Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 162 of 253
Found at i:52421838 original size:79 final size:80
Alignment explanation
Indices: 52421642--52421866 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 80
52421632 TCGGATGATA
* * **
52421642 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
52421705 TTGTGCGAGCTACTAAT
64 TTGTGCGAGCTACTAAT
** * * * *
52421722 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCTGGGCTAAGTCCCAAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
* *
52421787 GTGCGAGTTA-TTAT
66 GTGCGAGCTACTAAT
* *
52421801 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAATTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
52421866 G
66 G
52421867 AGCTAGTGGC
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 61 0.49
80 60 0.48
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAAT
Found at i:52421880 original size:40 final size:40
Alignment explanation
Indices: 52421639--52421889 Score: 246
Period size: 40 Copynumber: 6.3 Consensus size: 40
52421629 TGTTCGGATG
* * *
52421639 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTGACT
*
52421679 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
**
52421719 A-ATTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * * * *
52421759 ATATCTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
52421799 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAATTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
52421838 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
52421878 ATATCC-GGCTAA
1 ATAACCGGGCTAA
52421890 ACTCCGAAGG
Statistics
Matches: 184, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
39 41 0.22
40 139 0.76
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:52421899 original size:79 final size:78
Alignment explanation
Indices: 52421683--52421889 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 78
52421673 GTGGCTAATT
* *
52421683 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT-ATATCCGGCTAAGTCCCGAAGGCATTTG
* *
52421748 TGCGAGCTACTATAT
64 TGCAAGCTACTATAA
* * *
52421763 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTG
**
52421827 TGCAATTTACTATAA
64 TGCAAGCTACTATAA
* * *
52421842 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGCTAA
52421890 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 72 0.67
80 34 0.31
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAA
Found at i:52423677 original size:20 final size:20
Alignment explanation
Indices: 52423652--52423701 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
52423642 AGGGACTAAA
* *
52423652 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
52423672 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
52423692 ATGAATAAAT
1 ATGAA-AAAT
52423702 GTGCTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:52426493 original size:40 final size:40
Alignment explanation
Indices: 52426442--52426588 Score: 226
Period size: 40 Copynumber: 3.7 Consensus size: 40
52426432 TACTTGCTCC
52426442 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACA
* *
52426482 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACA
* *
52426522 AATGCCTTCGGGACTTAGCCCGG-AATTAGTCACT-AGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CACA
52426562 AATGCCTTCGGGACTTAGCCCGGTTAT
1 AATGCCTTCGGGACTTAGCCCGGTTAT
52426589 CATCCGAATA
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 96 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACA
Found at i:52429841 original size:43 final size:42
Alignment explanation
Indices: 52429702--52429858 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
52429692 ATGCCAACGC
52429702 CCCAGACGTGGTCTTACATGCT-ATCACATATCGATGCCACTAT
1 CCCAGACGTGGTCTTACATG-TAATCACATATCGATGCCAC-AT
* * * * **
52429745 CCCATATAG-GGTCTTACATG-AATTAAATA-CGATGCCGATGT
1 CCCAGA-CGTGGTCTTACATGTAATCACATATCGATGCC-ACAT
* * *
52429786 CCTAGACATGGTCTTACACGTAATCACATATCGATGCCTACAT
1 CCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACAT
* * *
52429829 CCCAGATGTGGTC-TACATGAAAACACATAT
1 CCCAGACGTGGTCTTACATGTAATCACATAT
52429859 AGAAAATCCT
Statistics
Matches: 86, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
41 22 0.26
42 28 0.33
43 35 0.41
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
CCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACAT
Found at i:52433195 original size:14 final size:14
Alignment explanation
Indices: 52433178--52433204 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52433168 TCACAAAAAT
52433178 TTCACACATATAAG
1 TTCACACATATAAG
52433192 TTCACACATATAA
1 TTCACACATATAA
52433205 ACACTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (14 bp):
TTCACACATATAAG
Found at i:52435484 original size:30 final size:30
Alignment explanation
Indices: 52435450--52435511 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
52435440 CCTCCTTAAC
*
52435450 ATAAAATGGTTTCTCCCAATTAAGGACAAG
1 ATAAAATGGCTTCTCCCAATTAAGGACAAG
*
52435480 ATAAAATGGCTTCTTCCAATTAAGGACAAG
1 ATAAAATGGCTTCTCCCAATTAAGGACAAG
52435510 AT
1 AT
52435512 TCGTCCCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (30 bp):
ATAAAATGGCTTCTCCCAATTAAGGACAAG
Found at i:52436898 original size:37 final size:37
Alignment explanation
Indices: 52436845--52436984 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
52436835 CGAATAGTCC
* * *
52436845 CCACATGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
52436882 CCACACGTAGTCATCGGGTCTTACCAGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
52436919 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
52436956 CCACATGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
52436985 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:52437619 original size:48 final size:48
Alignment explanation
Indices: 52437125--52437612 Score: 850
Period size: 48 Copynumber: 10.2 Consensus size: 48
52437115 ATATACACAC
* *
52437125 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
52437173 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
52437221 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
52437269 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
52437317 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
52437365 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACCTATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
52437413 ATCTCATACGTATTTCACATTACCCATTCGACTTTACCACGTATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
52437461 ATCTCATACGTATTTCACATTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
52437509 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
52437557 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
52437605 ATCTCATA
1 ATCTCATA
52437613 TATATTTATC
Statistics
Matches: 429, Mismatches: 11, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
48 429 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (48 bp):
ATCTCATACGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:52442801 original size:22 final size:23
Alignment explanation
Indices: 52442775--52442856 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
52442765 CTAAGCTAAT
52442775 AAACAGTAAGCTCTATTGAGCT-
1 AAACAGTAAGCTCTATTGAGCTG
*
52442797 AAACAGTAAGCTCTTTTGAGCTG
1 AAACAGTAAGCTCTATTGAGCTG
* * * *
52442820 AATCGGTAAGCTCCAATGAGCTG
1 AAACAGTAAGCTCTATTGAGCTG
*
52442843 AAACAGTAGGCTCT
1 AAACAGTAAGCTCT
52442857 TATGAGTTGT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
22 21 0.43
23 28 0.57
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (23 bp):
AAACAGTAAGCTCTATTGAGCTG
Found at i:52447561 original size:17 final size:17
Alignment explanation
Indices: 52447520--52447562 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
52447510 CACACGAGAA
* *
52447520 GACACACAGACGTGTGT
1 GACACACGGACGTCTGT
52447537 GACACACGGACGTCTGT
1 GACACACGGACGTCTGT
52447554 GACACACGG
1 GACACACGG
52447563 CCTAGTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (17 bp):
GACACACGGACGTCTGT
Found at i:52454335 original size:21 final size:20
Alignment explanation
Indices: 52454265--52454337 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 20
52454255 TTTAAAATGT
* *
52454265 TTAAAAACCATAAA-AATTA
1 TTAAAAACTATAAAGAAATA
*
52454284 TTAAAAACTA-ATAGAAA-A
1 TTAAAAACTATAAAGAAATA
*
52454302 TTATAAAATTATAAAGAAATA
1 TTA-AAAACTATAAAGAAATA
52454323 TTTAAAAACTATAAA
1 -TTAAAAACTATAAA
52454338 ATATTGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 6 0.14
19 17 0.40
20 6 0.14
21 11 0.26
22 3 0.07
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
TTAAAAACTATAAAGAAATA
Found at i:52454341 original size:18 final size:18
Alignment explanation
Indices: 52454257--52454347 Score: 53
Period size: 20 Copynumber: 4.8 Consensus size: 18
52454247 ACAATCTTTT
* *
52454257 TAAAATGTTTAAAAACCA
1 TAAAATATTTAAAAACTA
52454275 TAAAA-ATTATTAAAAACTAA
1 TAAAATA-T-TTAAAAACT-A
52454295 TAGAAA-ATTATAAAATTA-TA
1 TA-AAATATT-TAAAA--ACTA
*
52454315 AAGAAATATTTAAAAACTA
1 TA-AAATATTTAAAAACTA
*
52454334 TAAAATATTGAAAA
1 TAAAATATTTAAAA
52454348 TGTTTTAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
18 18 0.31
19 12 0.20
20 20 0.34
21 8 0.14
22 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
TAAAATATTTAAAAACTA
Found at i:52454932 original size:8 final size:9
Alignment explanation
Indices: 52454867--52454941 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
52454857 ATTTAAATTT
52454867 TTTTTATAA
1 TTTTTATAA
*
52454876 TTTTAATATA
1 TTTTTATA-A
** *
52454886 TTAATGTAA
1 TTTTTATAA
*
52454895 TTTTAATAA
1 TTTTTATAA
52454904 -TTTTAT-A
1 TTTTTATAA
* *
52454911 TTTATATAC
1 TTTTTATAA
*
52454920 TTTTTTTAA
1 TTTTTATAA
52454929 TTTTTATAA
1 TTTTTATAA
52454938 TTTT
1 TTTT
52454942 AAAAAATTCT
Statistics
Matches: 47, Mismatches: 16, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
7 1 0.02
8 10 0.21
9 31 0.66
10 5 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:52458274 original size:19 final size:20
Alignment explanation
Indices: 52458250--52458289 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
52458240 AAAAGTTATT
52458250 TTTAATATTT-TAATTTTAA
1 TTTAATATTTATAATTTTAA
* *
52458269 TTTAATCTTTATATTTTTAA
1 TTTAATATTTATAATTTTAA
52458289 T
1 T
52458290 AAAATAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATATTTATAATTTTAA
Found at i:52459871 original size:42 final size:43
Alignment explanation
Indices: 52459749--52459874 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
52459739 GTTTTTACAA
* *
52459749 AAAAATGCCACAAAAGAACATGACCTTTAGTGGCACTTTCCCC
1 AAAAATGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCCCC
*
52459792 AAAAATGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
1 AAAAATGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCCCC
* * *
52459835 AAAAACT-CCGCTAAAG-ACATGATCTTTAGTGACGCTTTCC
1 AAAAA-TGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCC
52459875 TTATAAACGC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 21 0.28
43 53 0.71
44 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
AAAAATGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCCCC
Found at i:52461983 original size:30 final size:30
Alignment explanation
Indices: 52461899--52461986 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
52461889 AAAATTAAAT
* **
52461899 ATAAATTTTAATTTAATGTGTATTTTCATAC
1 ATAAAATTTAATTTAAT-TCAATTTTCATAC
* * *
52461930 ATGAAATTTAATTT-TTTATAATTTT-ATAC
1 ATAAAATTTAATTTAATT-CAATTTTCATAC
52461959 ATAAAATTTAAATTTAATTCAATTTTCA
1 ATAAAATTT-AATTTAATTCAATTTTCA
52461987 CAAATCACTA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
29 13 0.29
30 17 0.38
31 15 0.33
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (30 bp):
ATAAAATTTAATTTAATTCAATTTTCATAC
Found at i:52464294 original size:40 final size:41
Alignment explanation
Indices: 52464205--52464308 Score: 147
Period size: 41 Copynumber: 2.6 Consensus size: 41
52464195 TTTATAATCA
* *
52464205 CCACTATTGCTTTACGTTTTGCAACGTTTATGAGAAAAACG
1 CCACTATTGCTTTACCTTTTGCAACATTTATGAGAAAAACG
* * * *
52464246 CCGCTATTGCTTTACCTTTTGCGACATTTATG-TAAAAATG
1 CCACTATTGCTTTACCTTTTGCAACATTTATGAGAAAAACG
52464286 CCACTATTGCTTTACCTTTTGCA
1 CCACTATTGCTTTACCTTTTGCA
52464309 GCGGCTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 27 0.49
41 28 0.51
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (41 bp):
CCACTATTGCTTTACCTTTTGCAACATTTATGAGAAAAACG
Found at i:52466142 original size:21 final size:21
Alignment explanation
Indices: 52466116--52466157 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
52466106 TCTGAGAATG
52466116 AAATTTGGCTCATTTATAGTC
1 AAATTTGGCTCATTTATAGTC
52466137 AAATTTGGCTCATTTATAGTC
1 AAATTTGGCTCATTTATAGTC
52466158 TAAGGCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
AAATTTGGCTCATTTATAGTC
Found at i:52466525 original size:126 final size:125
Alignment explanation
Indices: 52466173--52466567 Score: 547
Period size: 126 Copynumber: 3.1 Consensus size: 125
52466163 CCAAATAGGA
** * *
52466173 ACTACTGTAGAAAAAGAGTGTCCACGTTGGAGCTTTTTTCAATAATTTTCCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGCATCCACG-TGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
52466238 GCTTGAAGCATTTTGGATACTATTTGTTCAGAAATGTCTTTTCAAAATTATTTTTTCAGAT
65 GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * * *
52466299 GCTACTGTAGAAAAAAAAACATTCACGTGGGAGTTTTTTTTCAGTAATTTTGCTGACAGTGTATC
1 ACTACTGTAG-AAAAAGAGCATCCACGT-GGAG-CTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
52466364 CTGCTTGAACCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAC
63 CTGCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
52466427 ACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCCTGTAATTTTGCTGACAGTCCATCCT
1 ACTACTGTAGAAAAAGAGCATCCACGTG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* ** *
52466492 GCTTTAAGTGTTTTGAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
65 GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
52466553 ACTACTGTAGAAAAA
1 ACTACTGTAGAAAAA
52466568 AAAGTTTTTA
Statistics
Matches: 235, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
126 109 0.46
127 32 0.14
128 94 0.40
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
ACTACTGTAGAAAAAGAGCATCCACGTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
CTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:52466696 original size:6 final size:6
Alignment explanation
Indices: 52466680--52466710 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
52466670 TCCTTAAAAT
*
52466680 CCTAAC TCTAAC CCTAAC CCTAAC CCTAAC C
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC C
52466711 AAGCAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAC
Found at i:52474659 original size:76 final size:73
Alignment explanation
Indices: 52474564--52474708 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 73
52474554 CGTGTATCCC
*
52474564 CTGATGTTTATTAGAAACCAAGTCAGTATGCTCCACACGGCCCAGCACATGGGCGTGTGACTTGG
1 CTGATGTTTATTAGAAACCAAGTCAATATGCTCCACACGGCCCAGCACAT-GG-GTGTG-CTTGG
52474629 CCGTCTGTCTG
63 CCGTCTGTCTG
* * *
52474640 CTGATGTTTATTAGAAACCAAGTCAATATGCTCCACATGGCTCAGTACATGGGTGTGCTTGGCCG
1 CTGATGTTTATTAGAAACCAAGTCAATATGCTCCACACGGCCCAGCACATGGGTGTGCTTGGCCG
52474705 TCTG
66 TCTG
52474709 GCATAAGTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
73 12 0.18
74 5 0.08
75 2 0.03
76 46 0.71
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (73 bp):
CTGATGTTTATTAGAAACCAAGTCAATATGCTCCACACGGCCCAGCACATGGGTGTGCTTGGCCG
TCTGTCTG
Found at i:52482439 original size:12 final size:13
Alignment explanation
Indices: 52482414--52482442 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
52482404 ACTAGAATTT
52482414 TAAATAAGTAAAA
1 TAAATAAGTAAAA
52482427 TAAATAA-TAAAA
1 TAAATAAGTAAAA
52482439 TAAA
1 TAAA
52482443 AGTTCCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
TAAATAAGTAAAA
Found at i:52483406 original size:25 final size:25
Alignment explanation
Indices: 52483378--52483472 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
52483368 CTCTTTTAAT
52483378 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
52483403 AACTGGGGCAAAACCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
52483428 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
52483453 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52483473 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:52483408 original size:50 final size:49
Alignment explanation
Indices: 52483353--52483472 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 49
52483343 TTTATCATAT
* *
52483353 AACTGGAGGCCTAGCCTCTTTTAAT-AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGG-GGCATAGCC-CTTTTAATAAACTGGGGCAAAGCCCTTTTCGATA
* * * *
52483403 AACTGGGGCAAAACCCTTTTTGATAAACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCATAGCCC-TTTTAATAAACTGGGGCAAAGCCCTTTTCGATA
*
52483453 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCATAGCCCTTTT
52483473 GCACTTCCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.02
49 16 0.27
50 42 0.71
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (49 bp):
AACTGGGGCATAGCCCTTTTAATAAACTGGGGCAAAGCCCTTTTCGATA
Found at i:52485774 original size:3 final size:3
Alignment explanation
Indices: 52485766--52485790 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
52485756 ATTTAATTAC
52485766 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
52485791 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:52490536 original size:21 final size:20
Alignment explanation
Indices: 52490503--52490541 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
52490493 GATTATTTTG
52490503 ATGTTTAACGATAGATTATGA
1 ATGTTTAACGATAG-TTATGA
* *
52490524 ATGTTTGATGATAGTTAT
1 ATGTTTAACGATAGTTAT
52490542 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (20 bp):
ATGTTTAACGATAGTTATGA
Found at i:52502365 original size:39 final size:40
Alignment explanation
Indices: 52502264--52502487 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
52502254 TTGAATGATG
* *
52502264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
52502303 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
52502344 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
52502383 TCCGGGCTAAG-CCCGAAGGCATTTTTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
52502422 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
52502461 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52502488 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
39 72 0.45
40 74 0.47
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:52502470 original size:79 final size:80
Alignment explanation
Indices: 52502264--52502487 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 80
52502254 TTGAATGATG
* * * * *
52502264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
52502328 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
* *
52502344 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
* *
52502406 TTTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * * *
52502422 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
52502487 G
66 G
52502488 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 35 0.29
79 56 0.46
80 30 0.25
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:52502494 original size:40 final size:38
Alignment explanation
Indices: 52502317--52502494 Score: 185
Period size: 39 Copynumber: 4.5 Consensus size: 38
52502307 GGACTAAGAT
* * *
52502317 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTACGAGTTACTAA-ACCGGGCTAAGC
* *
52502356 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTACGAGTTACTAA-ACCGGGCTAAGC
* * *
52502395 CCGAAGGCATTTTTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAA-CCGGGCTAAG-C
* * *
52502435 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTACTA-AACCGGGCTAAG-C
* *
52502475 CCGAAGGCGTTTGAACGAGT
1 CCGAAGGCATTTGTACGAGT
52502495 AGCTATATCC
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 70 0.57
40 50 0.41
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTTGTACGAGTTACTAAACCGGGCTAAGC
Found at i:52502509 original size:79 final size:79
Alignment explanation
Indices: 52502317--52502520 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 79
52502307 GGACTAAGAT
** * * * *
52502317 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTACGAGATACTA
*
52502381 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
*** * *
52502395 CCGAAGGCATTTTTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTACGAGATACTA
*
52502459 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * *
52502475 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
52502521 TACGTGGTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 36 0.34
79 47 0.44
80 23 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:52510401 original size:40 final size:41
Alignment explanation
Indices: 52510355--52510483 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 41
52510345 ACAGATCCGA
*
52510355 AAGGCATTTTGTGCGAGATACTAATTCCGGGCTAAG-CCCG
1 AAGGCATTTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCG
* *
52510395 AAGGCATTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCG
* *
52510436 AAGGCA--TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCG
1 AAGGCATTTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCG
52510475 AAGGCATTT
1 AAGGCATTT
52510484 GAACGAGGAG
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.42
40 33 0.42
41 11 0.14
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
AAGGCATTTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCG
Found at i:52510502 original size:79 final size:78
Alignment explanation
Indices: 52510363--52510517 Score: 172
Period size: 79 Copynumber: 2.0 Consensus size: 78
52510353 GAAAGGCATT
* ** *
52510363 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTTGTGCGAGTTACTAAATCCGGGTT
1 TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTTGAACGAGTGACTAAATCC-GGTT
*
52510428 AAGTCCCGAAGGCA
65 AAATCCCGAAGGCA
* * *
52510442 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCA-TTTGAACGAG-GAGCTATATCCGG
1 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTTGAACGAGTGA-CTAAATCCGG
*
52510504 TTAAATTCCGAAGG
63 TTAAATCCCGAAGG
52510518 TACGTTGTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
78 17 0.27
79 37 0.58
80 10 0.16
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTTGAACGAGTGACTAAATCCGGTTA
AATCCCGAAGGCA
Found at i:52511985 original size:40 final size:40
Alignment explanation
Indices: 52511834--52511978 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
52511824 CAGTGACCAT
* *
52511834 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
52511874 TTCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
52511912 ATCCGGGTTAAGTCCCGAAGGAAATTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
52511953 A-CCGGGCTATGTCCCGAAGGCGTTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
52511979 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 35 0.39
40 53 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:52514214 original size:24 final size:24
Alignment explanation
Indices: 52514187--52514257 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
52514177 CTGTCAGGAG
*
52514187 AGGATTTAGAAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
52514211 AGGATTCAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
52514235 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
52514258 GGAAATCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.37, C:0.03, G:0.37, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:52533753 original size:40 final size:40
Alignment explanation
Indices: 52533709--52534005 Score: 278
Period size: 40 Copynumber: 7.5 Consensus size: 40
52533699 AAGTATAAAT
* * *
52533709 AGGGCACCTATGTGCGTTTAAGGGTACTGAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACTGAAGTACAAACA
* * * *
52533749 AGGGCATGTATGTGCATTCAGGGGTACCGAAGCACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACTGAAGTACAAACA
* * * *
52533789 GGGGCATGTATGTGCATTCAGGGGTA-TCAAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACT-GAAGTACAAACA
* *
52533829 TGGGCACCTATGTGCATTTAGGGGTA-TCGAAGTACAAA-A
1 AGGGCACGTATGTGCATTTAGGGGTACT-GAAGTACAAACA
* ** *
52533868 AGGGGCACGTATGTGAATTTA-GGGTACAAAAGTACAAATA
1 A-GGGCACGTATGTGCATTTAGGGGTACTGAAGTACAAACA
* * * * **
52533908 AGGGCATGTATGTACGTTCAGGGGTACCAAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACTGAAGTACAAACA
* * **
52533948 AGGGCACGTATGTGCGTTTAGGGGTATTGAAGTACAAGTA
1 AGGGCACGTATGTGCATTTAGGGGTACTGAAGTACAAACA
* *
52533988 GGGGCACATATGTGCATT
1 AGGGCACGTATGTGCATT
52534006 ATATAATAAT
Statistics
Matches: 213, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
39 29 0.14
40 184 0.86
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (40 bp):
AGGGCACGTATGTGCATTTAGGGGTACTGAAGTACAAACA
Found at i:52533802 original size:80 final size:80
Alignment explanation
Indices: 52533685--52533984 Score: 318
Period size: 80 Copynumber: 3.8 Consensus size: 80
52533675 ATACTATATG
* * * * * * *
52533685 ATTCAGGGTTACCAAAGTATAAATA-GGGCACCTATGTGCGTTTAAGGGTACTGAAGTACAAACA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAACA
52533749 AGGGCATGTATGTGC
66 AGGGCATGTATGTGC
* * * *
52533764 ATTCAGGGGTACCGAAGCACAAACAGGGGCATGTATGTGCATTCAGGGGTA-TCAAAGTACAAAC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACT-AAAGTACAAAC
* **
52533828 ATGGGCACCTATGTGC
65 AAGGGCATGTATGTGC
* * * * * *
52533844 ATTTAGGGGTATCGAAGTACAAAAAGGGGCACGTATGTGAATTT-AGGGTACAAAAGTACAAATA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAACA
*
52533908 AGGGCATGTATGTAC
66 AGGGCATGTATGTGC
* * * * * * *
52533923 GTTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCGTTTAGGGGTATTGAAGTACAA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAA
52533985 GTAGGGGCAC
Statistics
Matches: 177, Mismatches: 40, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
79 84 0.47
80 93 0.53
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (80 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAACA
AGGGCATGTATGTGC
Found at i:52533918 original size:119 final size:119
Alignment explanation
Indices: 52533685--52534001 Score: 388
Period size: 119 Copynumber: 2.7 Consensus size: 119
52533675 ATACTATATG
* * * *
52533685 ATTCAGGGTTACCAAAGTATAAATAGGGCACCTATGTGCGTTTAAGGGTA-CTGAAGTACAAACA
1 ATTCAGGGGTACCAAAGTACAAACAGGGCACCTATGTGCGTTTAGGGGTATC-GAAGTACAAA-A
* * ** * *
52533749 A-GGGCATGTATGTGCATTCAGGGGTACCGAAGCACAAACAGGGGCATGTATGTGC
64 AGGGGCACGTATGTGAATTCAGGGGTACAAAAGCACAAACAAGGGCATGTATGTAC
* *
52533804 ATTCAGGGGTATCAAAGTACAAACATGGGCACCTATGTGCATTTAGGGGTATCGAAGTACAAAAA
1 ATTCAGGGGTACCAAAGTACAAACA-GGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
* * *
52533869 GGGGCACGTATGTGAATTTA-GGGTACAAAAGTACAAATAAGGGCATGTATGTAC
65 GGGGCACGTATGTGAATTCAGGGGTACAAAAGCACAAACAAGGGCATGTATGTAC
* * * **
52533923 GTTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCGTTTAGGGGTATTGAAGTACAAGTA
1 ATTCAGGGGTACCAAAGTACAAAC-AGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
*
52533988 GGGGCACATATGTG
65 GGGGCACGTATGTG
52534002 CATTATATAA
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
119 120 0.70
120 50 0.29
121 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (119 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAAG
GGGCACGTATGTGAATTCAGGGGTACAAAAGCACAAACAAGGGCATGTATGTAC
Found at i:52537701 original size:11 final size:11
Alignment explanation
Indices: 52537685--52537709 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52537675 GCGTTAAATG
52537685 ATTATGTGTGT
1 ATTATGTGTGT
52537696 ATTATGTGTGT
1 ATTATGTGTGT
52537707 ATT
1 ATT
52537710 CGACTTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (11 bp):
ATTATGTGTGT
Found at i:52540534 original size:14 final size:14
Alignment explanation
Indices: 52540515--52540547 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
52540505 CTGATACACG
52540515 TAGTAGCCTGCACT
1 TAGTAGCCTGCACT
52540529 TAGTAGCCTGCACT
1 TAGTAGCCTGCACT
52540543 TAGTA
1 TAGTA
52540548 CTACACACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (14 bp):
TAGTAGCCTGCACT
Found at i:52542510 original size:15 final size:15
Alignment explanation
Indices: 52542455--52542518 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
52542445 AAAAGATAAC
*
52542455 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
52542469 AAAAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52542484 GA-AAACCCAGAATA
1 AAGAAATCCAGAATA
52542498 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
52542513 AAGAAA
1 AAGAAA
52542519 CCCAAGATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
14 18 0.45
15 22 0.55
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52545360 original size:50 final size:49
Alignment explanation
Indices: 52545182--52545359 Score: 248
Period size: 49 Copynumber: 3.6 Consensus size: 49
52545172 GTACGCATAA
* *
52545182 TAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGTAG
*
52545231 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGTAG
** ** ** *
52545280 TAGCCTGCACTTAGTACTACACACATGACCTAACCATTTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACGTAG
*
52545330 TAGCCTGCACTTAGTACTACACATGCGACC
1 TAGCCTGCACTTAGTACTACACACGCGACC
52545360 TCACAACAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 75 0.65
50 41 0.35
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGTAG
Found at i:52558608 original size:40 final size:40
Alignment explanation
Indices: 52558561--52558745 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
52558551 CTCGCACAAG
* * * * *
52558561 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
52558601 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
52558641 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
52558681 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
52558722 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
52558746 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 99 0.75
41 27 0.20
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:52559979 original size:37 final size:38
Alignment explanation
Indices: 52559933--52560007 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
52559923 CAAGAACTCC
52559933 TTCCTCCTTCCTTAGAATTTTCGGCC-AAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
52559970 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
52560008 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 26 0.70
38 11 0.30
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:52566679 original size:39 final size:40
Alignment explanation
Indices: 52566634--52566783 Score: 115
Period size: 39 Copynumber: 3.8 Consensus size: 40
52566624 CGGGGTTTAG
* * *
52566634 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
52566673 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
52566713 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
52566752 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
52566784 ATCTTAGTCG
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 54 0.55
40 44 0.45
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:52566755 original size:79 final size:80
Alignment explanation
Indices: 52566657--52566839 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
52566647 CTCGCACAAG
* * * *
52566657 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGATCTTAG-CCGGATAT
*
52566721 AGTCGC-TAGCACAAAT
64 AGTCGCTTAGCACAAAA
* * *
52566737 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGTCGGATGTAG
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCGGATATAG
52566801 TCGCTTAGCACAAAA
66 TCGCTTAGCACAAAA
52566816 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
52566840 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
78 15 0.16
79 54 0.59
80 23 0.25
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCGGATATAG
TCGCTTAGCACAAAA
Found at i:52566784 original size:39 final size:40
Alignment explanation
Indices: 52566657--52566839 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
52566647 CTCGCACAAG
* * * * *
52566657 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
52566697 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
52566737 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
52566776 GCCTTC-GGATCTTAG-TCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
52566816 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
52566840 CATTCGAGTA
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 54 0.42
40 66 0.51
41 9 0.07
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:52568069 original size:38 final size:38
Alignment explanation
Indices: 52568027--52568102 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52568017 CAAGAACTCC
52568027 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
52568065 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
52568103 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:52568669 original size:8 final size:8
Alignment explanation
Indices: 52568656--52568685 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52568646 CTGGATTGGC
52568656 AAAAGCCG
1 AAAAGCCG
52568664 AAAAGCCG
1 AAAAGCCG
*
52568672 AAATGCCG
1 AAAAGCCG
52568680 AAAAGC
1 AAAAGC
52568686 TGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52569145 original size:27 final size:26
Alignment explanation
Indices: 52569103--52569214 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
52569093 AGGAAGTGTC
*
52569103 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
52569130 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
52569157 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
52569185 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
52569211 CTGG
1 CTGG
52569215 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52569207 original size:54 final size:54
Alignment explanation
Indices: 52569103--52569214 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
52569093 AGGAAGTGTC
*
52569103 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * **
52569157 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
52569211 CTGG
1 CTGG
52569215 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:52570245 original size:14 final size:13
Alignment explanation
Indices: 52570216--52570244 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52570206 AAAATTTTAT
52570216 AAAGATTGAAAAA
1 AAAGATTGAAAAA
52570229 AAAGATTGAAAAA
1 AAAGATTGAAAAA
52570242 AAA
1 AAA
52570245 ACTGAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATTGAAAAA
Found at i:52579683 original size:37 final size:37
Alignment explanation
Indices: 52579624--52579725 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
52579614 AGCTCAGACG
* *
52579624 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52579661 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52579698 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
52579726 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52579922 original size:47 final size:47
Alignment explanation
Indices: 52579844--52580533 Score: 1157
Period size: 47 Copynumber: 14.6 Consensus size: 47
52579834 CCCTTCGGGA
* * * * * *
52579844 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52579891 CCTGTCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52579938 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52579985 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52580032 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52580078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52580125 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52580172 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52580219 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52580268 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52580315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52580362 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52580411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52580458 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52580507 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52580534 TATTCAAATA
Statistics
Matches: 608, Mismatches: 28, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
46 45 0.07
47 426 0.70
49 137 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52580261 original size:96 final size:94
Alignment explanation
Indices: 52579844--52580533 Score: 1157
Period size: 96 Copynumber: 7.3 Consensus size: 94
52579834 CCCTTCGGGA
* * * * * * * *
52579844 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52579909 TTTCACATTCATCACATCGTCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52579938 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52580003 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
52580032 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA-GCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52580096 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
52580125 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAAATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52580190 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
52580219 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACCTATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
52580284 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
52580315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52580380 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
52580411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
52580476 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
52580507 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52580534 TATTCAAATA
Statistics
Matches: 568, Mismatches: 23, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
93 93 0.16
94 229 0.40
96 246 0.43
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52580303 original size:143 final size:141
Alignment explanation
Indices: 52579844--52580533 Score: 1157
Period size: 143 Copynumber: 4.9 Consensus size: 141
52579834 CCCTTCGGGA
* * * * * * * *
52579844 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52579909 TTTCACATTCATCACATCGTCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
52579974 GGCCATTAGGC
131 GGCCATTAGGC
52579985 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52580050 TTTCACATTCATCACATCGGCTATTA-GCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
52580114 GGCCATTAGGC
131 GGCCATTAGGC
* *
52580125 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAAATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52580190 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACG
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
52580255 TCGGCTATTAGGC
129 TCGGCCATTAGGC
* *
52580268 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52580333 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
52580398 TTGGCCATTCGGC
129 TCGGCCATTAGGC
52580411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
52580476 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
52580534 TATTCAAATA
Statistics
Matches: 521, Mismatches: 23, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
140 137 0.26
141 91 0.17
143 246 0.47
145 47 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:52589357 original size:40 final size:39
Alignment explanation
Indices: 52589295--52589518 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 39
52589285 CGGATGATAA
* * *
52589295 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTAATT
*
52589335 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
*
52589375 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
* *
52589415 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
52589454 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
*
52589494 CCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52589519 AGCTAGTGGC
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 38 0.23
40 126 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:52589490 original size:79 final size:80
Alignment explanation
Indices: 52589294--52589518 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 80
52589284 TCGGATGATA
* * ** *
52589294 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCTGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
52589357 TTGTGCGAGCTACTAAT
64 TTGTGCGAGCTACTAAT
** * *
52589374 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
* *
52589439 GTGCGAGTTA-TTAT
66 GTGCGAGCTACTAAT
* *
52589453 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCTCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
52589518 G
66 G
52589519 AGCTAGTGGC
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 63 0.50
80 61 0.48
81 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAAT
Found at i:52589541 original size:79 final size:79
Alignment explanation
Indices: 52589337--52589541 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
52589327 GGCTAATTCT
* ** *
52589337 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTAATTTCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGACT-ATACCGAGCTAAGTCCCGAAGGCATTTGT
* *
52589401 GCGAGCTACTATATCC
64 GCAAGCTACTATAACC
* * * *
52589417 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGAGCTAAGTCCCGAAGGCATTTGTGC
*
52589482 AAGTTACTATAACC
66 AAGCTACTATAACC
* * *
52589496 GGGCTAAGTCTCGAAGGCATTTGAGCTAGTGGCTATATCC-AGCTAA
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATA-CCGAGCTAA
52589542 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 77 0.70
80 33 0.30
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGAGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACTATAACC
Found at i:52592818 original size:27 final size:26
Alignment explanation
Indices: 52592779--52592882 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 26
52592769 GGAAGCGTCC
*
52592779 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTGATT
52592806 TGGTGGCTCTGCCACATATATCTG-TT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* *
52592832 TGATGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTG-ATT
* **
52592860 TGGTGACTCTATCACATTATCTG
1 TGGTGGCTCTGCCACATTATCTG
52592883 TTCTGGCAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 24 0.36
27 30 0.45
28 12 0.18
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:52592840 original size:26 final size:26
Alignment explanation
Indices: 52592782--52592856 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 26
52592772 AGCGTCCTGG
* *
52592782 TGGCTATGCCACA-ATTATCTGATTTGG
1 TGGCTCTGCCACATA-TATCTG-TTTGA
52592809 TGGCTCTGCCACATATATCTGTTTGA
1 TGGCTCTGCCACATATATCTGTTTGA
52592835 TGGCTCTGCCACGAT-TATCTGT
1 TGGCTCTGCCAC-ATATATCTGT
52592857 ATCTGGTGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 23 0.52
27 20 0.45
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TGGCTCTGCCACATATATCTGTTTGA
Found at i:52592881 original size:53 final size:53
Alignment explanation
Indices: 52592782--52592884 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 53
52592772 AGCGTCCTGG
* * *
52592782 TGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTTTGA
1 TGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTTGA
* * *
52592835 TGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 TGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
52592885 CTGGCAGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 27 0.63
54 16 0.37
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (53 bp):
TGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTTGA
Found at i:52606957 original size:25 final size:25
Alignment explanation
Indices: 52606928--52606981 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
52606918 CAAGTTAAAC
52606928 TAAGATGCATTGAGCAGATTAAAAG
1 TAAGATGCATTGAGCAGATTAAAAG
52606953 TAAGATGCATTGAGCAGATTAAAAG
1 TAAGATGCATTGAGCAGATTAAAAG
52606978 TAAG
1 TAAG
52606982 TAGTTAGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (25 bp):
TAAGATGCATTGAGCAGATTAAAAG
Found at i:52608849 original size:43 final size:43
Alignment explanation
Indices: 52608736--52609133 Score: 365
Period size: 43 Copynumber: 9.5 Consensus size: 43
52608726 TCACGGCATT
* *
52608736 TTTTAT-AAAAGCGCCGCTAAAGACCAGGACCTTTAGTGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* *
52608778 -TCT-TAAAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCG-
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* *
52608818 TTTTTTATAAAACCGCCGCTAAAGACCAGGACCTTTAGCGGCGC
1 TTTTATA-AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* * * * *
52608862 TTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCAC
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* * * * *
52608905 ATTTATAAAAAACGCCGCTATAGACCTGCACTTTTAGCGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* * *
52608948 TTTTATAAAAAACGCCGCTATAGA-CATGTACTTTTAGCGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCA-GGACCTTTAGCGGCGC
* * *
52608991 TTTTGTAAAAAAACGAC-C--AAG---A--A-CTTTAGCAGCGC
1 TTTTAT-AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* * * * *
52609026 TTTTATAAAAATCGCCGCTATAGACCTGTACTTTTAGCGGCGC
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
* * * * *
52609069 TTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGGGC
1 TTTTAT-AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
*
52609113 TTTTATAAAAAACGCCTCTAA
1 TTTTATAAAAAACGCCGCTAA
52609134 TTTTCCCAGT
Statistics
Matches: 296, Mismatches: 43, Indels: 33
0.80 0.12 0.09
Matches are distributed among these distances:
34 8 0.03
35 16 0.05
36 1 0.00
37 2 0.01
39 1 0.00
40 1 0.00
41 38 0.13
42 4 0.01
43 175 0.59
44 50 0.17
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC
Found at i:52608921 original size:86 final size:86
Alignment explanation
Indices: 52608736--52609128 Score: 434
Period size: 86 Copynumber: 4.7 Consensus size: 86
52608726 TCACGGCATT
* * * * *
52608736 TTTTAT-AAAAGCGCCGCTAAAGACCAGGACCTTTAGTGGCGC-TCT-TAAAAAACGCCGCCAAA
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATA
* * *
52608798 GACCAGGACCTTTAGCGGCG-
66 GACCTGTACTTTTAGCGGCGC
* *
52608818 TTTTTTATAAAACCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
1 TTTTATA-AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
*
52608883 AGACCTGTACTTTTAGCGGCAC
65 AGACCTGTACTTTTAGCGGCGC
* * * * *
52608905 ATTTATAAAAAACGCCGCTATAGACCTGCACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTATA
1 TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATA
*
52608970 GACATGTACTTTTAGCGGCGC
66 GACCTGTACTTTTAGCGGCGC
* * * *
52608991 TTTTGTAAAAAAACGAC-C--AAG---A--A-CTTTAGCAGCGCTTTTATAAAAATCGCCGCTAT
1 TTTTAT-AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
52609047 AGACCTGTACTTTTAGCGGCGC
65 AGACCTGTACTTTTAGCGGCGC
* * * * *
52609069 TTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGGGCTTTTATAAAAAACGCC
1 TTTTAT-AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCC
52609129 TCTAATTTTC
Statistics
Matches: 263, Mismatches: 33, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
78 67 0.25
79 2 0.01
81 2 0.01
82 5 0.02
84 37 0.14
85 2 0.01
86 109 0.41
87 39 0.15
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (86 bp):
TTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATA
GACCTGTACTTTTAGCGGCGC
Found at i:52609066 original size:78 final size:78
Alignment explanation
Indices: 52608937--52609083 Score: 267
Period size: 78 Copynumber: 1.9 Consensus size: 78
52608927 GACCTGCACT
*
52608937 TTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACATGTACTTTTAGCGGCGCTTTTGTAAAAA
1 TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGACATGTACTTTTAGCGGCGCTTTTGTAAAAA
52609002 AACGACCAAGAAC
66 AACGACCAAGAAC
* *
52609015 TTTAGCAGCGCTTTTATAAAAATCGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAA
1 TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGACATGTACTTTTAGCGGCGCTTTTGTAAAAA
52609080 AACG
66 AACG
52609084 CCGCTATAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (78 bp):
TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGACATGTACTTTTAGCGGCGCTTTTGTAAAAA
AACGACCAAGAAC
Found at i:52609095 original size:44 final size:43
Alignment explanation
Indices: 52609005--52609128 Score: 169
Period size: 44 Copynumber: 2.9 Consensus size: 43
52608995 GTAAAAAAAC
* *
52609005 GACCAAGAACTTTAGCAGCGCTTTTATAAAAATCGCCGCTATA
1 GACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTATA
* * *
52609048 GACC-TGTACTTTTAGCGGCGCTTTTGTAAAAAAACGCCGCTATA
1 GACCAAGAAC-TTTAGCGGCGCTTTTAT-AAAAAACGCCGCTATA
*
52609092 GACCAAGAACTTTAGCGGGGCTTTTATAAAAAACGCC
1 GACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCC
52609129 TCTAATTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.04
43 29 0.42
44 34 0.49
45 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
GACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTATA
Found at i:52609457 original size:21 final size:21
Alignment explanation
Indices: 52609433--52609473 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
52609423 GGTTCTGCTC
52609433 CGCCTCCCTCGCTGCTGCCTT
1 CGCCTCCCTCGCTGCTGCCTT
52609454 CGCCTCCCTCGCTGCTGCCT
1 CGCCTCCCTCGCTGCTGCCT
52609474 CCGCTCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
CGCCTCCCTCGCTGCTGCCTT
Found at i:52610065 original size:18 final size:18
Alignment explanation
Indices: 52610033--52610070 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
52610023 TACAATATAG
52610033 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
52610052 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
52610069 TA
1 TA
52610071 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:52617496 original size:133 final size:133
Alignment explanation
Indices: 52617258--52617509 Score: 477
Period size: 133 Copynumber: 1.9 Consensus size: 133
52617248 GAATTCAACA
52617258 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
*
52617323 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAAAACATCTAAATAACCAAAATATAACAATTTT
52617388 ATT
131 ATT
* *
52617391 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACATTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
52617456 TAAGTTGGATAGAAACATGAAAACAGACCAAAAAAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAAAACATCTAAATAACCAAAAT
52617510 GGAATCACCA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 116 1.00
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (133 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAAAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:52620131 original size:15 final size:15
Alignment explanation
Indices: 52620111--52620142 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52620101 AAATAATAAT
*
52620111 TTATATATATTTATC
1 TTATATACATTTATC
52620126 TTATATACATTTATC
1 TTATATACATTTATC
52620141 TT
1 TT
52620143 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:52621016 original size:14 final size:14
Alignment explanation
Indices: 52620997--52621036 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52620987 ATTAAACCTG
* *
52620997 CTTAAACCATATAT
1 CTTAAACCATAAAC
52621011 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
52621025 CTTAAACTATAA
1 CTTAAACCATAA
52621037 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:52622902 original size:28 final size:29
Alignment explanation
Indices: 52622871--52622943 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
52622861 GTTGTGAGAT
*
52622871 TGGCACTAAGTGTGCG-GCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
52622899 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
52622928 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52622944 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:52628592 original size:29 final size:29
Alignment explanation
Indices: 52628557--52628630 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
52628547 GTTGTGAGAT
* *
52628557 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
52628586 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
52628615 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52628631 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:52630298 original size:40 final size:41
Alignment explanation
Indices: 52630236--52630318 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
52630226 GGGTGTTACA
* **
52630236 GTTTTACCTAAAGCACCGCTAATGCTCTAG-TTTTAGCGGC
1 GTTTTACCGAAAGCACAACTAATGCTCTAGTTTTTAGCGGC
* *
52630276 GTTTTACCGAAAGCGCAACTAATGCTCTGGTTTTTAGCGGC
1 GTTTTACCGAAAGCACAACTAATGCTCTAGTTTTTAGCGGC
52630317 GT
1 GT
52630319 GTAACACCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 25 0.68
41 12 0.32
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (41 bp):
GTTTTACCGAAAGCACAACTAATGCTCTAGTTTTTAGCGGC
Found at i:52630792 original size:19 final size:19
Alignment explanation
Indices: 52630756--52630794 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52630746 TTTTCATCAT
* *
52630756 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
52630775 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
52630794 A
1 A
52630795 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:52631297 original size:55 final size:56
Alignment explanation
Indices: 52631232--52631346 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
52631222 AGCATGGCTG
* * *
52631232 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
52631288 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
52631343 CCAG
1 CCAG
52631347 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:52631343 original size:28 final size:27
Alignment explanation
Indices: 52631257--52631346 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
52631247 GTGACAGAGT
*
52631257 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
52631286 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
52631313 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
52631341 CACCAG
1 CACCAG
52631347 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:52631486 original size:25 final size:28
Alignment explanation
Indices: 52631452--52631513 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
52631442 AAATTAACCC
*
52631452 TAGGGGTAT-A-GGTCA-TTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
52631477 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
52631505 TAGGGGTAT
1 TAGGGGTAT
52631514 CTAGTAATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 9 0.27
26 1 0.03
27 4 0.12
28 19 0.58
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:52631520 original size:27 final size:28
Alignment explanation
Indices: 52631467--52631521 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
52631457 GTATAGGTCA
*
52631467 TTTGCATACATAGGGGTATAATGGTAAT
1 TTTGCATACATAGGGGTATAATAGTAAT
*
52631495 TTTGCATACATAGGGGTAT-CTAGTAAT
1 TTTGCATACATAGGGGTATAATAGTAAT
52631522 CTAACTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (28 bp):
TTTGCATACATAGGGGTATAATAGTAAT
Found at i:52637756 original size:48 final size:48
Alignment explanation
Indices: 52637685--52638262 Score: 917
Period size: 48 Copynumber: 12.0 Consensus size: 48
52637675 TACAAGATAA
* * *
52637685 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52637733 ATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52637781 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52637829 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
52637877 ATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAACTATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52637925 ATATGTATAAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52637973 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52638021 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52638069 ATA--TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
52638115 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52638163 ATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
52638213 ATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52638261 AT
1 AT
52638263 GTGTGTATAT
Statistics
Matches: 488, Mismatches: 38, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
46 44 0.09
48 400 0.82
50 44 0.09
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52638447 original size:37 final size:37
Alignment explanation
Indices: 52638392--52638542 Score: 250
Period size: 37 Copynumber: 4.1 Consensus size: 37
52638382 ACATGAAACT
52638392 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAGAT-TATGTCCGGGTAAGACCCGATGACTACGTG
*
52638429 TGGAGATTATGTCTGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
52638466 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* * *
52638503 TGGAGATTTTGTCCAGGTAAGACCCGATAACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
52638540 TGG
1 TGG
52638543 GGACTATTCG
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 3 0.03
37 105 0.97
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:52642992 original size:19 final size:19
Alignment explanation
Indices: 52642956--52642994 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52642946 TTTTCATCAT
* *
52642956 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
52642975 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
52642994 A
1 A
52642995 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:52643544 original size:28 final size:27
Alignment explanation
Indices: 52643458--52643544 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
52643448 GTGATAGAGT
*
52643458 CACCAGATACAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATAATTTGTGGCAA-GC
* ** *
52643487 CACCAAAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
52643514 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
52643542 CAC
1 CAC
52643545 TAGGACGCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
27 21 0.46
28 19 0.41
29 6 0.13
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCAAGC
Found at i:52643700 original size:28 final size:28
Alignment explanation
Indices: 52643653--52643716 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
52643643 AAATTAACCC
*
52643653 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
52643681 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
52643709 TAGGGGTA
1 TAGGGGTA
52643717 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:52645463 original size:40 final size:40
Alignment explanation
Indices: 52645416--52645628 Score: 255
Period size: 41 Copynumber: 5.2 Consensus size: 40
52645406 GGCCGTTACA
* * * *
52645416 CGGCGTTTTACCGAAAGCGCCACTAAGGCCCTATTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAG
* ** * *
52645456 CTGCGTTTTATAGAAAGCACCACTAATGCTCTGGTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAG
* * *
52645497 CGGCGTTATACCTAAAGTGCCGCTAATGCTCTTGTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTC-TGTTTTTAG
* *
52645538 CGGCGTTTTACTGAAAGCGCTGCTAATGCTCTGGTTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAG
* *
52645579 TGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAG
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAG
52645619 CGGCGTTTTA
1 CGGCGTTTTA
52645629 GTGAAAAATG
Statistics
Matches: 145, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
40 43 0.30
41 101 0.70
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAG
Found at i:52645601 original size:82 final size:80
Alignment explanation
Indices: 52645416--52645634 Score: 294
Period size: 82 Copynumber: 2.7 Consensus size: 80
52645406 GGCCGTTACA
* * * *
52645416 CGGCGTTTTACCGAAAGCGCCACTAAGGCCCTATTTTTAGCTGCGTTTTATAGAAAGCACCACTA
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTAT-GAAAGCACCACTA
52645481 ATGCTCTGGTTTTTAG
65 ATGCTCTGGTTTTTAG
* * * * * **
52645497 CGGCGTTATACCTAAAGTGCCGCTAATGCTCTTGTTTTTAGCGGCGTTTTACTGAAAGCGCTGCT
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTC-TATTTTTAGCGGCGTTTTA-TGAAAGCACCACT
52645562 AATGCTCTGGTTTTTAG
64 AATGCTCTGGTTTTTAG
*
52645579 TGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTAGTGAAA
1 CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTA-TGAAA
52645635 AATGCCACTG
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 48 0.40
82 70 0.59
83 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (80 bp):
CGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTATGAAAGCACCACTAA
TGCTCTGGTTTTTAG
Found at i:52650353 original size:40 final size:40
Alignment explanation
Indices: 52650298--52650461 Score: 249
Period size: 40 Copynumber: 4.1 Consensus size: 40
52650288 CAGATGATAA
* *
52650298 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52650338 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52650378 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
52650418 CCGGGCTACGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
52650458 CCGG
1 CCGG
52650462 TTAAACTCCG
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.02
40 113 0.98
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52657998 original size:7 final size:7
Alignment explanation
Indices: 52657982--52658019 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
52657972 ATATTTTGTC
52657982 ACCCTAA
1 ACCCTAA
*
52657989 ACCTTAA
1 ACCCTAA
52657996 ACCCTAA
1 ACCCTAA
52658003 ACCCTAA
1 ACCCTAA
52658010 ACCCTAA
1 ACCCTAA
52658017 ACC
1 ACC
52658020 ACAAAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:52662371 original size:40 final size:40
Alignment explanation
Indices: 52662287--52662380 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
52662277 GACTATGTTC
**
52662287 GGCACTAAGTGTGCGGTTCGAAATAGCTTTGGCTACAAAT
1 GGCACTAAGTGTGCGGTTCGAAATAGCTTCAGCTACAAAT
* * *
52662327 GGCACTAAGTGTGCGAGTT-GGAATAGCTTCAGCTATATGA-
1 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCAGCTACA-AAT
52662367 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
52662381 AATACCGAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 43 0.91
41 4 0.09
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTCGAAATAGCTTCAGCTACAAAT
Found at i:52671800 original size:15 final size:14
Alignment explanation
Indices: 52671763--52671822 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
52671753 GTATCATATC
52671763 TTGGGTTTCTTTACT
1 TTGGGTTTCTTTA-T
* *
52671778 CTGAGTTTCTTTAT
1 TTGGGTTTCTTTAT
*
52671792 ATTGGGTTTCTCTAT
1 -TTGGGTTTCTTTAT
*
52671807 CTTGGATTTCTTTAT
1 -TTGGGTTTCTTTAT
52671822 T
1 T
52671823 CGATTTTCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 2 0.06
15 34 0.94
ACGTcount: A:0.12, C:0.13, G:0.17, T:0.58
Consensus pattern (14 bp):
TTGGGTTTCTTTAT
Found at i:52674086 original size:48 final size:49
Alignment explanation
Indices: 52673967--52674139 Score: 249
Period size: 49 Copynumber: 3.5 Consensus size: 49
52673957 TGAGGTCGCA
**
52673967 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACG
* *
52674017 TGTGTAGTACTAAGTGCAGGCTACTACGTG-ATCGGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACG
* * * *
52674065 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACG
*
52674114 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
52674140 TGCGTACCAG
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
48 35 0.32
49 45 0.41
50 30 0.27
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACG
Found at i:52674123 original size:49 final size:49
Alignment explanation
Indices: 52673960--52674152 Score: 244
Period size: 49 Copynumber: 3.9 Consensus size: 49
52673950 TCTATTGTGA
* * **
52673960 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
52674009 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-ATCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** *
52674058 GGTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
52674107 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
52674153 GCTTTGGCTA
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
48 35 0.28
49 56 0.44
50 35 0.28
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:52676881 original size:41 final size:41
Alignment explanation
Indices: 52676823--52676900 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
52676813 ATAGTATGAT
*
52676823 ATTACAAGTATATCAAAAACAACCATTACTAGCCATTTGAC
1 ATTACAAGTATACCAAAAACAACCATTACTAGCCATTTGAC
52676864 ATTACAAGTATACCAAAAACAACCATTACTAGCCATT
1 ATTACAAGTATACCAAAAACAACCATTACTAGCCATT
52676901 CTAATGGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (41 bp):
ATTACAAGTATACCAAAAACAACCATTACTAGCCATTTGAC
Found at i:52685380 original size:38 final size:38
Alignment explanation
Indices: 52685288--52685390 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
52685278 GGCTTAACGA
** *
52685288 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
52685326 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
52685364 CCCGCAGGCCTAGTGCTAGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
52685391 TCAGGCCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:52685442 original size:43 final size:43
Alignment explanation
Indices: 52685388--52685499 Score: 199
Period size: 43 Copynumber: 2.6 Consensus size: 43
52685378 GCTAGTATTA
*
52685388 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTG-CTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTC-GGTGATGTG
52685431 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
52685474 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
52685500 GTAATGCCGG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
43 66 0.99
44 1 0.01
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
Found at i:52690894 original size:38 final size:38
Alignment explanation
Indices: 52690802--52690909 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
52690792 AGCTTAAAGA
* ** *
52690802 CCCGCAGGCTTCGTACTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
52690840 CCCGCAAGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
52690878 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
52690910 CCTTTATGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:52690963 original size:43 final size:41
Alignment explanation
Indices: 52690847--52690977 Score: 133
Period size: 43 Copynumber: 3.2 Consensus size: 41
52690837 AATCCCGCAA
* * ** *
52690847 GCTTCGTGCTGGTATTATATCCGGG-ATAAAT-CC-CGCAG
1 GCTTCGTGCTGGTATTATATTCGGGCCTTCATGCCTAGCAG
* * *
52690885 GCCTAGTGCTGGTATTATATTCGGGCCTTTATGCCTAGCAG
1 GCTTCGTGCTGGTATTATATTCGGGCCTTCATGCCTAGCAG
* *
52690926 GCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAG
1 GCTTCGTGCTGGT-AT-TATATTCGGGCCTTCATGCCTAGCAG
52690969 GCTTCGTGC
1 GCTTCGTGC
52690978 CTAGCAGGCG
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 22 0.29
39 3 0.04
40 2 0.03
41 15 0.20
42 2 0.03
43 32 0.42
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.32
Consensus pattern (41 bp):
GCTTCGTGCTGGTATTATATTCGGGCCTTCATGCCTAGCAG
Found at i:52690975 original size:16 final size:16
Alignment explanation
Indices: 52690954--52690986 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52690944 GTATTCGGGC
52690954 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
52690970 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
52690986 C
1 C
52690987 GTAATGCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:52702475 original size:46 final size:45
Alignment explanation
Indices: 52702425--52702600 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
52702415 TGGTTGAGCA
52702425 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
*** * *
52702470 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAT
*
52702518 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
* * *
52702564 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52702601 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
Found at i:52702581 original size:93 final size:93
Alignment explanation
Indices: 52702422--52702592 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
52702412 GGATGGTTGA
* *
52702422 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
52702487 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
52702515 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCATTGAG
52702579 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
52702593 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:52715652 original size:39 final size:39
Alignment explanation
Indices: 52715589--52715864 Score: 408
Period size: 39 Copynumber: 7.1 Consensus size: 39
52715579 AATTTTATTA
*
52715589 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* *
52715628 CCAGCACGAAGCCTACGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * * *
52715667 CCAGCACGAAGCCTGCTGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* *
52715706 CCAGCCCAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
52715745 CCAGCACAAAGCCTGCGAGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * **
52715784 CCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATATGTTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* *
52715823 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGAATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
52715862 CCA
1 CCA
52715865 TACACATTTC
Statistics
Matches: 212, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 212 1.00
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
Found at i:52715795 original size:117 final size:117
Alignment explanation
Indices: 52715584--52715864 Score: 472
Period size: 117 Copynumber: 2.4 Consensus size: 117
52715574 CCCGAAATTT
* * *
52715584 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGAGTC
*
52715649 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCTGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
* *
52715701 TATTTCCAGCCCAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGAGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGAGTC
52715766 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
* * * *
52715818 TGTTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGAATATATTTCCA
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
52715865 TACACATTTC
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 153 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (117 bp):
TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGAGTC
TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
Found at i:52731610 original size:47 final size:47
Alignment explanation
Indices: 52731556--52731861 Score: 513
Period size: 47 Copynumber: 6.5 Consensus size: 47
52731546 TATTTGAATA
52731556 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52731603 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52731650 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52731697 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52731744 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
52731791 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTTATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52731838 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
52731862 GAGTCCCGAA
Statistics
Matches: 245, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 245 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:52735101 original size:25 final size:25
Alignment explanation
Indices: 52735025--52735104 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
52735015 TACCAATTGC
52735025 AGCTCGTGAGAGCTTACCGATTC-T
1 AGCTCGTGAGAGCTTACCGATTCAT
* *
52735049 CAGCTCAT-ATGAGCTTACCGATTTAT
1 -AGCTCGTGA-GAGCTTACCGATTCAT
* *
52735075 AGCTCGTGAAAGCATACCGATTCAT
1 AGCTCGTGAGAGCTTACCGATTCAT
52735100 AGCTC
1 AGCTC
52735105 TTATAAGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
24 1 0.02
25 43 0.93
26 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCTCGTGAGAGCTTACCGATTCAT
Found at i:52735112 original size:25 final size:25
Alignment explanation
Indices: 52735039--52735116 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
52735029 CGTGAGAGCT
* * *
52735039 TACCGATTC-TCAGCTCATATGAGCT
1 TACCGATTCAT-AGCTCTTATAAGCA
* *
52735064 TACCGATTTATAGCTCGTGA-AAGCA
1 TACCGATTCATAGCTC-TTATAAGCA
52735089 TACCGATTCATAGCTCTTATAAGCA
1 TACCGATTCATAGCTCTTATAAGCA
52735114 TAC
1 TAC
52735117 ATGTACAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 2 0.05
25 39 0.91
26 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (25 bp):
TACCGATTCATAGCTCTTATAAGCA
Found at i:52738717 original size:30 final size:30
Alignment explanation
Indices: 52738678--52738739 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
52738668 GCTGTTACAT
52738678 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
52738709 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
52738738 AC
1 AC
52738740 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:52754553 original size:15 final size:15
Alignment explanation
Indices: 52754533--52754562 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
52754523 AATTTGAGTT
52754533 CTTTTAACTTTGAGC
1 CTTTTAACTTTGAGC
52754548 CTTTTAACTTTGAGC
1 CTTTTAACTTTGAGC
52754563 ATTCGACCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
CTTTTAACTTTGAGC
Found at i:52756823 original size:33 final size:33
Alignment explanation
Indices: 52756781--52756849 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
52756771 CAGAAAGGAG
52756781 CCATAATTACCACAACGTCAATCAGTCAACAAC
1 CCATAATTACCACAACGTCAATCAGTCAACAAC
52756814 CCATAATTACCACAACGTCAATCAGTCAACAAC
1 CCATAATTACCACAACGTCAATCAGTCAACAAC
52756847 CCA
1 CCA
52756850 CCAATTAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.42, C:0.35, G:0.06, T:0.17
Consensus pattern (33 bp):
CCATAATTACCACAACGTCAATCAGTCAACAAC
Found at i:52764526 original size:40 final size:41
Alignment explanation
Indices: 52764467--52764698 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 41
52764457 CATTTGAATG
* * * *
52764467 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
52764507 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
52764547 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
52764587 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
52764627 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
52764667 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
52764699 TTGTGGTTAT
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.01
40 159 0.96
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:52764681 original size:120 final size:119
Alignment explanation
Indices: 52764467--52764718 Score: 344
Period size: 120 Copynumber: 2.1 Consensus size: 119
52764457 CATTTGAATG
* * *
52764467 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
52764532 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
52764587 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCTGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * * *
52764651 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
64 ATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
52764707 ATATCCGGCTAA
1 ATATCCGGCTAA
52764719 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
119 6 0.05
120 106 0.92
121 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (119 bp):
ATATCCGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:52764711 original size:80 final size:80
Alignment explanation
Indices: 52764467--52764698 Score: 349
Period size: 80 Copynumber: 2.9 Consensus size: 80
52764457 CATTTGAATG
* * *
52764467 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
52764532 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
52764547 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
52764612 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
52764627 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
52764691 ATTTGTGC
65 ATTTGTGC
52764699 TTGTGGTTAT
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 135 0.98
81 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:52768896 original size:47 final size:47
Alignment explanation
Indices: 52768698--52768963 Score: 176
Period size: 47 Copynumber: 5.7 Consensus size: 47
52768688 GGATAAATTA
* * * *
52768698 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGT-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACACTCATCTCT--GTAG
* * * *
52768748 CTGATGCATGTCCAAGATATGTCTTACACT-AGCAC-AAT-TCT-TAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGA-CACTCATCTCTGTAG
* * *
52768792 CCGATGCGTGTCCCAGACACGTCTTACACTG--GCT-ATCTCTGTCGAAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGACACTCATCTCTGT---AG
*
52768839 CCGATGCATGTCCCAGACATGTCTTACTCTGACACTCATCTCTGT-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGACACTCATCTCTGTAG
* * ** *
52768885 CCGATGCCATGTCCCAGACATTGTCTTACA-TTAGCTCTCAT-AATGTGG
1 CCGATG-CATGTCCCAGACA-TGTCTTACACTGA-CACTCATCTCTGTAG
* * *
52768933 CTGAAGCATGTCCCAGACAGGTCTTACACTG
1 CCGATGCATGTCCCAGACATGTCTTACACTG
52768964 GCGCACAACT
Statistics
Matches: 173, Mismatches: 26, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
42 3 0.02
43 4 0.02
44 27 0.16
46 17 0.10
47 64 0.37
48 31 0.18
49 14 0.08
50 13 0.08
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACACTCATCTCTGTAG
Found at i:52768942 original size:94 final size:93
Alignment explanation
Indices: 52768698--52768962 Score: 274
Period size: 94 Copynumber: 2.8 Consensus size: 93
52768688 GGATAAATTA
* * * *
52768698 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGCATGTCCAA
1 CCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATA-ATGTGAGCTGATGCATGTCCCA
*
52768763 GATATGTCTTACACTAGCACAATTCTTAG
65 GACATGTCTTACACTAGCACAATTCTTAG
* * * *
52768792 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-T-CTGTCGAAGCCGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATAATGT-G-AGCTGATGCATGTCCC
* *
52768853 AGACATGTCTTACTCT-GACACTCATCTCTGT-G
64 AGACATGTCTTACACTAG-CAC-AAT-TCT-TAG
* * * *
52768885 CCGATGCCATGTCCCAGACATTGTCTTACATTAGCTCTCATAATGTG-GCTGAAGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATAATGTGAGCTGATGCATGTCCCAG
*
52768949 ACAGGTCTTACACT
66 ACATGTCTTACACT
52768963 GGCGCACAAC
Statistics
Matches: 140, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
89 2 0.01
90 2 0.01
91 31 0.22
92 18 0.13
93 22 0.16
94 46 0.33
95 14 0.10
96 2 0.01
97 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATAATGTGAGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACAATTCTTAG
Found at i:52772884 original size:28 final size:28
Alignment explanation
Indices: 52772850--52772933 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
52772840 GTGAGCAGCC
*
52772850 CAAATATCATAGCTTGTGTGATCAAATT
1 CAAATATCATAGCTTGTGTGAGCAAATT
*
52772878 CAAATATCATAGCATGTGTGAGCAAATT
1 CAAATATCATAGCTTGTGTGAGCAAATT
* *
52772906 CAAATATTACAGCTTGTGTGAGCAAATT
1 CAAATATCATAGCTTGTGTGAGCAAATT
52772934 GAATAATTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (28 bp):
CAAATATCATAGCTTGTGTGAGCAAATT
Found at i:52774781 original size:40 final size:40
Alignment explanation
Indices: 52774692--52774989 Score: 265
Period size: 40 Copynumber: 7.5 Consensus size: 40
52774682 AATTATTTAA
* * * * *
52774692 TGATTTCACATACGTGCTCCTCTTTATACTT-TGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * *
52774731 TGATTGCACATATGTGCCCCTATTTGTACTTCGGTATCCA
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** * *
52774771 TGATTGCACATATGTGCCCCTGGTTGTACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*** * *
52774811 TGATTGCACATACGTGCTTTTATTTGTACTTCGGCAACCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
52774851 TGATTGCACATATGTGCCTCTGTTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** * *
52774891 TGAATGCACATACGTGTTCCTATTTTTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** * * * *
52774931 TGAATGCTTATACGTGCCCCTGTTTGTACTTTGGTACTCA
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
52774971 TGATTGCACTTCCGTGCCC
1 TGATTGCACATACGTGCCC
52774990 TAGTTATACT
Statistics
Matches: 206, Mismatches: 52, Indels: 1
0.80 0.20 0.00
Matches are distributed among these distances:
39 26 0.13
40 180 0.87
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:52774835 original size:80 final size:80
Alignment explanation
Indices: 52774692--52774979 Score: 301
Period size: 80 Copynumber: 3.6 Consensus size: 80
52774682 AATTATTTAA
* * * * * * * **
52774692 TGATTTCACATACGTGCTCCTCTTTATACTTTG-TACCCCTGATTGCACATATGTGCCCCTATTT
1 TGATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCTTCTATTT
* *
52774756 GTACTTCGGTATCCA
66 GTACTTCGGTAACCC
* * *
52774771 TGATTGCACATATGTGCCCCTGGTTGTACTTCGATACCCTTGATTGCACATACGTGCTTTTATTT
1 TGATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCTTCTATTT
*
52774836 GTACTTCGGCAACCC
66 GTACTTCGGTAACCC
* *
52774851 TGATTGCACATATGTGCCTCTGTTTGTACTTCGATACCCCTGAATGCACATACGTG-TTCCTATT
1 TGATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCTT-CTATT
* * *
52774915 TTTACTTTGGTACCCC
65 TGTACTTCGGTAACCC
* ** * * * * *
52774931 TGAATGCTTATACGTGCCCCTGTTTGTACTTTGGTACTCATGATTGCAC
1 TGATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCAC
52774980 TTCCGTGCCC
Statistics
Matches: 173, Mismatches: 34, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
79 28 0.16
80 145 0.84
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (80 bp):
TGATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCTTCTATTT
GTACTTCGGTAACCC
Found at i:52776458 original size:20 final size:20
Alignment explanation
Indices: 52776433--52776474 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
52776423 TGACATGTTC
*
52776433 TATAAGTTGTTAGATTATCT
1 TATAAGTTGTTAGATTACCT
52776453 TATAAGTTGTTAGATTACCT
1 TATAAGTTGTTAGATTACCT
52776473 TA
1 TA
52776475 AAATGGTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (20 bp):
TATAAGTTGTTAGATTACCT
Found at i:52782225 original size:132 final size:133
Alignment explanation
Indices: 52782063--52782326 Score: 370
Period size: 134 Copynumber: 2.0 Consensus size: 133
52782053 AGAAACTTCA
* ***
52782063 GAAGACTATGTTATGACAAAGATTATATCCTTTAACAAAG-ATCCATTTTTACTTTGTTTTCAGA
1 GAAGACTATGCTATGACAAAGATTATATCCTTTAACAAAGAATCCATTTTTACTTTGAGCTCAGA
* * * *
52782127 GTCTTAAACTTTTCCAAATGCTGAAAACTTCTTTTTATGTAACTTCTGTGTTTATCTAGAATGTG
66 ATCTCAAACTCTTCCAAATGCTGAAAACTTCTTCTTATGTAACTTCTGTGTTTATCTAGAATGTG
52782192 TTT
131 TTT
* *
52782195 GAAGACTATGCTATGGA-AAAGATTATATCCTTTAGCAAAGATATTCATTTTTACTTTGAGCTCA
1 GAAGACTATGCTAT-GACAAAGATTATATCCTTTAACAAAGA-ATCCATTTTTACTTTGAGCTCA
* * * *
52782259 GAATCTCAAACTCTTCCAAATGCTGGAAACTTCTTCTTCTGTTACTTTTGTGTTTATCTAGAATG
64 GAATCTCAAACTCTTCCAAATGCTGAAAACTTCTTCTTATGTAACTTCTGTGTTTATCTAGAATG
52782324 TGT
129 TGT
52782327 CCGATACTCA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 35 0.30
133 2 0.02
134 78 0.68
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (133 bp):
GAAGACTATGCTATGACAAAGATTATATCCTTTAACAAAGAATCCATTTTTACTTTGAGCTCAGA
ATCTCAAACTCTTCCAAATGCTGAAAACTTCTTCTTATGTAACTTCTGTGTTTATCTAGAATGTG
TTT
Done.