3456369 TATCGATACATGAAGAATTG
1 TATCGATACATAAAGAATTG
3456389 TATCGATACATAAAGAATTG
1 TATCGATACATAAAGAATTG
*
3456409 TTTCGATACATAAAGAATTG
1 TATCGATACATAAAGAATTG
*
3456429 TATCGATACATAAAGAATTA
1 TATCGATACATAAAGAATTG
3456449 TATCGATACAT
1 TATCGATACAT
3456460 TGTGCCCAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATAAAGAATTG
Found at i:3462474 original size:13 final size:13
Alignment explanation
Indices: 3462456--3462481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3462446 CAATTTTTTG
3462456 TGTATCGATACAT
1 TGTATCGATACAT
3462469 TGTATCGATACAT
1 TGTATCGATACAT
3462482 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3465045 original size:13 final size:13
Alignment explanation
Indices: 3465027--3465065 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3465017 ATAATCACCC
*
3465027 TGTATCGATACAG
1 TGTATCGATACAA
3465040 TGTATCGATACAA
1 TGTATCGATACAA
3465053 TGTATCGATACAA
1 TGTATCGATACAA
3465066 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3465076 original size:20 final size:20
Alignment explanation
Indices: 3465051--3465129 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
3465041 GTATCGATAC
3465051 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
3465071 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
3465096 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
3465116 CATGTATCGATACA
1 AATGTATCGATACA
3465130 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:3467165 original size:15 final size:15
Alignment explanation
Indices: 3467145--3467175 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3467135 ATTTCGTTTG
*
3467145 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3467160 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3467175 G
1 G
3467176 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3468981 original size:21 final size:21
Alignment explanation
Indices: 3468952--3468996 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3468942 AAGTTTTCAT
*
3468952 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3468972 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3468994 TTT
1 TTT
3468997 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3471234 original size:13 final size:13
Alignment explanation
Indices: 3471216--3471241 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3471206 CAATTTTTTG
3471216 TGTATCGATACAT
1 TGTATCGATACAT
3471229 TGTATCGATACAT
1 TGTATCGATACAT
3471242 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3474106 original size:13 final size:13
Alignment explanation
Indices: 3474088--3474112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3474078 TTATTCAATG
3474088 TATCGATACATTA
1 TATCGATACATTA
3474101 TATCGATACATT
1 TATCGATACATT
3474113 GATCTTTTTA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:3478320 original size:13 final size:13
Alignment explanation
Indices: 3478302--3478328 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3478292 AAATTATGCC
3478302 TTGTATCGATACA
1 TTGTATCGATACA
3478315 TTGTATCGATACA
1 TTGTATCGATACA
3478328 T
1 T
3478329 GATGAAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3481576 original size:10 final size:10
Alignment explanation
Indices: 3481552--3481616 Score: 71
Period size: 11 Copynumber: 6.5 Consensus size: 10
3481542 ACGAAGGGAG
3481552 AAAGAAAGAAA
1 AAAGAAAG-AA
3481563 AAAGAAAGAA
1 AAAGAAAGAA
3481573 AAAGGAAAGAA
1 AAA-GAAAGAA
* *
3481584 AAATAATGAA
1 AAAGAAAGAA
*
3481594 TAAGAAA-AA
1 AAAGAAAGAA
3481603 AAAGAAA-AA
1 AAAGAAAGAA
3481612 AAAGA
1 AAAGA
3481617 GTGGCTTGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
9 15 0.32
10 14 0.30
11 18 0.38
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:3481902 original size:19 final size:19
Alignment explanation
Indices: 3481878--3481945 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3481868 AATTCAACAA
3481878 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3481897 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3481912 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3481929 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3481946 TTAGCTACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3481917 original size:13 final size:13
Alignment explanation
Indices: 3481899--3481923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3481889 ACATAAGTTT
3481899 TGTATCGATACAA
1 TGTATCGATACAA
3481912 TGTATCGATACA
1 TGTATCGATACA
3481924 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3481921 original size:32 final size:32
Alignment explanation
Indices: 3481880--3481942 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3481870 TTCAACAATT
*
3481880 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3481912 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3481943 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3484564 original size:51 final size:50
Alignment explanation
Indices: 3484500--3484669 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
3484490 TTATTTTCGA
*
3484500 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCATAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCATAATC
* * * *
3484551 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACTCCGGTTTTA-TTTCAAAACACCAATTT-TTC-ATAATC
* * * *
3484604 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCATAATC
*
3484656 GAGGATACTCCAAC
1 GGGGATACTCCAAC
3484670 CTCGTTATTT
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
50 2 0.02
51 34 0.35
52 22 0.22
53 29 0.30
54 11 0.11
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCATAATC
Found at i:3484689 original size:28 final size:28
Alignment explanation
Indices: 3484653--3484734 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3484643 ATTTTTCACA
*
3484653 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3484681 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
3484709 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
3484735 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:3486184 original size:13 final size:13
Alignment explanation
Indices: 3486166--3486192 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3486156 ACATTATGCT
3486166 TTGTATCGATACA
1 TTGTATCGATACA
3486179 TTGTATCGATACA
1 TTGTATCGATACA
3486192 T
1 T
3486193 ACTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3486189 original size:33 final size:32
Alignment explanation
Indices: 3486147--3486210 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
3486137 CTCATCCAGA
*
3486147 TGTATCGATACATTA-TGCTTTGTATCGATACAT
1 TGTATCGATACA-TACT-CATTGTATCGATACAT
3486180 TGTATCGATACATACTCATTGTATCGATACA
1 TGTATCGATACATACTCATTGTATCGATACA
3486211 CACTCAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:3486201 original size:19 final size:19
Alignment explanation
Indices: 3486177--3486231 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
3486167 TGTATCGATA
3486177 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
*
3486196 CATTGTATCGATACACACT
1 CATTGTATCGATACATACT
*
3486215 CAATTCTATCGATACAT
1 C-ATTGTATCGATACAT
3486232 GAAATTGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:3490753 original size:79 final size:79
Alignment explanation
Indices: 3490622--3490826 Score: 277
Period size: 79 Copynumber: 2.6 Consensus size: 79
3490612 CCATTCATGT
* ** * * **
3490622 TTTTATTTCCAAAACACCAATTTTTTGCAATTGGGGATACTCCAACCCCGTTATTTCTGAGAGGA
1 TTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATCTCCAAGAGGA
3490687 TACTCCAACCCCGA
66 TACTCCAACCCCGA
* * *
3490701 TTTTATTTTCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCCCGTTATCTCCAAGGGGA
1 TTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATCTCCAAGAGGA
*
3490766 TACTCCAACCCCGG
66 TACTCCAACCCCGA
* *
3490780 TTTTA-TTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACC
1 TTTTATTTTC-AAAACACCAATTTTTCACAATCGGGGATACTCCAACC
3490827 TCAGTTTTAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 4 0.04
79 106 0.96
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (79 bp):
TTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATCTCCAAGAGGA
TACTCCAACCCCGA
Found at i:3490837 original size:51 final size:51
Alignment explanation
Indices: 3490761--3490880 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
3490751 TTATCTCCAA
*
3490761 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTATTTTC-AAAACATCAATTTTCCACAATC
* * *
3490812 GGGGATACTCCAACCTCAGTTTTATTTTCAAAACATCGATTTTCCACCATC
1 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACATCAATTTTCCACAATC
* *
3490863 AGGGATACTCTAACCCCA
1 GGGGATACTCCAACCCCA
3490881 TTATTTCCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGTTTTATTTTCAAAACATCAATTTTCCACAATC
Found at i:3490917 original size:130 final size:130
Alignment explanation
Indices: 3490684--3491035 Score: 489
Period size: 130 Copynumber: 2.7 Consensus size: 130
3490674 ATTTCTGAGA
* * *
3490684 GGATACTCCAACC-CCGATTTTATTTTCAAAACACCAATTTTTCATAATCAGGGATACTCCAACC
1 GGATACTCCAACCTCAG-TTTTATTTTCAAAACACCAATTTTTCACAATCAGGGATACTCTAACC
* * * *
3490748 CCGTTATCTCCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATCG
65 CCATTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCG
3490813 G
130 G
* * * *
3490814 GGATACTCCAACCTCAGTTTTATTTTCAAAACATCGATTTTCCACCATCAGGGATACTCTAACCC
1 GGATACTCCAACCTCAGTTTTATTTTCAAAACACCAATTTTTCACAATCAGGGATACTCTAACCC
*
3490879 CATTATTTCCAAGGGGATACTCTAACCCTGGTTTTATTTCTAAAACACCAATTTTCCACAATCGG
66 CATTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGG
* *
3490944 GGATACTCCAACTTTCA-TTTTA-TTTCTAAAACACCAATTTTTCACAATCGGGGATACT-TCAA
1 GGATACTCCAAC-CTCAGTTTTATTTTC-AAAACACCAATTTTTCACAATCAGGGATACTCT-AA
*
3491006 CCCCATTATTT-CATCGGGGATACTCTAACC
63 CCCCATTATTTCCA-AGGGGATACTCTAACC
3491036 TCGTTATTTC
Statistics
Matches: 198, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
129 7 0.04
130 186 0.94
131 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (130 bp):
GGATACTCCAACCTCAGTTTTATTTTCAAAACACCAATTTTTCACAATCAGGGATACTCTAACCC
CATTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGG
Found at i:3490947 original size:51 final size:51
Alignment explanation
Indices: 3490891--3491012 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
3490881 TTATTTCCAA
* **
3490891 GGGGATACTCTAACCCTGGTTTTATTTCTAAAACACCAATTTTCCACAATC
1 GGGGATACTCCAACCCTCATTTTATTTCTAAAACACCAATTTTCCACAATC
** *
3490942 GGGGATACTCCAACTTTCATTTTATTTCTAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCTCATTTTATTTCTAAAACACCAATTTTCCACAATC
*
3490993 GGGGATACTTCAACCC-CATT
1 GGGGATACTCCAACCCTCATT
3491013 ATTTCATCGG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 4 0.06
51 58 0.94
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCTCATTTTATTTCTAAAACACCAATTTTCCACAATC
Found at i:3491314 original size:79 final size:79
Alignment explanation
Indices: 3491136--3491319 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 79
3491126 CTAAATCATT
* * ** *
3491136 GATTTTTCACAATCAGGGATACTCTAACCCTGTTATTTTTGAGGGGATACTCCAACCCCGATTTT
1 GATTTTTCATAATCAGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
* *
3491201 ATTTTCAAAATATC
66 ATTTTCAAAACACC
** * *
3491215 GATTTTTTGTAACCAAGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
1 GATTTTTCATAATCAGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
*
3491280 A-TTTCTAGAACACC
66 ATTTTC-AAAACACC
*
3491294 GATTTTTCATAATCGGGGATACTCCA
1 GATTTTTCATAATCAGGGATACTCCA
3491320 GCCCCATTGT
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 4 0.05
79 83 0.95
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GATTTTTCATAATCAGGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAATTTT
ATTTTCAAAACACC
Found at i:3497119 original size:19 final size:19
Alignment explanation
Indices: 3497095--3497144 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3497085 AGCGATACAT
*
3497095 TGTATCGATGCAAAACTTA
1 TGTATCGATACAAAACTTA
* *
3497114 TGTATCGGTACAACACTTA
1 TGTATCGATACAAAACTTA
3497133 TGTATCGATACA
1 TGTATCGATACA
3497145 TTTTCTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3497235 original size:21 final size:21
Alignment explanation
Indices: 3497204--3497259 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
3497194 GTTGGGACCT
*
3497204 TGTATCAATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
3497225 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3497246 TGTATCGATACATT
1 TGTATCGATACATT
3497260 TGGATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:3502202 original size:79 final size:77
Alignment explanation
Indices: 3502071--3502303 Score: 277
Period size: 79 Copynumber: 2.9 Consensus size: 77
3502061 ATTCATATTT
* * * * *
3502071 TTATTTTCGAGGAGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAATTGGGA
1 TTATTTTTGAGGGGATACTCTAACCCC-GTTTTATTTCCAAAACACCAATTTTTCACAATAGGG-
*
3502136 ATACTCTAACCTCG
64 ATACTCTAACCCCG
* *
3502150 TTATTTTTGAGGGGATACTCTAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGG
1 TTATTTTTGAGGGGATACTCTAACCCC-GTTTTATTTCCAAAACACCAATTTTTCACAAT-AGGG
*
3502215 ATACTCCAACCCCG
64 ATACTCTAACCCCG
* * * * * *
3502229 TTATTTCTGAGGGGATACTCAAAACCCGATTTTATTTCCAAAACTCGATTTTTTCACAATCAGGG
1 TTATTTTTGAGGGGATACTCTAACCCCG-TTTTATTTCCAAAACACCAATTTTTCACAAT-AGGG
3502294 ATACTCTAAC
64 ATACTCTAAC
3502304 TCCAATTTTA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 130 0.97
80 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (77 bp):
TTATTTTTGAGGGGATACTCTAACCCCGTTTTATTTCCAAAACACCAATTTTTCACAATAGGGAT
ACTCTAACCCCG
Found at i:3502312 original size:51 final size:50
Alignment explanation
Indices: 3502240--3502357 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 50
3502230 TATTTCTGAG
* * *
3502240 GGGATACTCAAAACCCGATTTTATTTCCAAAAC-TCGATTTTTTCACAATCA
1 GGGATACTC-TAACCCAATTTTATTTCCAAAACATCGA-TTTTCCACAATCA
3502291 GGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
1 GGGATACTCTAAC-CCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
* *
3502342 AGGATACTCTTACCCA
1 GGGATACTCTAACCCA
3502358 TTATTTCTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 6 0.10
51 50 0.83
52 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.32
Consensus pattern (50 bp):
GGGATACTCTAACCCAATTTTATTTCCAAAACATCGATTTTCCACAATCA
Found at i:3502397 original size:78 final size:78
Alignment explanation
Indices: 3502290--3502559 Score: 269
Period size: 80 Copynumber: 3.4 Consensus size: 78
3502280 TTTCACAATC
* * * * *
3502290 AGGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTTAC
1 AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTCTTAC
3502355 CCATTATTTCTGA
66 CCATTATTTCTGA
* * * *
3502368 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CTAATTTTTCACAATTGGGGATACT-TTA
1 AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATC-GATTTTTCACAATCGAGGATACTCTT-
*
3502431 ACCTCGTTATGTTC-GA
64 ACC-CATTAT-TTCTGA
* * * *
3502447 GGGGATACTCCAACCCCAGTTTTATTTTCAAAAACATCGATTTTTCACAGTCGAGGATACTCTAA
1 AGGGATACTCCAACCCCAGTTTTA-TTTCCAAAACATCGATTTTTCACAATCGAGGATACTCTTA
*
3502512 CCCTATTATTTTTG-
65 CCC-ATTATTTCTGA
* * * * *
3502526 AGGATATACTCTAACTCCTGTTTTATCTCCAAAA
1 AGG-GATACTCCAACCCCAGTTTTATTTCCAAAA
3502560 TATTAAACTT
Statistics
Matches: 155, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
77 3 0.02
78 52 0.34
79 41 0.26
80 57 0.37
81 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (78 bp):
AGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTCTTAC
CCATTATTTCTGA
Found at i:3502424 original size:129 final size:130
Alignment explanation
Indices: 3502160--3502433 Score: 352
Period size: 129 Copynumber: 2.1 Consensus size: 130
3502150 TTATTTTTGA
* * * **
3502160 GGGGATACTCTAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCTAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAAGGATACTCCAAC
* * * *
3502225 CCCGTTATTTCTGAGGGGATACTCAAAACCCGATTTTATTTCCAAAACTCGATTTTTTCACAATC
66 CCCATTATTTCTGAAGGGATACTCAAAACCCGATTTTATTTCCAAAACACGAATTTTTCACAATC
* * * * **
3502290 AGGGATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCTTA-
1 GGGGATACTCTAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAAGGATACTCCAAC
* * * * *
3502354 CCCATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATT
66 CCCATTATTTCTGAAGGGATACTCAAAACCCGATTTTATTTCCAAAACACGAATTTTTCACAATC
*
3502419 GGGGATACTTTAACC
1 GGGGATACTCTAACC
3502434 TCGTTATGTT
Statistics
Matches: 121, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
129 68 0.56
130 53 0.44
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (130 bp):
GGGGATACTCTAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAAGGATACTCCAAC
CCCATTATTTCTGAAGGGATACTCAAAACCCGATTTTATTTCCAAAACACGAATTTTTCACAATC
Found at i:3502451 original size:208 final size:210
Alignment explanation
Indices: 3502084--3502514 Score: 570
Period size: 208 Copynumber: 2.1 Consensus size: 210
3502074 TTTTCGAGGA
** * **
3502084 GATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACAATTGGGAATACTCTAACCTC
1 GATACTCTAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATAAGGAATACTCTAACCTC
* * * * *
3502149 GTTATTTTTGAGGGGATACTCTAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGG
66 ATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTTCACAATCGGG
* *
3502214 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAAACCC-GATTTTA-TTTCCAAAAC-TCG
131 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAACCCCAG-TTTTATTTTCAAAAACATCG
3502276 ATTTTTTCACAATC-AGG
195 A-TTTTTCACAATCGA-G
* *
3502293 GATACTCTAACTCCAATTTTATTTCCAAAACATCGATTTTCCACAATCAAGG-ATACTCTTACC-
1 GATACTCTAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAAT-AAGGAATACTCTAACCT
* * *
3502356 CATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATTGG
65 CATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTTCACAATCGG
** * *
3502421 GGATACTTTAACCTCGTTATGTTC-GAGGGGATACTCCAACCCCAGTTTTATTTTCAAAAACATC
130 GGATACTCCAACCCCGTTAT-TTCTGAGGGGATACTCAAACCCCAGTTTTATTTTCAAAAACATC
*
3502485 GATTTTTCACAGTCGAG
194 GATTTTTCACAATCGAG
3502502 GATACTCTAACCC
1 GATACTCTAACCC
3502515 TATTATTTTT
Statistics
Matches: 193, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
208 96 0.50
209 90 0.47
210 7 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (210 bp):
GATACTCTAACCCCAATTTTATTTCCAAAACATCGATTTTCCACAATAAGGAATACTCTAACCTC
ATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTTCACAATCGGG
GATACTCCAACCCCGTTATTTCTGAGGGGATACTCAAACCCCAGTTTTATTTTCAAAAACATCGA
TTTTTCACAATCGAG
Found at i:3515830 original size:61 final size:60
Alignment explanation
Indices: 3515730--3516124 Score: 436
Period size: 61 Copynumber: 6.5 Consensus size: 60
3515720 AACTTTTTAT
*
3515730 CCTTTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
3515791 CCTTCCAGTCCTCAAAGAGTAAGATGCCTTATCCTTTTAAAGCCCACACAAATTGGTGG-A
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
3515851 ACTTTCTAGTCCTCAAAAAGCAGGA--CACTTTTTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGATGC-CTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * *
3515911 CCTTTTAGTCCTCAAAGAGCAGGATTCCTTTTTTTTTAAAGTCCACAAAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
3515971 CCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTATAAAGCCCATACAAGTTGATGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
3516032 CCTTTCAGTCCCCAAAGAGCAGGACATTTTCCTTTTTCCTTTTAAAGCCCACACAAGTTGTTGGC
1 CCTTTCAGTCCTCAAAGAGCAGG--A--TGCC--TTTCCTTTTAAAGCCCACACAAGTTGGTGGC
3516097 A
60 A
* **
3516098 CCTTTTAGTCCTCAAAGAATAGGATGC
1 CCTTTCAGTCCTCAAAGAGCAGGATGC
3516125 ACTTCATTTC
Statistics
Matches: 282, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
59 43 0.15
60 72 0.26
61 113 0.40
62 2 0.01
63 1 0.00
64 1 0.00
65 2 0.01
66 46 0.16
67 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (60 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:3516232 original size:41 final size:40
Alignment explanation
Indices: 3516145--3516234 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
3516135 TTTCTGTTCT
*
3516145 CTTTTGTCCCCAAAGAGGAGGACGCACTTATTTCCTTTTC
1 CTTTTGTCCCCAAAGAGGAGGACGAACTTATTTCCTTTTC
* ** *
3516185 CCTTTGTCTTCAAAGAGTAGGACGAACTTTATTTCCTTTTC
1 CTTTTGTCCCCAAAGAGGAGGACGAAC-TTATTTCCTTTTC
3516226 CTTTTGTCC
1 CTTTTGTCC
3516235 TTAACAAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 22 0.52
41 20 0.48
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (40 bp):
CTTTTGTCCCCAAAGAGGAGGACGAACTTATTTCCTTTTC
Found at i:3516248 original size:41 final size:40
Alignment explanation
Indices: 3516155--3516290 Score: 116
Period size: 41 Copynumber: 3.3 Consensus size: 40
3516145 CTTTTGTCCC
* *
3516155 CAAAGAGGAGGACGCACTTATTTCCTTTTCCCTTTGTCTT
1 CAAAGAGCAGGACGAACTTATTTCCTTTTCCCTTTGTCTT
* *
3516195 CAAAGAGTAGGACGAACTTTATTTCCTTTTCCTTTTGTCCTT
1 CAAAGAGCAGGACGAAC-TTATTTCCTTTTCCCTTTGT-CTT
* ** *
3516237 -AACA-AGCAGGAC-ACACTTAATTTTCTTCTTTTCTTTCGTCCT
1 CAA-AGAGCAGGACGA-ACTT-ATTTCCTT-TTCCCTTT-GTCTT
3516279 CAAAGAGCAGGA
1 CAAAGAGCAGGA
3516291 TGTGTCCCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
40 18 0.23
41 37 0.47
42 12 0.15
43 11 0.14
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (40 bp):
CAAAGAGCAGGACGAACTTATTTCCTTTTCCCTTTGTCTT
Found at i:3519242 original size:79 final size:78
Alignment explanation
Indices: 3519130--3519570 Score: 400
Period size: 79 Copynumber: 5.6 Consensus size: 78
3519120 ATTCATATTT
* * * *
3519130 TTATTTCCTAGGGGATACTCTAACCCCGATTTTATTTTCAAAATACCGA-TTTTCTATAATCGGG
1 TTATTT-CGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTC-ATAATCGGG
* * *
3519194 GAAACTCCAACTCCG
64 GATACTCCAACCCCA
* * * * *
3519209 TTAGTTTCGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATTGATTTTTCACAATCGGGG
1 TTA-TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
*
3519274 ATACTCCAACCCCG
65 ATACTCCAACCCCA
* * * * ** * * *
3519288 TTATTTTCGAGGAGACACTCCAACCCTGATTTTATTTTCAAAATGCCAATTTTTCATGATCGGGA
1 TTA-TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
* *
3519353 ATACTCCAATCCCT
65 ATACTCCAACCCCA
* * * * * *
3519367 TTATTTCTGAGGGGATACTCCAACCCCAATTTTCTTTCCAAAACATCAATTTTCCATAATCGGAG
1 TTATTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
*
3519432 ATACTCTAACCCCA
65 ATACTCCAACCCCA
** *** * * * *
3519446 TTATTTCTGAGGGGATACTTTAACTTAGGTTTTATTTCCAAAAGATCGATTTTTCAAAATCGAGG
1 TTATTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGG
*
3519511 ATACTCCAACCCTA
65 ATACTCCAACCCCA
* * *
3519525 TTATTTTCGAGGAGATACTCCAACCTCTG-TTTTATCTCCAAAATAT
1 TTA-TTTCGAGGGGATACTCCAACC-CCGATTTTATTTCCAAAATAT
3519571 TAAACTTTTC
Statistics
Matches: 291, Mismatches: 66, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
78 4 0.01
79 274 0.94
80 13 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
TTATTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCATAATCGGGGA
TACTCCAACCCCA
Found at i:3519547 original size:237 final size:237
Alignment explanation
Indices: 3519129--3519568 Score: 598
Period size: 237 Copynumber: 1.9 Consensus size: 237
3519119 CATTCATATT
* * * * * * *
3519129 TTTATTTCCTAGGGGATACTCTAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAATCGGG
1 TTTATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCATAATCGGA
* * * *
3519194 GAAACTCCAACTCCGTTAGTTTCGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATTGAT
66 GAAACTCCAACCCCATTAGTTTCGAGGGGATACTCTAACCCAGGTTTTATTTCCAAAACATCGAT
* * *
3519259 TTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGACACTCCAACC-CTGATTTTAT
131 TTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGAGACACTCCAACCTCTG-TTTTAT
* *
3519323 TTTCAAAATGCCAATTTTTCATGATCGGGAATACTCCAATCCC
195 CTCCAAAATGCCAATTTTTCATGATCGGGAATACTCCAATCCC
* *
3519366 TTTATTT-CTGAGGGGATACTCCAACCCCAATTTTCTTTCCAAAACATCAATTTTCCATAATCGG
1 TTTATTTCCT-AGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCATAATCGG
* * * ** *
3519430 AGATACTCTAACCCCATTA-TTTCTGAGGGGATACTTTAACTTAGGTTTTATTTCCAAAAGATCG
65 AGAAACTCCAACCCCATTAGTTTC-GAGGGGATACTCTAACCCAGGTTTTATTTCCAAAACATCG
* *
3519494 ATTTTTCAAAATCGAGGATACTCCAACCCTATTATTTTCGAGGAGATACTCCAACCTCTGTTTTA
129 ATTTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGAGACACTCCAACCTCTGTTTTA
3519559 TCTCCAAAAT
194 TCTCCAAAAT
3519569 ATTAAACTTT
Statistics
Matches: 174, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
236 6 0.03
237 165 0.95
238 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (237 bp):
TTTATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCATAATCGGA
GAAACTCCAACCCCATTAGTTTCGAGGGGATACTCTAACCCAGGTTTTATTTCCAAAACATCGAT
TTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGAGACACTCCAACCTCTGTTTTATC
TCCAAAATGCCAATTTTTCATGATCGGGAATACTCCAATCCC
Found at i:3520534 original size:13 final size:13
Alignment explanation
Indices: 3520516--3520541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3520506 ATGATGGATA
3520516 CATTGTATCGATG
1 CATTGTATCGATG
3520529 CATTGTATCGATG
1 CATTGTATCGATG
3520542 AAGGTTACTC
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATG
Found at i:3524599 original size:13 final size:13
Alignment explanation
Indices: 3524581--3524616 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3524571 GTATCGATAC
*
3524581 TATCGATACACTG
1 TATCGATACAATG
3524594 TATCGATACAATG
1 TATCGATACAATG
3524607 TATCGATACA
1 TATCGATACA
3524617 TGAATAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:3524664 original size:33 final size:33
Alignment explanation
Indices: 3524610--3524758 Score: 158
Period size: 33 Copynumber: 4.8 Consensus size: 33
3524600 TACAATGTAT
*
3524610 CGATACATGAATAGTGATGAACAGTGATTTTTAA
1 CGATACATGAACAGT-ATGAACAGTGATTTTTAA
*
3524644 CGATACGTGAACAGTATGAACAGTGATTTTTAA
1 CGATACATGAACAGTATGAACAGTGATTTTTAA
3524677 CG----AT--AC-G--TGAACAGTGATTTTTAA
1 CGATACATGAACAGTATGAACAGTGATTTTTAA
* * *
3524701 CGATACGTGAACAGTATGAACAGTGA--TGTAT
1 CGATACATGAACAGTATGAACAGTGATTTTTAA
*
3524732 CGATACATGAACAGTATGAATAGTGAT
1 CGATACATGAACAGTATGAACAGTGAT
3524759 GAACAGTGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 22
0.76 0.06 0.17
Matches are distributed among these distances:
24 19 0.20
26 1 0.01
27 2 0.02
28 1 0.01
29 1 0.01
30 2 0.02
31 28 0.29
33 30 0.31
34 13 0.13
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (33 bp):
CGATACATGAACAGTATGAACAGTGATTTTTAA
Found at i:3524692 original size:24 final size:24
Alignment explanation
Indices: 3524660--3524715 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
3524650 GTGAACAGTA
3524660 TGAACAGTGATTTTTAACGATACG
1 TGAACAGTGATTTTTAACGATACG
3524684 TGAACAGTGATTTTTAACGATACG
1 TGAACAGTGATTTTTAACGATACG
3524708 TGAACAGT
1 TGAACAGT
3524716 ATGAACAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (24 bp):
TGAACAGTGATTTTTAACGATACG
Found at i:3524743 original size:31 final size:31
Alignment explanation
Indices: 3524701--3524759 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
3524691 TGATTTTTAA
*
3524701 CGATACGTGAACAGTATGAACAGTGATGTAT
1 CGATACATGAACAGTATGAACAGTGATGTAT
*
3524732 CGATACATGAACAGTATGAATAGTGATG
1 CGATACATGAACAGTATGAACAGTGATG
3524760 AACAGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (31 bp):
CGATACATGAACAGTATGAACAGTGATGTAT
Found at i:3524855 original size:53 final size:53
Alignment explanation
Indices: 3524791--3524927 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
3524781 CTACTACCAA
*
3524791 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
3524844 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
3524897 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
3524928 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:3524960 original size:20 final size:20
Alignment explanation
Indices: 3524897--3524967 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
3524887 GCCAATGTCC
**
3524897 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
3524917 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
3524937 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
3524957 TGTATCGATAC
1 TGTATCGATAC
3524968 TTTTCAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:3531279 original size:20 final size:19
Alignment explanation
Indices: 3531230--3531284 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
3531220 TGTATCAATA
***
3531230 CATTGTATCGATACATGTT
1 CATTGTATCGATACATACC
*
3531249 CATTCTATCGATACATACC
1 CATTGTATCGATACATACC
3531268 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
3531285 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATACC
Found at i:3531374 original size:20 final size:20
Alignment explanation
Indices: 3531349--3531439 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
3531339 CTATACATTA
*
3531349 TATCGATACATGAAGAATTG
1 TATCGATACATAAAGAATTG
3531369 TATCGATACATAAAGAATTG
1 TATCGATACATAAAGAATTG
*
3531389 TTTCGATACATAAAGAATTG
1 TATCGATACATAAAGAATTG
*
3531409 TATCGATACATAAAGAATTA
1 TATCGATACATAAAGAATTG
3531429 TATCGATACAT
1 TATCGATACAT
3531440 TGTGCCCAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATAAAGAATTG
Done.