Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 151 of 185
Found at i:46605216 original size:20 final size:20
Alignment explanation
Indices: 46605193--46605231 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46605183 AATTAAATCA
46605193 GTTTTCTATAAATTCAATTC
1 GTTTTCTATAAATTCAATTC
*
46605213 GTTTTCTGTAAATTCAATT
1 GTTTTCTATAAATTCAATT
46605232 GATCGGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
GTTTTCTATAAATTCAATTC
Found at i:46607100 original size:102 final size:101
Alignment explanation
Indices: 46606964--46607371 Score: 409
Period size: 102 Copynumber: 4.0 Consensus size: 101
46606954 AGGAAAAATT
*
46606964 AAAAATTACCTGGTGCCACCACATCTAGAGTATGGACCAGGAAAAAAGAATTTTACTCATTCTGG
1 AAAAATTA-CTGGTGCCACCACATCTGGAGTATGGACCAGGAAAAAAGAATTTTACTCATTCTGG
46607029 TGACTCCACATTGAAGTGGCAGGACCGAAAAATTAAA
65 TGACTCCACATTGAAGTGGCAGGACCGAAAAATTAAA
46607066 AAAAATTACCTGGTGCCACCACATCTGGAGTATGGACCAGGAAAAAAGAATTTTACTCATTCTGG
1 AAAAATTA-CTGGTGCCACCACATCTGGAGTATGGACCAGGAAAAAAGAATTTTACTCATTCTGG
*
46607131 TGACTCCACATTGAAGTGGCGGGACCGAAAAATTAAA
65 TGACTCCACATTGAAGTGGCAGGACCGAAAAATTAAA
* * * * * * ** *** * *
46607168 AAAAAATATTGGTGCCGCCATATCTGGAGAAAGGACCAGGGAAATTTTATTTTTTTACT-GTTTT
1 AAAAATTACTGGTGCCACCACATCTGGAGTATGGACCA-GGAAA--AAAGAATTTTACTCATTCT
*** * * *
46607232 GGTGACT--TTGTGTGAAGTGGTAGCACTGAAAAATTTAAA
63 GGTGACTCCACAT-TGAAGTGGCAGGACCGAAAAA-TTAAA
* * * *** * *
46607271 AAAAA-TACTAGTGTCACCACATCTGGAGTAGGGACCA-G--AAAATTTTTTTATTCATTTTGGT
1 AAAAATTACTGGTGCCACCACATCTGGAGTATGGACCAGGAAAAAAGAATTTTACTCATTCTGGT
* * *
46607332 GACTCCATA-TGAAATGGCGGGACCGAAAAATTAAA
66 GACTCCACATTGAAGTGGCAGGACCGAAAAATTAAA
46607367 AAAAA
1 AAAAA
46607372 ACTTATTAGT
Statistics
Matches: 258, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
96 20 0.08
97 27 0.10
98 1 0.00
99 1 0.00
100 1 0.00
101 26 0.10
102 154 0.60
103 20 0.08
104 8 0.03
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (101 bp):
AAAAATTACTGGTGCCACCACATCTGGAGTATGGACCAGGAAAAAAGAATTTTACTCATTCTGGT
GACTCCACATTGAAGTGGCAGGACCGAAAAATTAAA
Found at i:46608926 original size:96 final size:97
Alignment explanation
Indices: 46608616--46608931 Score: 274
Period size: 101 Copynumber: 3.2 Consensus size: 97
46608606 AGCGACACCT
* * **
46608616 AAAAATTAAAAAAAAATTTACCTGGTGCCACCACATCTGGAGTATGAACCAGGAAAAAAGAATTT
1 AAAAATT-AAAAAAAA--TA-CTGGTGCCACCACATCTGGAGTAAGGACCAGG-AAAAA-TTTTT
* * * * * *
46608681 TACTGATTCTGGTGTCTCCACATTGAAGTGGCGGGACGG
60 TATTCATTTTGGTGACTCCATA-TGAAGTGGCGGGACCG
* * * ** ** *
46608720 AAAAATTAAAAAAAATATTGGTGCCGCCATATCTGGACAAAGGACCAGGGAAATTTTATTTTTTT
1 AAAAATTAAAAAAAATACTGGTGCCACCACATCTGGAGTAAGGACCA-GGAAAAATT-TTTTATT
*** * * * *
46608785 ACTATTTTGGTGACTTTGTGTGAAGTGGCAGCACTG
64 -C-ATTTTGGTGACTCCATATGAAGTGGCGGGACCG
* * *
46608821 AAAAATTAAAAAAAATACTAGTGTCACCACATCTGGAGTAGGGACCA-GAAAAATTTTTTATTCA
1 AAAAATTAAAAAAAATACTGGTGCCACCACATCTGGAGTAAGGACCAGGAAAAATTTTTTATTCA
46608885 TTTTGGTGACTCCATATGAAGTGGCGGGACCG
66 TTTTGGTGACTCCATATGAAGTGGCGGGACCG
46608917 AAAAATTAAAAAAAA
1 AAAAATTAAAAAAAA
46608932 CTTATTAGTG
Statistics
Matches: 166, Mismatches: 42, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
96 41 0.25
97 1 0.01
98 6 0.04
99 6 0.04
100 31 0.19
101 56 0.34
102 10 0.06
103 8 0.05
104 7 0.04
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (97 bp):
AAAAATTAAAAAAAATACTGGTGCCACCACATCTGGAGTAAGGACCAGGAAAAATTTTTTATTCA
TTTTGGTGACTCCATATGAAGTGGCGGGACCG
Found at i:46610157 original size:983 final size:981
Alignment explanation
Indices: 46608603--46610519 Score: 3328
Period size: 983 Copynumber: 2.0 Consensus size: 981
46608593 CACCACATTT
46608603 ACAAGCGACACCTAAAAATTAAAAAAAAATTTACCTGGTGCCACCACATCTGGAGTATGAACCAG
1 ACAAGCGACACCTAAAAATTAAAAAAAAATTTACCTGGTGCCACCACATCTGGAGTATGAACCAG
46608668 GAAAAAAGAATTTTACTGATTCTGGTGTCTCCACATTGAAGTGGCGGGACGGAAAAATTAAAAAA
66 GAAAAAAGAATTTTACTGATTCTGGTGTCTCCACATTGAAGTGGCGGGACGGAAAAATTAAAAAA
46608733 AATATTGGTGCCGCCATATCTGGACAAAGGACCAGGGAAATTTTATTTTTTTACTATTTTGGTGA
131 AATATTGGTGCCGCCATATCTGGACAAAGGACCAGGGAAATTTTATTTTTTTACTATTTTGGTGA
* *
46608798 CTTTGTGTGAAGTGGCAGCACTGAAAAATTAAAAAAAATACTAGTGTCACCACATCTGGAGTAGG
196 CTTTGTGTGAAGTGGCAGCACTAAAAAATTAAAAAAAATACTAGTGCCACCACATCTGGAGTAGG
* *
46608863 GACCAGAAAAATTTTTTATTCATTTTGGTGACTCCATATGAAGTGGCGGGACCGAAAAATTAAAA
261 GACCAGAAAAATTTTTTATTCATTTTGGTGACTCCATATGAAGTGGCGAGACAGAAAAATTAAAA
**
46608928 AAAACTTATTAGTGTCGTCATATCTAGGGTAGGGACCAAGAGTTTCTTTTTAACTTTTTTAGTGA
326 AAAACTTATTAGTGTCGTCATATCTAGGGTAGGGACCAAGAGTTTCTTTTTAAAATTTTTAGTGA
46608993 CTCCATGTGAAGTGATGGCACCGAAAAATTTTAAAAATGCGGCACCAACAAATATTTTCTTTTAT
391 CTCCATGTGAAGTGATGGCACCGAAAAATTTTAAAAATGCGGCACCAACAAATATTTTCTTTTAT
*
46609058 TCCAATTTAGCGGCGCCACTTATAAGCATGCAACCAAAAATTTTTTTTTTATTCCAATTTGATGC
456 TCCAATTTAGCGGCGCCACTTATAAGCATGCAACC-AAAA-TTTTTTTTTATTACAATTTGATGC
*
46609123 CTCCATTAAAAGAGGTGGCACCAAAAATTAATTAAAAAATATTTTTTTTTACTCTGAGAATACCC
519 CTCCATTAAAAGAGGTGGCACCAAAAATTAATTAAAAAATATTTATTTTTACTCTGAGAATACCC
* *
46609188 GTGAAAATACAATATTTGAGAAAAGTTACACAAAAAAATTGATTTCTTTTCTTCTAATGATTGAA
584 GTGAAAATACAATATTTGAAAAAAGTTACACAAAAAAATTGATTTCTTTTCATCTAATGATTGAA
* * *
46609253 TTAATTATGAGACAATGATTAAAGGCATTTTTGCCGTCTTGGGAAGTGATAACACCCATTTTTAC
649 TTAATTATGAGACAACGATTAAAGGCATTTTTACCGCCTTGGGAAGTGATAACACCCATTTTTAC
***
46609318 TAAAAGTTTTAAGTTGTTTTCCTAAATAATCTGATACA-TGATTATTTTCGTGATTTTTTAATAA
714 TAAAAGTTTTAAGCCATTTTCCTAAATAATCTGATA-AGTGATTATTTTCGTGATTTTTTAATAA
46609382 TATAAGATTAATTTTCTAAAAATGCATGTCTTTCCTGTCTAACCCTCTCGGGA-AAATTACATAT
778 TATAAGATTAATTTTCTAAAAATGCATGTCTTTCCTGTCTAACCCTCT-GGGACAAATTACATAT
* * *
46609446 AAAAACCCATTTTTTTAAAAATTTACTAAAATGGGCCC-AGTATATAATTATTTATCGGAATGGC
842 AAAAACCCATTTTTTAAAAAATTTACTAAAATGGGCCCGA-TATATAATTATTTACCGGAATGAC
* * *
46609510 CCTATTTTCCCGAAAGCGCGTCCACGTTTGCCGACCCATGCTATGTGTTTTCAGCTCTGGTTGAT
906 CCTATTTCCCCAAAAGCGCGTCAACGTTTGCCGACCCATGCTATGTGTTTTCAGCTCTGGTTGAT
46609575 GGCCCTCTATA
971 GGCCCTCTATA
46609586 ACAAGCGACACCTAAAAATT-AAAAAAAATTTACCTGGTGCCACCACATCTGGAGTATGAACCAG
1 ACAAGCGACACCTAAAAATTAAAAAAAAATTTACCTGGTGCCACCACATCTGGAGTATGAACCAG
46609650 GAAAAAAGAATTTTACTGATTCTGGTGTCTCCACATTGAAGTGGCGGGACGGAAAAATTAAAAAA
66 GAAAAAAGAATTTTACTGATTCTGGTGTCTCCACATTGAAGTGGCGGGACGGAAAAATT-AAAAA
*
46609715 AAATATTGGTGCCGCCATATCTGGAGAAAGGACCAGGGAAATTTTATTTTTTTACTATTTTGGTG
130 AAATATTGGTGCCGCCATATCTGGACAAAGGACCAGGGAAATTTTATTTTTTTACTATTTTGGTG
*
46609780 ACTTTGTGTGAAGTGGCAGCACTAAAAAATTAAAAAAAATACTAGTGCCATCACATCTGGAGTAG
195 ACTTTGTGTGAAGTGGCAGCACTAAAAAATTAAAAAAAATACTAGTGCCACCACATCTGGAGTAG
*
46609845 GGACCA-AAAAATTTTTTTATTCATTTTGGTGACTCCATATGAAGTGGTGAGACAGAAAAATTAA
260 GGACCAGAAAAA-TTTTTTATTCATTTTGGTGACTCCATATGAAGTGGCGAGACAGAAAAATT--
*
46609909 AAAAAAAACTTATTGGTGTCGTCATATCTAGGGTAGGGACCAAGAGTTTC-TTTTAAAATTTTTA
322 AAAAAAAACTTATTAGTGTCGTCATATCTAGGGTAGGGACCAAGAGTTTCTTTTTAAAATTTTTA
46609973 GTGACTCCATGTGAAGTGATGGCACCGAAAAATTTTAAAAATGCGGCACCAACAAATATTTTCTT
387 GTGACTCCATGTGAAGTGATGGCACCGAAAAATTTTAAAAATGCGGCACCAACAAATATTTTCTT
* * *
46610038 TTATTCCAATTTGGCTGCGCCACTTATAAGCATGCAACC-AAA-TTTTTTTTATTACAATTTGGT
452 TTATTCCAATTTAGCGGCGCCACTTATAAGCATGCAACCAAAATTTTTTTTTATTACAATTTGAT
46610101 GCCTCCATTAAAAGAGGTGGCACCAAAAATTAATTAAAAATATATATATATTTTTACTCTGAGAA
517 GCCTCCATTAAAAGAGGTGGCACCAAAAATTAATTAAAAA-ATAT-T-TATTTTTACTCTGAGAA
*
46610166 TTCCCGTGAAAATACAATATTTGAAAAAAGTTACACAAAAAAATTGATTTCTTTTCATCTAATGA
579 TACCCGTGAAAATACAATATTTGAAAAAAGTTACACAAAAAAATTGATTTCTTTTCATCTAATGA
* *
46610231 TTGACTTAATTATGAGACAACGATTAAAGGCATTTTTACCGCCTTGGGAAGTGATTACACCCATT
644 TTGAATTAATTATGAGACAACGATTAAAGGCATTTTTACCGCCTTGGGAAGTGATAACACCCATT
*
46610296 TTTACTAAAAGTTTTAAGCCATTTTCCTAAATAATCTGATAAGTGATTATTTTTGTGATTTTTTA
709 TTTACTAAAAGTTTTAAGCCATTTTCCTAAATAATCTGATAAGTGATTATTTTCGTGATTTTTTA
* *
46610361 ATATTATAAGATTAATTTTCTAAAAATGCATGTCTTTCCTGTCTAACCCTCTTGGACAAATTACA
774 ATAATATAAGATTAATTTTCTAAAAATGCATGTCTTTCCTGTCTAACCCTCTGGGACAAATTACA
* * *
46610426 TATAAAAGCTCATTTTTTAAAAAATTTACTGAAATGGGCCCGATATATAATTATTTACCGGAATG
839 TATAAAAACCCATTTTTTAAAAAATTTACTAAAATGGGCCCGATATATAATTATTTACCGGAATG
46610491 ACCCTATTTCCCCAAAAGCGCGTCAACGT
904 ACCCTATTTCCCCAAAAGCGCGTCAACGT
46610520 CAACGCGATG
Statistics
Matches: 886, Mismatches: 38, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
980 59 0.07
981 4 0.00
982 116 0.13
983 543 0.61
984 115 0.13
985 49 0.06
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (981 bp):
ACAAGCGACACCTAAAAATTAAAAAAAAATTTACCTGGTGCCACCACATCTGGAGTATGAACCAG
GAAAAAAGAATTTTACTGATTCTGGTGTCTCCACATTGAAGTGGCGGGACGGAAAAATTAAAAAA
AATATTGGTGCCGCCATATCTGGACAAAGGACCAGGGAAATTTTATTTTTTTACTATTTTGGTGA
CTTTGTGTGAAGTGGCAGCACTAAAAAATTAAAAAAAATACTAGTGCCACCACATCTGGAGTAGG
GACCAGAAAAATTTTTTATTCATTTTGGTGACTCCATATGAAGTGGCGAGACAGAAAAATTAAAA
AAAACTTATTAGTGTCGTCATATCTAGGGTAGGGACCAAGAGTTTCTTTTTAAAATTTTTAGTGA
CTCCATGTGAAGTGATGGCACCGAAAAATTTTAAAAATGCGGCACCAACAAATATTTTCTTTTAT
TCCAATTTAGCGGCGCCACTTATAAGCATGCAACCAAAATTTTTTTTTATTACAATTTGATGCCT
CCATTAAAAGAGGTGGCACCAAAAATTAATTAAAAAATATTTATTTTTACTCTGAGAATACCCGT
GAAAATACAATATTTGAAAAAAGTTACACAAAAAAATTGATTTCTTTTCATCTAATGATTGAATT
AATTATGAGACAACGATTAAAGGCATTTTTACCGCCTTGGGAAGTGATAACACCCATTTTTACTA
AAAGTTTTAAGCCATTTTCCTAAATAATCTGATAAGTGATTATTTTCGTGATTTTTTAATAATAT
AAGATTAATTTTCTAAAAATGCATGTCTTTCCTGTCTAACCCTCTGGGACAAATTACATATAAAA
ACCCATTTTTTAAAAAATTTACTAAAATGGGCCCGATATATAATTATTTACCGGAATGACCCTAT
TTCCCCAAAAGCGCGTCAACGTTTGCCGACCCATGCTATGTGTTTTCAGCTCTGGTTGATGGCCC
TCTATA
Found at i:46610972 original size:96 final size:97
Alignment explanation
Indices: 46610872--46611054 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 97
46610862 AGGTTTAGGG
*
46610872 TTACTTGAGTAATTTAATTA-AAAGTTATTTA-AAAA-TCAAATAAGGGTTTAGAGTTAAGGGTT
1 TTACTTGAGTAAATTAATTATAAA-TT-TTTATAAAATTCAAATAAGGG-TTAGAGTTAAGGGTT
46610934 TTTAAGGAAAAA-TCAAATAAATTAGGGTGCAAGA
63 TTTAAGGAAAAACTCAAATAAATTAGGGTGCAAGA
** * * * *
46610968 TTACTTGAGTAAATTAATTATAAATTTTTATAAAATTTGATTAAGGGTTAGTGTTTAGTGTTTTT
1 TTACTTGAGTAAATTAATTATAAATTTTTATAAAATTCAAATAAGGGTTAGAGTTAAGGGTTTTT
*
46611033 AAGTAAAAACTCAAATAAATTA
66 AAGGAAAAACTCAAATAAATTA
46611055 AGGTTTGGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 4 0.05
96 48 0.64
97 23 0.31
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (97 bp):
TTACTTGAGTAAATTAATTATAAATTTTTATAAAATTCAAATAAGGGTTAGAGTTAAGGGTTTTT
AAGGAAAAACTCAAATAAATTAGGGTGCAAGA
Found at i:46611324 original size:126 final size:126
Alignment explanation
Indices: 46611099--46611641 Score: 825
Period size: 126 Copynumber: 4.3 Consensus size: 126
46611089 TTTTTAATTT
* * * * **
46611099 AAAGAAGCTTCCACGTGGACGCGCTTTAGTTGCAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
46611164 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTAATG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
46611225 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTAGAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
46611290 GTTTCTGAGCAAATAGTGTCAAAAACGTTTTAAGCGGGATACTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
46611351 AAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCCTCAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* * **
46611416 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGTTTTGTCAATAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
** * * *
46611477 AAAGAAGCTCTTACGTAGACGCGCTTTTGCTATAGTGGCTCCTGAAAAAATAATTTCTAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* ** *
46611542 ATTTCTGAGCAAATAGTGTCAAAAATACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
46611603 AAAGAAACTCCCACGTGGACGCGCTTTTGCTACAGTGGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGC
46611642 GCATGTTTGG
Statistics
Matches: 374, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 374 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:46617057 original size:12 final size:12
Alignment explanation
Indices: 46617040--46617070 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
46617030 AGAGGAATTT
46617040 GAGAGAATACTA
1 GAGAGAATACTA
46617052 GAGAGAATACTA
1 GAGAGAATACTA
46617064 GAGAGAA
1 GAGAGAA
46617071 ATTGAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.29, T:0.13
Consensus pattern (12 bp):
GAGAGAATACTA
Found at i:46617082 original size:10 final size:11
Alignment explanation
Indices: 46617021--46617081 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 11
46617011 TCTTTTAAAT
*
46617021 AGAAATTTGAG
1 AGAAACTTGAG
* *
46617032 AGGAATTTGAG
1 AGAAACTTGAG
*
46617043 AGAATACTAGAG
1 AGAA-ACTTGAG
*
46617055 AGAATACTAGAG
1 AGAA-ACTTGAG
46617067 AGAAA-TTGAG
1 AGAAACTTGAG
46617077 AGAAA
1 AGAAA
46617082 TGATTTAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
10 9 0.20
11 14 0.32
12 21 0.48
ACGTcount: A:0.49, C:0.03, G:0.28, T:0.20
Consensus pattern (11 bp):
AGAAACTTGAG
Found at i:46619076 original size:18 final size:18
Alignment explanation
Indices: 46619038--46619073 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46619028 TTATTATTTT
*
46619038 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
46619056 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
46619074 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:46624509 original size:6 final size:6
Alignment explanation
Indices: 46624498--46624522 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46624488 TTACAATAAT
46624498 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
46624523 TGAGATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:46642360 original size:14 final size:14
Alignment explanation
Indices: 46642341--46642377 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
46642331 TTAGCAATGC
46642341 TAAAGAAAGAAATA
1 TAAAGAAAGAAATA
46642355 TAAAGAATA-AAATA
1 TAAAGAA-AGAAATA
46642369 -AAAGAAAGA
1 TAAAGAAAGA
46642378 GATGCTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 7 0.33
14 12 0.57
15 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
TAAAGAAAGAAATA
Found at i:46643223 original size:18 final size:18
Alignment explanation
Indices: 46643200--46643234 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46643190 AATAAAAATG
*
46643200 AAAAAAATAAAAATAAAC
1 AAAAAAAGAAAAATAAAC
*
46643218 AAAAAAGGAAAAATAAA
1 AAAAAAAGAAAAATAAA
46643235 AAATTTGACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAAAGAAAAATAAAC
Found at i:46645126 original size:13 final size:14
Alignment explanation
Indices: 46645101--46645133 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
46645091 TGGTTTGGAA
46645101 AAATAACTAAACTC
1 AAATAACTAAACTC
46645115 AAATAA-TAAACTC
1 AAATAACTAAACTC
46645128 AAATAA
1 AAATAA
46645134 AATTCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAACTAAACTC
Found at i:46649017 original size:24 final size:23
Alignment explanation
Indices: 46648990--46649042 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
46648980 TGCACATTAT
* * *
46648990 ATATATCCTAATTAAATTTATTTA
1 ATATATACTAAATAAATTTA-TCA
*
46649014 ATATATATTAAATAAATTTATCA
1 ATATATACTAAATAAATTTATCA
46649037 ATATAT
1 ATATAT
46649043 GTATATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATACTAAATAAATTTATCA
Found at i:46652231 original size:22 final size:22
Alignment explanation
Indices: 46652141--46652240 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 22
46652131 TGACTTATCC
* *
46652141 CAACTTATTGGTAGCTTGTCTG
1 CAACTTACTGGCAGCTTGTCTG
* * * *
46652163 CAATTTGCTAGCAGCTTGTCTA
1 CAACTTACTGGCAGCTTGTCTG
* * *
46652185 CAACTAACTGG-TGACTTAT-TG
1 CAACTTACTGGCAG-CTTGTCTG
*
46652206 CAACTTACTGGCATCTTGTCTG
1 CAACTTACTGGCAGCTTGTCTG
*
46652228 CAACTTATTGGCA
1 CAACTTACTGGCA
46652241 ATTCTACTGC
Statistics
Matches: 57, Mismatches: 18, Indels: 6
0.70 0.22 0.07
Matches are distributed among these distances:
21 16 0.28
22 41 0.72
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (22 bp):
CAACTTACTGGCAGCTTGTCTG
Found at i:46658794 original size:18 final size:18
Alignment explanation
Indices: 46658753--46658878 Score: 135
Period size: 18 Copynumber: 7.0 Consensus size: 18
46658743 TATCTACCGT
*
46658753 ATATAAGGGTTCGCTTAC
1 ATATAAGGGTTCGCATAC
** *
46658771 GCATAAGAGTTCGCATAC
1 ATATAAGGGTTCGCATAC
* *
46658789 ATATAAGGGTTTGCATGC
1 ATATAAGGGTTCGCATAC
* *
46658807 ATATAAAGGTTCACATAC
1 ATATAAGGGTTCGCATAC
* *
46658825 ATATAAAGGTTCGCATGC
1 ATATAAGGGTTCGCATAC
* *
46658843 ATATAAGGGTCCACATAC
1 ATATAAGGGTTCGCATAC
*
46658861 ATATAAGGGTTCACATAC
1 ATATAAGGGTTCGCATAC
46658879 CAACAATTTG
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 88 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (18 bp):
ATATAAGGGTTCGCATAC
Found at i:46661083 original size:286 final size:286
Alignment explanation
Indices: 46660571--46661428 Score: 1662
Period size: 286 Copynumber: 3.0 Consensus size: 286
46660561 ATGACATAGA
46660571 AGTTAATATACTCTTCTTGAGATGTCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATCACGA
1 AGTTAATATACTCTTCTTGAGATGTCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATCACGA
46660636 CATCGAAGGCAGTCTTGTGATTTCTCTATTCTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
66 CATCGAAGGCAGTCTTGTGATTTCTCTATTCTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
46660701 TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
131 TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
46660766 CAATTTGAACACTTTCAAACTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCAAATTATAG
196 CAATTTGAACACTTTCAAACTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCAAATTATAG
46660831 TAGATCAAGTAATTCTTCTACAAATT
261 TAGATCAAGTAATTCTTCTACAAATT
*
46660857 AGTTAATATACTCTTCTTGAGATATCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATCACGA
1 AGTTAATATACTCTTCTTGAGATGTCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATCACGA
*
46660922 CATCGAAGGCAGTCTTGTGATTTCTCTATTTTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
66 CATCGAAGGCAGTCTTGTGATTTCTCTATTCTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
46660987 TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
131 TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
46661052 CAATTTGAACACTTTCAAACTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCAAATTATAG
196 CAATTTGAACACTTTCAAACTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCAAATTATAG
46661117 TAGATCAAGTAATTCTTCTACAAATT
261 TAGATCAAGTAATTCTTCTACAAATT
*
46661143 AGTTAATATACTCTTCTTGAGATGTCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATTACGA
1 AGTTAATATACTCTTCTTGAGATGTCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATCACGA
46661208 CATCGAAGGCAGTCTTGTGATTTCTCTATTCTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
66 CATCGAAGGCAGTCTTGTGATTTCTCTATTCTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
46661273 TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
131 TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
* *
46661338 CAATTTGAACACTTTCAAGCTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCGAATTATAG
196 CAATTTGAACACTTTCAAACTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCAAATTATAG
*
46661403 CAGATCAAGTAATTCTTCTACAAATT
261 TAGATCAAGTAATTCTTCTACAAATT
46661429 TGATGTTGAA
Statistics
Matches: 564, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
286 564 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (286 bp):
AGTTAATATACTCTTCTTGAGATGTCTTCAAGGGTATGTTGCGACACACTTAGGCTGCATCACGA
CATCGAAGGCAGTCTTGTGATTTCTCTATTCTGTTCCCTATGTTGCAACATTGATCATTCTGTGT
TGCGATATAGTGACTAGAATCGGTTTAGTACGCCTTCTAATGGTCTCCTAAACACTTACAAAGTT
CAATTTGAACACTTTCAAACTCCTAAAGTGCGAAAATTAGTTTAATCTATTTCACCAAATTATAG
TAGATCAAGTAATTCTTCTACAAATT
Found at i:46662174 original size:22 final size:22
Alignment explanation
Indices: 46662141--46662185 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
46662131 TAATTTTAGG
46662141 TTTAGTTTTCTCTA-AGTTTTC
1 TTTAGTTTTCTCTACAGTTTTC
*
46662162 TTTAGTTTTTCTCTACATTTTTC
1 TTTAG-TTTTCTCTACAGTTTTC
46662185 T
1 T
46662186 AGGGTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.13, C:0.16, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTAGTTTTCTCTACAGTTTTC
Found at i:46669617 original size:24 final size:24
Alignment explanation
Indices: 46669572--46669626 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
46669562 GTTGCGCATT
* *
46669572 ATATATATGCTAATTAAATTTATTTA
1 ATATATAT-CTAAATAAATTTA-TCA
*
46669598 ATATATAT-TAAATAAGTTTATCA
1 ATATATATCTAAATAAATTTATCA
46669621 ATATAT
1 ATATAT
46669627 GTATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.31
24 10 0.38
26 8 0.31
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
ATATATATCTAAATAAATTTATCA
Found at i:46669886 original size:21 final size:21
Alignment explanation
Indices: 46669856--46669895 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46669846 AATAAATACC
*
46669856 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
46669877 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
46669896 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:46669898 original size:11 final size:12
Alignment explanation
Indices: 46669856--46669904 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
46669846 AATAAATACC
46669856 AAAAATTTATTTT
1 AAAAA-TTATTTT
*
46669869 AAAAATTA---A
1 AAAAATTATTTT
46669878 AAAAATTATTTT
1 AAAAATTATTTT
46669890 AAAAA-TATTTT
1 AAAAATTATTTT
46669901 AAAA
1 AAAA
46669905 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 10 0.32
12 8 0.26
13 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:46669918 original size:39 final size:39
Alignment explanation
Indices: 46669869--46670008 Score: 201
Period size: 39 Copynumber: 3.5 Consensus size: 39
46669859 AATTTATTTT
*
46669869 AAAAATTAAAAAAATTATTTTAAAAATATTTTAAAATTA
1 AAAAAATAAAAAAATTATTTTAAAAATATTTTAAAATTA
46669908 AAAAAAT-AAAAAATGTATTTTAAAAATATTTTAAAATTA
1 AAAAAATAAAAAAAT-TATTTTAAAAATATTTTAAAATTA
* *
46669947 AAAAAATTTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTA
1 AAAAAA---TAAAAAAATTATTTTAAAAATATTTTAAAATTA
*
46669989 AAAAAATAAAAAAAATATTT
1 AAAAAATAAAAAAATTATTT
46670009 ATTATATTCG
Statistics
Matches: 92, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
38 7 0.08
39 49 0.53
42 30 0.33
43 6 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (39 bp):
AAAAAATAAAAAAATTATTTTAAAAATATTTTAAAATTA
Found at i:46670911 original size:20 final size:20
Alignment explanation
Indices: 46670886--46670927 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
46670876 ATACTTTCAT
*
46670886 CTGCGAAGTCGCAGGGTTGA
1 CTGCGAAATCGCAGGGTTGA
46670906 CTGCGAAATCGCAGGGTTGA
1 CTGCGAAATCGCAGGGTTGA
46670926 CT
1 CT
46670928 TGAATAAACT
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:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (20 bp):
CTGCGAAATCGCAGGGTTGA
Found at i:46674093 original size:30 final size:30
Alignment explanation
Indices: 46674057--46674115 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
46674047 GTACATCATT
46674057 ATAACACTAAAGTCCATTTAAATAAGTTCC
1 ATAACACTAAAGTCCATTTAAATAAGTTCC
46674087 ATAACACTAAAGTCCATTTAAATAAGTTC
1 ATAACACTAAAGTCCATTTAAATAAGTTC
46674116 AATAGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (30 bp):
ATAACACTAAAGTCCATTTAAATAAGTTCC
Found at i:46682559 original size:62 final size:62
Alignment explanation
Indices: 46682493--46682610 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
46682483 CATCAGCGTG
*
46682493 TCTCTAGGCCGTGTGAGTCACACGGTATTTCGAATGGCC-ACACGACCTAAGACACGACCATC
1 TCTCTAGGCCGTCTGAGTCACACGGTATTTCG-ATGGCCTACACGACCTAAGACACGACCATC
* * * *
46682555 TCTCTTGGCCGTCTGAGTCACACGGTATTTCGATTGCCTACACGGCCTAAGGCACG
1 TCTCTAGGCCGTCTGAGTCACACGGTATTTCGATGGCCTACACGACCTAAGACACG
46682611 GGCGTGTCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 5 0.10
62 45 0.90
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (62 bp):
TCTCTAGGCCGTCTGAGTCACACGGTATTTCGATGGCCTACACGACCTAAGACACGACCATC
Found at i:46687403 original size:22 final size:21
Alignment explanation
Indices: 46687378--46687421 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
46687368 AAAAAGTGAC
*
46687378 TTCACAACTATATAAAAACTCG
1 TTCACAACTACAT-AAAACTCG
**
46687400 TTCATTACTACATAAAACTCG
1 TTCACAACTACATAAAACTCG
46687421 T
1 T
46687422 GAGCTAGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (21 bp):
TTCACAACTACATAAAACTCG
Found at i:46693192 original size:33 final size:33
Alignment explanation
Indices: 46693123--46693204 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 33
46693113 ATTTTATATA
* *
46693123 TTTATATGATTTAAAATTTTAAAAAAATTTAGTTT
1 TTTATAT-ATTT-ATATTTTAAAAAAATTTAATTT
* **
46693158 TTTATATATTTATATTTTGAAAATTTTTAATTT
1 TTTATATATTTATATTTTAAAAAAATTTAATTT
*
46693191 TTTATAAATTTATA
1 TTTATATATTTATA
46693205 AATTATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 30 0.73
34 4 0.10
35 7 0.17
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
TTTATATATTTATATTTTAAAAAAATTTAATTT
Found at i:46699350 original size:30 final size:31
Alignment explanation
Indices: 46699284--46699356 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
46699274 ATGTTAATGG
* *
46699284 GTGACTGATTTGTCACTTTTCGATAACGTTA
1 GTGACTGTTTTGTAACTTTTCGATAACGTTA
*
46699315 GTGACTGTTTTGTAATTTTTCGA-AA-GTTGA
1 GTGACTGTTTTGTAACTTTTCGATAACGTT-A
46699345 GTGACTGTTTTG
1 GTGACTGTTTTG
46699357 CCAACTGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.08
30 15 0.39
31 20 0.53
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (31 bp):
GTGACTGTTTTGTAACTTTTCGATAACGTTA
Found at i:46702183 original size:17 final size:17
Alignment explanation
Indices: 46702161--46702195 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46702151 TAATACAATG
46702161 ATCTTTATGTTTCCATT
1 ATCTTTATGTTTCCATT
46702178 ATCTTTATGTTTCCATT
1 ATCTTTATGTTTCCATT
46702195 A
1 A
46702196 CAGGAGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.57
Consensus pattern (17 bp):
ATCTTTATGTTTCCATT
Found at i:46704465 original size:16 final size:18
Alignment explanation
Indices: 46704424--46704457 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46704414 CAAAATTAGA
46704424 GTTTCTCTCATTCTTTTC
1 GTTTCTCTCATTCTTTTC
*
46704442 GATTCTCTCA-TCTTTT
1 GTTTCTCTCATTCTTTT
46704458 TTTTCTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.26, G:0.06, T:0.59
Consensus pattern (18 bp):
GTTTCTCTCATTCTTTTC
Found at i:46705901 original size:13 final size:14
Alignment explanation
Indices: 46705885--46705922 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
46705875 GAGAATTTGA
46705885 TTAAAAAATTT-TC
1 TTAAAAAATTTATC
*
46705898 TTAAAAAATTTATT
1 TTAAAAAATTTATC
46705912 TTGAAAAAATT
1 TT-AAAAAATT
46705923 CAATGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
TTAAAAAATTTATC
Found at i:46706471 original size:37 final size:37
Alignment explanation
Indices: 46706407--46706483 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
46706397 ATTCCAAAAA
*
46706407 TAATACTATTTTAATTATTATAATATTAAATTTAAT-T
1 TAATACTATTTTAATTAGTATAATATT-AATTTAATAT
**
46706444 TAATACTTATTTTAATT-GTATTTTATTAATTTAATAT
1 TAATAC-TATTTTAATTAGTATAATATTAATTTAATAT
46706481 TAA
1 TAA
46706484 AGTGATTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 8 0.23
37 17 0.49
38 10 0.29
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (37 bp):
TAATACTATTTTAATTAGTATAATATTAATTTAATAT
Found at i:46706665 original size:11 final size:9
Alignment explanation
Indices: 46706637--46706662 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46706627 ATTATAGTTG
46706637 AACTCTCTA
1 AACTCTCTA
46706646 AACTCTCTA
1 AACTCTCTA
46706655 AACTCTCT
1 AACTCTCT
46706663 CTATATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (9 bp):
AACTCTCTA
Found at i:46709606 original size:28 final size:28
Alignment explanation
Indices: 46709566--46709650 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
46709556 CAAAAATTTG
*
46709566 ACCATTACAATATGGTTGTTGGAATCTA
1 ACCATTACAATATGGCTGTTGGAATCTA
** ** * *
46709594 ATTATTACAATATGGCCATTGGAATTTG
1 ACCATTACAATATGGCTGTTGGAATCTA
46709622 ACCATTACAA-ATGGCTGTTGGAATCTA
1 ACCATTACAATATGGCTGTTGGAATCTA
46709649 AC
1 AC
46709651 TGTTGCAATA
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 15 0.34
28 29 0.66
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (28 bp):
ACCATTACAATATGGCTGTTGGAATCTA
Found at i:46712254 original size:31 final size:31
Alignment explanation
Indices: 46712219--46712277 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
46712209 ATGTGTATAG
46712219 TTGAATCACAATAAAAATTTCATATATACAT
1 TTGAATCACAATAAAAATTTCATATATACAT
* * *
46712250 TTGAATTACAATCAAAGTTTCATATATA
1 TTGAATCACAATAAAAATTTCATATATA
46712278 TTGTTAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (31 bp):
TTGAATCACAATAAAAATTTCATATATACAT
Found at i:46717737 original size:21 final size:21
Alignment explanation
Indices: 46717707--46717747 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46717697 TCTGTTGCCC
46717707 TTTCTTTCTTTTTT-CTTTTA
1 TTTCTTTCTTTTTTCCTTTTA
46717727 TTTCTATTCTTTTTTCCTTTT
1 TTTCT-TTCTTTTTTCCTTTT
46717748 TTAATCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTCTTTTTTCCTTTTA
Found at i:46726535 original size:19 final size:20
Alignment explanation
Indices: 46726494--46726535 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
46726484 TTAAAAATAA
**
46726494 TTTAATTCAATTCACTTGGT
1 TTTAATTCAATTCACTTAAT
*
46726514 TTTAATTC-ATTCATTTAAT
1 TTTAATTCAATTCACTTAAT
46726533 TTT
1 TTT
46726536 CAGTTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTAATTCAATTCACTTAAT
Found at i:46732520 original size:10 final size:10
Alignment explanation
Indices: 46732505--46732533 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46732495 AAGCAATCAG
46732505 GAATCAAAAT
1 GAATCAAAAT
46732515 GAATCAAAAT
1 GAATCAAAAT
46732525 GAATCAAAA
1 GAATCAAAA
46732534 CATAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (10 bp):
GAATCAAAAT
Found at i:46733625 original size:20 final size:20
Alignment explanation
Indices: 46733562--46733667 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
46733552 TGCAAAATAA
* * *
46733562 GGGCACCAAAGTGTAATCAG
1 GGGCACCAGAGTGCATTCAG
* ** * *
46733582 GAGCACCAGTCTGCAATCAA
1 GGGCACCAGAGTGCATTCAG
*
46733602 GGGCACCAGAGTGCATTTAG
1 GGGCACCAGAGTGCATTCAG
* *
46733622 GGGCACGA-ATGTGC-TGCCAG
1 GGGCACCAGA-GTGCAT-TCAG
*
46733642 GGGCACCGGAGTGCATTCAG
1 GGGCACCAGAGTGCATTCAG
46733662 GGGCAC
1 GGGCAC
46733668 GTATGTGCAA
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.03
20 60 0.94
21 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.34, T:0.15
Consensus pattern (20 bp):
GGGCACCAGAGTGCATTCAG
Found at i:46733675 original size:20 final size:20
Alignment explanation
Indices: 46733612--46733676 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
46733602 GGGCACCAGA
*
46733612 GTGCATTTAGGGGCACGAAT
1 GTGCATTCAGGGGCACGAAT
* *
46733632 GTGC-TGCCAGGGGCACCGGA-
1 GTGCAT-TCAGGGGCA-CGAAT
*
46733652 GTGCATTCAGGGGCACGTAT
1 GTGCATTCAGGGGCACGAAT
46733672 GTGCA
1 GTGCA
46733677 AACATGGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 4 0.11
20 28 0.78
21 4 0.11
ACGTcount: A:0.20, C:0.22, G:0.38, T:0.20
Consensus pattern (20 bp):
GTGCATTCAGGGGCACGAAT
Found at i:46733689 original size:40 final size:40
Alignment explanation
Indices: 46733601--46733720 Score: 111
Period size: 40 Copynumber: 3.0 Consensus size: 40
46733591 TCTGCAATCA
* * * ***
46733601 AGGG-CACCAGAGTGCATTTAGGGGCACGAATGTGCTGCC
1 AGGGACACCGGAGTGCATTCAGGGGCACGTATGTGCAAAC
*
46733640 AGGGGCACCGGAGTGCATTCAGGGGCACGTATGTGCAAAC
1 AGGGACACCGGAGTGCATTCAGGGGCACGTATGTGCAAAC
* * *
46733680 ATGGACACCGAAGTG-TTTACAGGGGCACAGT-TGTGCAAAC
1 AGGGACACCGGAGTGCATT-CAGGGGCAC-GTATGTGCAAAC
46733720 A
1 A
46733721 AGAACATCGA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 6 0.09
40 60 0.88
41 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.34, T:0.17
Consensus pattern (40 bp):
AGGGACACCGGAGTGCATTCAGGGGCACGTATGTGCAAAC
Found at i:46733732 original size:40 final size:40
Alignment explanation
Indices: 46733659--46733736 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
46733649 GGAGTGCATT
* *
46733659 CAGGGGCACGTATGTGCAAACATGGACACCGAAGTGTTTA
1 CAGGGGCACGTATGTGCAAACAAGAACACCGAAGTGTTTA
*
46733699 CAGGGGCACAGT-TGTGCAAACAAGAACATCGAAGTGTT
1 CAGGGGCAC-GTATGTGCAAACAAGAACACCGAAGTGTT
46733737 ATGAAGGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (40 bp):
CAGGGGCACGTATGTGCAAACAAGAACACCGAAGTGTTTA
Found at i:46734169 original size:29 final size:29
Alignment explanation
Indices: 46734137--46734197 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
46734127 GACCCTTCAA
46734137 TTTT-CATTAATTACATATTT-TCCCTAAAC
1 TTTTACATT-ATTACA-ATTTATCCCTAAAC
*
46734166 TTTTACATTTTTACAATTTAGTCCCTAAAC
1 TTTTACATTATTACAATTTA-TCCCTAAAC
46734196 TT
1 TT
46734198 AAAATCTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.14
29 9 0.32
30 15 0.54
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.49
Consensus pattern (29 bp):
TTTTACATTATTACAATTTATCCCTAAAC
Found at i:46747996 original size:59 final size:62
Alignment explanation
Indices: 46747898--46748024 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 62
46747888 ATACACCAAT
* * * *
46747898 AGTCACTCAACTTTGATTAAAACAACAAAATAGTCACTAAAC-TT-T-GAAAAGTTACAACTC
1 AGTCACTCAACTTTGATGAAAACAACAAAATAATCACT-AACGTTATCGAAAAGTGACAAATC
* *
46747958 AGTCGCTCAACTTT-ATGAAAATAACAAAATAATCACTAACGTTATCGAAAAGTGACAAATC
1 AGTCACTCAACTTTGATGAAAACAACAAAATAATCACTAACGTTATCGAAAAGTGACAAATC
46748019 AGTCAC
1 AGTCAC
46748025 CCACTAACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
58 3 0.05
59 22 0.39
60 14 0.25
61 18 0.32
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (62 bp):
AGTCACTCAACTTTGATGAAAACAACAAAATAATCACTAACGTTATCGAAAAGTGACAAATC
Found at i:46751026 original size:20 final size:20
Alignment explanation
Indices: 46750976--46751027 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
46750966 TAAAATAATA
*
46750976 TTATATT-AATTATATATGT
1 TTATATTAAATTATATATAT
*
46750995 TTA-ATAATAATTATATATAT
1 TTATATTA-AATTATATATAT
46751015 TTATATTAAATTA
1 TTATATTAAATTA
46751028 CTAATCCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.07
19 3 0.11
20 19 0.70
21 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTATATTAAATTATATATAT
Found at i:46751214 original size:35 final size:35
Alignment explanation
Indices: 46751175--46751265 Score: 80
Period size: 35 Copynumber: 2.6 Consensus size: 35
46751165 ACAGTATTTT
*
46751175 TTAATATGTTTTTATTGTGTTAGAAAACTTTTA-TA
1 TTAATATGTTTTTATTGTGTTAGAAAA-TTATATTA
* * * * *
46751210 TTAATCT-TTTTTAGTGCAT-TTAGTATATTATATTT
1 TTAATATGTTTTTATTG--TGTTAGAAAATTATATTA
46751245 TTAATATGTTTTTATTGTGTT
1 TTAATATGTTTTTATTGTGTT
46751266 TTTTAGTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
34 13 0.30
35 21 0.49
36 9 0.21
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.59
Consensus pattern (35 bp):
TTAATATGTTTTTATTGTGTTAGAAAATTATATTA
Found at i:46753364 original size:18 final size:18
Alignment explanation
Indices: 46753341--46753376 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46753331 CCAAGAACAT
46753341 AAAATACAACA-GGCCCAA
1 AAAATACAA-ATGGCCCAA
46753359 AAAATACAAATGGCCCAA
1 AAAATACAAATGGCCCAA
46753377 TTTTTAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.56, C:0.25, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAATACAAATGGCCCAA
Found at i:46757056 original size:19 final size:20
Alignment explanation
Indices: 46757016--46757059 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
46757006 GTCTCTTTAG
* *
46757016 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
46757035 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
46757054 GCATTA
1 GCATTA
46757060 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:46762102 original size:50 final size:50
Alignment explanation
Indices: 46762027--46762206 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 50
46762017 GCAGTGGAAT
* * * *
46762027 AGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACATGGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACCTCTCTGACATGGCGGTTAAAA
* * ** * * *
46762077 AGATTAAAGCTACACCAGCGAATCTTATTTCTCAGGCA-GTGCAG-TAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACCTCTCTGACATG-GCGGTTAAAA
* * * * * *
46762126 AGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGTGATTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACCTCTCTGACATGGCGGTTAAAA
* *
46762176 AGATTAAAGCTACATCAGCGAATCTTACCTC
1 AGATTAAAGCCACAACAGCGAATCTTACCTC
46762207 CCAGGCGGTG
Statistics
Matches: 98, Mismatches: 29, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
49 36 0.37
50 62 0.63
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTACCTCTCTGACATGGCGGTTAAAA
Found at i:46762142 original size:99 final size:100
Alignment explanation
Indices: 46762000--46762250 Score: 342
Period size: 99 Copynumber: 2.5 Consensus size: 100
46761990 AAAACAAAGC
* * * *
46762000 CTTACTTCCTAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACA
1 CTTACCTCCCAGGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACA
*
46762065 TGGCGGTTAAAAAGATTAAAGCTACACCAGCGAAT
66 TGGCGATTAAAAAGATTAAAGCTACACCAGCGAAT
** * *
46762100 CTTATTTCTCAGGCAGTGCAGT-AAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACA
1 CTTACCTCCCAGGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACA
* * *
46762164 TTGTGATTAAAAAGATTAAAGCTACATCAGCGAAT
66 TGGCGATTAAAAAGATTAAAGCTACACCAGCGAAT
* * * * *
46762199 CTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAACCATATCGGTGAATCT
1 CTTACCTCCCAGGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCT
46762251 CGCTTCCCCT
Statistics
Matches: 131, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
99 88 0.67
100 43 0.33
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
CTTACCTCCCAGGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACA
TGGCGATTAAAAAGATTAAAGCTACACCAGCGAAT
Found at i:46762149 original size:49 final size:49
Alignment explanation
Indices: 46762010--46762250 Score: 162
Period size: 50 Copynumber: 4.8 Consensus size: 49
46762000 CTTACTTCCT
* * * *
46762010 AGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTT
1 AGGCAGTGCAGT-AAAAAGATTAAAGCCACAACGGTGAATCTTACCTCTC
* * * * * * * **
46762060 TGACA-TGGCGGTTAAAAAGATTAAAGCTACACCAGCGAATCTTATTTCTC
1 AGGCAGT-GCAG-TAAAAAGATTAAAGCCACAACGGTGAATCTTACCTCTC
*
46762110 AGGCAGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTC
1 AGGCAGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTACCTCTC
* * * * * * * *
46762159 TGACATTGTG-ATTAAAAAGATTAAAGCTACATCAGCGAATCTTACCTCCC
1 AGGCA--GTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTACCTCTC
* * * * * *
46762209 AGGCGGTGCAGTGGAACAGATTAAAACCATATCGGTGAATCT
1 AGGCAGTGCAGT-AAAAAGATTAAAGCCACAACGGTGAATCT
46762251 CGCTTCCCCT
Statistics
Matches: 141, Mismatches: 43, Indels: 14
0.71 0.22 0.07
Matches are distributed among these distances:
48 3 0.02
49 37 0.26
50 96 0.68
51 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (49 bp):
AGGCAGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTACCTCTC
Found at i:46762291 original size:100 final size:98
Alignment explanation
Indices: 46762000--46762301 Score: 282
Period size: 99 Copynumber: 3.0 Consensus size: 98
46761990 AAAACAAAGC
* * * * * * **
46762000 CTTACTTCCTAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACA
1 CTTACCTCCCAGGCAGTGCAGT-AAAAAGATTAAAACCACAACGGTGAATCTCGCCTCCCTGACA
* * *
46762065 TGGCGGTTAAAAAGATTAAAGCTACACCAGCGAAT
65 T-TCAGTTAAAAAGATTAAAGCTACATCAGCGAAT
** * * * *
46762100 CTTATTTCTCAGGCAGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACAT
1 CTTACCTCCCAGGCAGTGCAGTAAAAAGATTAAAACCACAACGGTGAATCTCGCCTCCCTGACAT
**
46762165 TGTGATTAAAAAGATTAAAGCTACATCAGCGAAT
66 TCAG-TTAAAAAGATTAAAGCTACATCAGCGAAT
* * * * * *
46762199 CTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAACCATATCGGTGAATCTCGCTTCCCCT-AC
1 CTTACCTCCCAGGCAGTGCAGT-AAAAAGATTAAAACCACAACGGTGAATCTCGCCT-CCCTGAC
* * * *
46762263 ATTACAGTTAAAAAGGTTAAAGCCACATCGGTGAAT
64 ATT-CAGTTAAAAAGATTAAAGCTACATCAGCGAAT
46762299 CTT
1 CTT
46762302 GATTAAAGCT
Statistics
Matches: 170, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
98 1 0.01
99 86 0.51
100 79 0.46
101 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (98 bp):
CTTACCTCCCAGGCAGTGCAGTAAAAAGATTAAAACCACAACGGTGAATCTCGCCTCCCTGACAT
TCAGTTAAAAAGATTAAAGCTACATCAGCGAAT
Found at i:46762399 original size:125 final size:125
Alignment explanation
Indices: 46762177--46762414 Score: 316
Period size: 125 Copynumber: 1.9 Consensus size: 125
46762167 TGATTAAAAA
* * ** * *
46762177 GATTAAAGCTACATCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAACCATATC
1 GATTAAAGCTACAACAGCGAATCCTACCTCCCAAACGATGCAGTGGAACAGATTAAAACCAAATC
* * *
46762242 GGTGAATCTCGCTTCCCCTACATTACAGTTAAAAAGGTTAAAGCCACATCGGTGAATCTT
66 GATGAATCTCGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
*
46762302 GATTAAAGCTACAACAGCGAATCCTACAC-CCCAAACGATGCAGTGGAACAGATTAAAGCCAAAT
1 GATTAAAGCTACAACAGCGAATCCTAC-CTCCCAAACGATGCAGTGGAACAGATTAAAACCAAAT
* * * * **
46762366 TGATGAATCTTGTTTCTCCGACATTGTAGTTAAAAAGATTAAAGCCACA
65 CGATGAATCTCGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCCACA
46762415 ATGGCGAATC
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
125 95 0.99
126 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (125 bp):
GATTAAAGCTACAACAGCGAATCCTACCTCCCAAACGATGCAGTGGAACAGATTAAAACCAAATC
GATGAATCTCGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
Found at i:46762636 original size:46 final size:44
Alignment explanation
Indices: 46762540--46763050 Score: 377
Period size: 46 Copynumber: 11.7 Consensus size: 44
46762530 TGAAAGTAAA
* * * * *
46762540 AGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--ACA-TC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
*
46762581 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTC
* ** ** * **
46762627 AGATCTTATCTCCCTGAGATTACAGTGGAGCGGATTGAAAGTAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
* * * * *
46762671 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--ACA-TC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
*
46762713 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTC
* * ** ** **
46762759 AGATCTTACCTCCCTGAGATTACAGTGGAGCGGA-TTAAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
* * * * *
46762802 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--ACA-TC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
*
46762844 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTC
* * ** **
46762890 AGATCTTATCTCCCTGAAGTTACAGTGGAG-CGTA-TTAAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAG-ACCGAAAATTC
* * ** * *
46762933 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC--ACA-TC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
*
46762975 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTC
*
46763021 AGATCTTATCTCCCTGAAGTTACAGTGGAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAG
46763051 CGTATTAAAA
Statistics
Matches: 361, Mismatches: 82, Indels: 49
0.73 0.17 0.10
Matches are distributed among these distances:
41 120 0.33
42 3 0.01
43 13 0.04
44 63 0.17
45 35 0.10
46 127 0.35
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTC
Found at i:46762903 original size:131 final size:131
Alignment explanation
Indices: 46762518--46763135 Score: 1069
Period size: 131 Copynumber: 4.7 Consensus size: 131
46762508 CTGGAGATGT
* * * *
46762518 AGTGGGGCGAATTGAAAGTAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
1 AGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
46762583 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTG-AGAT
65 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAG-T
46762647 TAC
129 TAC
*
46762650 AGTGGAGCGGATTGAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
1 AGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
*
46762715 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTACCTCCCTG-AGAT
65 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAG-T
46762779 TAC
129 TAC
46762782 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
1 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
46762847 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTA
66 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTA
46762912 C
131 C
* *
46762913 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGG
1 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
46762978 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTA
66 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTA
46763043 C
131 C
* * * *
46763044 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGG
1 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
*
46763109 TCTTATCTCCCTGAGGTTACAATGGAG
66 TCTTATCTCCCTGAGGTTACAGTGGAG
46763136 CAGATTGAAG
Statistics
Matches: 474, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
131 331 0.70
132 143 0.30
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (131 bp):
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTA
C
Found at i:46763115 original size:172 final size:172
Alignment explanation
Indices: 46762978--46763464 Score: 823
Period size: 172 Copynumber: 2.8 Consensus size: 172
46762968 TCACATCAGG
* * * * * *
46762978 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG-ATCTTATCTCCCTGAAGTT
1 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAG-A---CAGTATCCTATCTCCCTGAAGTT
46763042 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCA
62 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCA
46763107 GGTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
127 GGTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
46763153 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACAGTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACAGTATCCTATCTCCCTGAAGTTACAG
46763218 TGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGGTC
66 TGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGGTC
46763283 TTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
131 TTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
*
46763325 TCTTATCTCTTTGAGATTACAGCGGAGCAGATCGAAGACAGTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACAGTATCCTATCTCCCTGAAGTTACAG
*** * *
46763390 TGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAACAGATCGCACCAAGTC
66 TGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGGTC
46763455 TTATCTCCCT
131 TTATCTCCCT
46763465 AAGCAGTAGT
Statistics
Matches: 299, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
171 3 0.01
172 263 0.88
174 1 0.00
175 32 0.11
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (172 bp):
TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACAGTATCCTATCTCCCTGAAGTTACAG
TGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGGTC
TTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
Found at i:46763261 original size:262 final size:258
Alignment explanation
Indices: 46762518--46763219 Score: 1000
Period size: 262 Copynumber: 2.7 Consensus size: 258
46762508 CTGGAGATGT
* * *
46762518 AGTGGGGCGAATTGAAAGTAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
1 AGTGGAGCGAATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
46762583 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
65 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA--T-AGATCTTATCTCCCTGAGATT
*
46762648 ACAGTGGAGCGGATTGAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGT-AGAGTAGATCACAT
127 ACAGTGGAGC-GATAG-AAG-AAAGGATCTTATCTCTCTGAAGTTACAGTGAGAGTAGATCACAT
46762712 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTACCTCCCTGAG
189 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTACCTCCCTGAG
46762777 ATTAC
254 ATTAC
*
46762782 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
1 AGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
46762847 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA-AGTT
66 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA--T-AGATCTTATCTCCCTGAGA-TT
* * *
46762911 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG-CAGAGTAGATCACATC
127 ACAGTGGAGCG-A-TAGAAGAAAGGATCTTATCTCTCTGAAGTTACAGTGAGAGTAGATCACATC
*
46762975 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA-A
190 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTACCTCCCTGAGA
46763039 GTTAC
255 -TTAC
* * * *
46763044 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGG
1 AGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
* * ** *
46763109 TCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAA-AGATCTTATCTCCTTGAGATTAC
66 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG--AATAGATCTTATCTCCCTGAGATTAC
* * * * * *
46763173 AGCGGAGCAGATCGAAGACAGTATCCTATCTCCCTGAAGTTACAGTG
129 AGTGGAGC-GATAGAAGAAAGGATCTTATCTCTCTGAAGTTACAGTG
46763220 GAGCGTATTA
Statistics
Matches: 402, Mismatches: 26, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
259 27 0.07
260 28 0.07
261 3 0.01
262 205 0.51
263 125 0.31
264 14 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (258 bp):
AGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATAGATCTTATCTCCCTGAGATTACAG
TGGAGCGATAGAAGAAAGGATCTTATCTCTCTGAAGTTACAGTGAGAGTAGATCACATCAGGTCT
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTACCTCCCTGAGATTAC
Found at i:46763414 original size:87 final size:85
Alignment explanation
Indices: 46762758--46763445 Score: 472
Period size: 85 Copynumber: 8.0 Consensus size: 85
46762748 CGAAGAATTT
* * *
46762758 CAGATCTTACCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
1 CAGATCCTATCTCCCTGAAG-TTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAG
* * *
46762822 TTACAGTAGAGTAGATC-ACAT
65 TTACAGCAGAGCAGATCGA-AA
* * * * ** ** *
46762843 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAG-ACCGAAGAATTTCA-GATCTTATCTCCCTG
1 CAGATCCTATCTCCCTGAAGTTACAGTGGAG-CGTA-TTAA-AA-TAAAGGATCTTATCTCTCTG
** **
46762906 AAGTTACAGTGGAGC-GTATTAAAATA
62 AAGTTACAGCAGAGCAG-A-TCGAA-A
* * * * * * * * * * *
46762932 AAGGATCTTATCTCTCTGAAGTTACA--GCAGAGTAGATCACAT-CAGG-TCTTATCTCCCTGAG
1 CA-GATCCTATCTCCCTGAAGTTACAGTGGAGCGTA-TTAAAATAAAGGATCTTATCTCTCTGAA
** * *
46762993 GTTACAGTGGAGTAGACCGAAGAA
64 GTTACAGCAGAGCAGATCG-A-AA
*
46763017 TTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGA
1 ---CAGATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGA
** * *
46763082 AGTTACAGCAGAGTGGATCGCAT
63 AGTTACAGCAGAGCAGATCGAAA
* * * * ***
46763105 CAGGTCTTATCTCCCTGAGGTTACAATGGAGCAG-ATTGAAGCCAAA-GATCTTATCTC-CTTG-
1 CAGATCCTATCTCCCTGAAGTTACAGTGGAGC-GTATT-AAAATAAAGGATCTTATCTCTC-TGA
*
46763166 AGATTACAGCGGAGCAGATCGAAGA
63 AG-TTACAGCAGAGCAGATCGAA-A
46763191 CAGTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAG
1 CAG-ATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAG
** * *
46763256 TTACAGCAGAGTGGATCGCAT
65 TTACAGCAGAGCAGATCGAAA
* * * * *** *
46763277 CAGGTCTTATCTCCCTGAGGTTACAATGGAGCAG-ATTGAAGCCAAA-GATCTTATCTCTTTG-A
1 CAGATCCTATCTCCCTGAAGTTACAGTGGAGC-GTATT-AAAATAAAGGATCTTATCTCTCTGAA
*
46763339 GATTACAGCGGAGCAGATCGAAGA
64 G-TTACAGCAGAGCAGATCGAA-A
46763363 CAGTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAG
1 CAG-ATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAG
*
46763428 TTACAGCAGAACAGATCG
65 TTACAGCAGAGCAGATCG
46763446 CACCAAGTCT
Statistics
Matches: 473, Mismatches: 90, Indels: 78
0.74 0.14 0.12
Matches are distributed among these distances:
84 5 0.01
85 177 0.37
86 42 0.09
87 170 0.36
88 20 0.04
89 11 0.02
90 48 0.10
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (85 bp):
CAGATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGCAGAGCAGATCGAAA
Found at i:46763780 original size:17 final size:17
Alignment explanation
Indices: 46763758--46763792 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46763748 CCAAGAACAT
46763758 AAAATACAACA-GGCCCA
1 AAAATACAA-ATGGCCCA
46763775 AAAATACAAATGGCCCA
1 AAAATACAAATGGCCCA
46763792 A
1 A
46763793 TTTTTAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.54, C:0.26, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAATACAAATGGCCCA
Found at i:46766893 original size:39 final size:39
Alignment explanation
Indices: 46766797--46766895 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
46766787 ATATTCACTT
* * * *
46766797 AAGCATATATCACATTACACATATAATTAGATAATGTTC
1 AAGCATATATCGCAATACTCATATAATTAGATAACGTTC
* *
46766836 AAGCACATATCGCAATACTCATATAA-TCGCATAACGTTC
1 AAGCATATATCGCAATACTCATATAATTAG-ATAACGTTC
46766875 AAGCATATATCGCAATACTCA
1 AAGCATATATCGCAATACTCA
46766896 AAAACATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 2 0.04
39 50 0.96
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (39 bp):
AAGCATATATCGCAATACTCATATAATTAGATAACGTTC
Found at i:46774995 original size:12 final size:12
Alignment explanation
Indices: 46774957--46775008 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
46774947 GAAATATATA
*
46774957 AATAATATCAAT
1 AATAATATTAAT
*
46774969 AATAATAGTAAT
1 AATAATATTAAT
*
46774981 AATAATATTATT
1 AATAATATTAAT
* *
46774993 AATTA-ATTAAA
1 AATAATATTAAT
46775004 AATAA
1 AATAA
46775009 ATAGCAAGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 8 0.25
12 24 0.75
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:46777804 original size:9 final size:9
Alignment explanation
Indices: 46777790--46777821 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
46777780 AACTTGGTGC
46777790 ATTTTGTTT
1 ATTTTGTTT
46777799 ATTTTGTTT
1 ATTTTGTTT
46777808 ATTTTGTTT
1 ATTTTGTTT
46777817 ATTTT
1 ATTTT
46777822 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:46777902 original size:23 final size:23
Alignment explanation
Indices: 46777872--46777923 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
46777862 TGCAACTTGG
46777872 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
46777895 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
46777918 TTTCAT
1 TTTCAT
46777924 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:46782265 original size:9 final size:9
Alignment explanation
Indices: 46782251--46782282 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
46782241 AACTTGGTGC
46782251 ATTTTGTTT
1 ATTTTGTTT
46782260 ATTTTGTTT
1 ATTTTGTTT
46782269 ATTTTGTTT
1 ATTTTGTTT
46782278 ATTTT
1 ATTTT
46782283 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:46782363 original size:23 final size:23
Alignment explanation
Indices: 46782333--46782384 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
46782323 TGCAACTTGG
46782333 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
46782356 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
46782379 TTTCAT
1 TTTCAT
46782385 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:46784017 original size:27 final size:28
Alignment explanation
Indices: 46783962--46784036 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 28
46783952 CGGTTTTGTT
*
46783962 TAATT-TTCGTATTTCATAATTTAATTATA
1 TAATTATTC-TATTT-ATATTTTAATTATA
*
46783991 -AATTATTCTATTTATATTTTATTTATA
1 TAATTATTCTATTTATATTTTAATTATA
*
46784018 TAAATATT-TATTTATATTT
1 TAATTATTCTATTTATATTT
46784037 ATCTATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.56
28 15 0.37
29 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (28 bp):
TAATTATTCTATTTATATTTTAATTATA
Found at i:46795227 original size:21 final size:21
Alignment explanation
Indices: 46795188--46795227 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46795178 ACACACAAAC
*
46795188 ATTTATAAAAGTCTTTATACA
1 ATTTATAAAAGTCTCTATACA
46795209 ATTTATAAAAAGTC-CTATA
1 ATTTAT-AAAAGTCTCTATA
46795228 ACAACACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTTATAAAAGTCTCTATACA
Found at i:46795231 original size:22 final size:21
Alignment explanation
Indices: 46795188--46795231 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
46795178 ACACACAAAC
*
46795188 ATTTATAAAAGTCTTTATACA
1 ATTTATAAAAGTCTATATACA
46795209 ATTTATAAAAAGTCCTATA-ACA
1 ATTTAT-AAAAGT-CTATATACA
46795231 A
1 A
46795232 CACAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTTATAAAAGTCTATATACA
Found at i:46798330 original size:17 final size:16
Alignment explanation
Indices: 46798310--46798363 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
46798300 AGTTAAATTT
46798310 TTTTGTTTCTTGTTTAG
1 TTTTGTTTCTT-TTTAG
*
46798327 TTTTATTTCTATTTGTAG
1 TTTTGTTTCT-TTT-TAG
*
46798345 TTTAGGTTTCTTTTTAG
1 TTT-TGTTTCTTTTTAG
46798362 TT
1 TT
46798364 GTAATCGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 16 0.52
18 10 0.32
19 5 0.16
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.69
Consensus pattern (16 bp):
TTTTGTTTCTTTTTAG
Found at i:46798365 original size:23 final size:23
Alignment explanation
Indices: 46798321--46798366 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46798311 TTTGTTTCTT
* *
46798321 GTTTAGTTTTATTTCTATTTGTA
1 GTTTAGGTTTATTTCTAGTTGTA
* *
46798344 GTTTAGGTTTCTTTTTAGTTGTA
1 GTTTAGGTTTATTTCTAGTTGTA
46798367 ATCGTAGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.04, G:0.17, T:0.63
Consensus pattern (23 bp):
GTTTAGGTTTATTTCTAGTTGTA
Found at i:46808939 original size:33 final size:33
Alignment explanation
Indices: 46808902--46808971 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
46808892 CTGACCTCTC
* *
46808902 TTCACTAATAATGAATTATCTCGTTGTACAGAA
1 TTCACTAAAAATGAATTATCTCGTTGTACAAAA
*
46808935 TTCACTAAAAATGAATTATCTTGTTGTACAAAA
1 TTCACTAAAAATGAATTATCTCGTTGTACAAAA
46808968 TTCA
1 TTCA
46808972 GATGATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (33 bp):
TTCACTAAAAATGAATTATCTCGTTGTACAAAA
Found at i:46809583 original size:51 final size:50
Alignment explanation
Indices: 46809512--46809714 Score: 198
Period size: 51 Copynumber: 4.0 Consensus size: 50
46809502 TAATTAATGA
* * * *
46809512 TATCGGTTCACATAGTAGCCTGCACATAGTACTAGACATGTGACCATCAC
1 TATCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAC
* * * *
46809562 TATCAGATACACGTAGTAGCCTGCACATAGTACTACGCACGTTATCGA--AGC
1 TATC-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-C
* * * * * *
46809613 TATTCGGCACGCATAGTAGGCTGCACATAGTACTACACATGCGACCTATCA-
1 TA-TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCAC
46809664 T-TCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAC
1 TATC-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAC
46809714 T
1 T
46809715 TTCACTTTCA
Statistics
Matches: 120, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
49 6 0.05
50 42 0.35
51 67 0.56
52 4 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TATCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAC
Found at i:46809688 original size:101 final size:102
Alignment explanation
Indices: 46809522--46809704 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
46809512 TATCGGTTCA
* *
46809522 CATAGTAGCCTGCACATAGTACTAGACATGTGACCATCACTATCAGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
*
46809587 CATAGTACTACGCACGTTATCGAAGCTATTCGGCACG
66 CATAGTACTACACACGTTATCGAAGCTATTCGGCACG
* * *
46809624 CATAGTAGGCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGTAGCCTGC
46809687 ACATAGTACTACACACGT
65 ACATAGTACTACACACGT
46809705 GACCATCACT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 37 0.50
102 33 0.45
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTTATCGAAGCTATTCGGCACG
Found at i:46811162 original size:122 final size:122
Alignment explanation
Indices: 46810962--46811183 Score: 331
Period size: 122 Copynumber: 1.8 Consensus size: 122
46810952 ACTCTAATGG
* * * *
46810962 TTTCATTTGGTATTGGTAGAACCCATCAAAATATCGATAGAAATGTAGGGGAGGCTAAACTTTGA
1 TTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAATGCAGGGGAGGCTAAACTTTGA
* *
46811027 CTACTAATTTGACTTGTTTCAGTAAAATTCCTCAATGTAGCGGTAGAACTCCGGTGC
66 CTACTAATTTGACTTGTTTCACTAAAAGTCCTCAATGTAGCGGTAGAACTCCGGTGC
46811084 TTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAATGCAGGAGG-GGCTGAAA-TTT
1 TTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAATGCAGG-GGAGGCT-AAACTTT
* * *
46811147 GGCTACTATTTTGACTTGTTTCACTAGAAGTCCTCAA
64 GACTACTAATTTGACTTGTTTCACTAAAAGTCCTCAA
46811184 GGTATCAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 84 0.94
123 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (122 bp):
TTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAATGCAGGGGAGGCTAAACTTTGA
CTACTAATTTGACTTGTTTCACTAAAAGTCCTCAATGTAGCGGTAGAACTCCGGTGC
Found at i:46812500 original size:52 final size:51
Alignment explanation
Indices: 46812435--46812563 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 51
46812425 AATAGTGACT
* *
46812435 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGG-TCA
1 CAAGTGGGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGCT-A
* *
46812487 CAAGTGGGGTACTATGTGAAGGCCAGTTTGTGAAGAAGGTAGCTTTGGCTA
1 CAAGTGGGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGCTA
* *
46812538 CAAG-GGTGGTATTATGTGCAGGCCAC
1 CAAGTGG-GGTACTATGTGAAGGCCAC
46812564 CGGGTATCCG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.03
51 32 0.47
52 34 0.50
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (51 bp):
CAAGTGGGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGCTA
Found at i:46812555 original size:51 final size:52
Alignment explanation
Indices: 46812435--46812563 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 52
46812425 AATAGTGACT
* *
46812435 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGGTCA
1 CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* *
46812487 CAAGTGG-GGTACTATGTGAAGGCCAGTTTGTGAAG-AAGGTAGCTTTGG-CTA
1 CAAG-GGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
* *
46812538 CAAGGGTGGTATTATGTGCAGGCCAC
1 CAAGGGTGGTACTATGTGAAGGCCAC
46812564 CGGGTATCCG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
50 3 0.04
51 32 0.48
52 31 0.46
53 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (52 bp):
CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:46814512 original size:22 final size:22
Alignment explanation
Indices: 46814477--46814532 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
46814467 TGATATAATC
*
46814477 CAACCAAAAAGTATATAAAAAG
1 CAACCAAGAAGTATATAAAAAG
*
46814499 CAATCAAGAAGTATATAAAAAG
1 CAACCAAGAAGTATATAAAAAG
46814521 CAACCAAGAAGT
1 CAACCAAGAAGT
46814533 GAGGTCATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.14
Consensus pattern (22 bp):
CAACCAAGAAGTATATAAAAAG
Found at i:46828962 original size:41 final size:41
Alignment explanation
Indices: 46828895--46828976 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
46828885 TCGGTCCAAC
* *
46828895 CTCTTTATAACCTCCCACAGACAAGTACCACAAGGCAAATG
1 CTCTTTATAACCTCCCACAAACAAGTACCACAAAGCAAATG
* * *
46828936 CTCTTTATAATCTCCCTCAAATAAGTACCACAAAGCAAATG
1 CTCTTTATAACCTCCCACAAACAAGTACCACAAAGCAAATG
46828977 GTCGAGAGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (41 bp):
CTCTTTATAACCTCCCACAAACAAGTACCACAAAGCAAATG
Found at i:46837354 original size:19 final size:19
Alignment explanation
Indices: 46837307--46837356 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
46837297 TAAACTATTT
* *
46837307 CAACCCAAATGAGCTAAAT
1 CAACCCAAATGAACTAAAA
*
46837326 GAAGCCCAAATGAACTAAAA
1 CAA-CCCAAATGAACTAAAA
46837346 CAACCCAAATG
1 CAACCCAAATG
46837357 GCCATATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.50, C:0.26, G:0.12, T:0.12
Consensus pattern (19 bp):
CAACCCAAATGAACTAAAA
Found at i:46840325 original size:12 final size:12
Alignment explanation
Indices: 46840308--46840332 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46840298 GTTCAAAGTG
46840308 AAAATTAAATTA
1 AAAATTAAATTA
46840320 AAAATTAAATTA
1 AAAATTAAATTA
46840332 A
1 A
46840333 TTGGTTATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAAATTA
Found at i:46846145 original size:21 final size:21
Alignment explanation
Indices: 46846106--46846145 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46846096 TTATTAGTTT
*
46846106 TTTTAAAAATATATTTTTATA
1 TTTTAAAAATATATATTTATA
46846127 TTTT-AAAATAATATATTTA
1 TTTTAAAAAT-ATATATTTA
46846146 ATAGATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAAAATATATATTTATA
Found at i:46846220 original size:16 final size:16
Alignment explanation
Indices: 46846201--46846234 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46846191 GCTTTTCTAT
*
46846201 TTTTCTATTTTTACAA
1 TTTTCTATTTTTAAAA
*
46846217 TTTTTTATTTTTAAAA
1 TTTTCTATTTTTAAAA
46846233 TT
1 TT
46846235 ATTTGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTCTATTTTTAAAA
Found at i:46851898 original size:9 final size:8
Alignment explanation
Indices: 46851870--46851894 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46851860 TTTAATGGTT
46851870 ATATTTAA
1 ATATTTAA
46851878 ATATTTAA
1 ATATTTAA
46851886 ATATTTAA
1 ATATTTAA
46851894 A
1 A
46851895 ATATAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATTTAA
Found at i:46852181 original size:28 final size:26
Alignment explanation
Indices: 46852146--46852197 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
46852136 TTTAAACCAA
46852146 ACTTTTCAAAAACACTTCTCTCAAAAAC
1 ACTTTTCAAAAACACTT-T-TCAAAAAC
46852174 ACTTTTCAAAAACACTTTTCAAAA
1 ACTTTTCAAAAACACTTTTCAAAA
46852198 GTATTGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTTTCAAAAAC
Found at i:46852184 original size:13 final size:13
Alignment explanation
Indices: 46852146--46852197 Score: 86
Period size: 13 Copynumber: 3.8 Consensus size: 13
46852136 TTTAAACCAA
46852146 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
46852159 ACTTCTCTCAAAAAC
1 ACTT-T-TCAAAAAC
46852174 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
46852187 ACTTTTCAAAA
1 ACTTTTCAAAA
46852198 GTATTGCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
13 23 0.62
14 2 0.05
15 12 0.32
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:46857774 original size:98 final size:98
Alignment explanation
Indices: 46857625--46857825 Score: 393
Period size: 98 Copynumber: 2.1 Consensus size: 98
46857615 GTGTATTCTG
*
46857625 TTCTACTACCAAAACTCGATAGTTTAGTATTTTGGAAATAGGCCATGGATGATGATCCACTCACT
1 TTCTACTACCAAAACTCGATAGTTTAGTATTTTGGAAATAAGCCATGGATGATGATCCACTCACT
46857690 TACGAGGAGGCTATACAGGATGTTGATTCCAAT
66 TACGAGGAGGCTATACAGGATGTTGATTCCAAT
46857723 TTCTACTACCAAAACTCGATAGTTTAGTATTTTGGAAATAAGCCATGGATGATGATCCACTCACT
1 TTCTACTACCAAAACTCGATAGTTTAGTATTTTGGAAATAAGCCATGGATGATGATCCACTCACT
46857788 TACGAGGAGGCTATACAGGATGTTGATTCCAAT
66 TACGAGGAGGCTATACAGGATGTTGATTCCAAT
46857821 TTCTA
1 TTCTA
46857826 GAAACAGGCC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 102 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (98 bp):
TTCTACTACCAAAACTCGATAGTTTAGTATTTTGGAAATAAGCCATGGATGATGATCCACTCACT
TACGAGGAGGCTATACAGGATGTTGATTCCAAT
Found at i:46858499 original size:11 final size:11
Alignment explanation
Indices: 46858483--46858521 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
46858473 TTTATAAATA
46858483 TATAAATTAAT
1 TATAAATTAAT
*
46858494 TATAAAGTATAT
1 TATAAATTA-AT
46858506 TATTAAATTAAT
1 TA-TAAATTAAT
46858518 TATA
1 TATA
46858522 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:46858519 original size:28 final size:28
Alignment explanation
Indices: 46858487--46858540 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
46858477 TAAATATATA
46858487 AATTA-ATTATAAAGTA-TATTATTAAATT
1 AATTATATTATAAA-TATTA-TATTAAATT
46858515 AATTATATTATAAATATTATATTAAA
1 AATTATATTATAAATATTATATTAAA
46858541 AAATAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
AATTATATTATAAATATTATATTAAATT
Found at i:46858533 original size:14 final size:17
Alignment explanation
Indices: 46858501--46858538 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
46858491 AATTATAAAG
46858501 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
46858518 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
46858532 TATATTA
1 TATATTA
46858539 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:46858764 original size:19 final size:20
Alignment explanation
Indices: 46858737--46858784 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
46858727 GCTGGTAAAT
*
46858737 ACATGTGTA-ATAATAATAA
1 ACATATGTATATAATAATAA
*
46858756 ACATATGTATTTAATAATAA
1 ACATATGTATATAATAATAA
46858776 A-ATATGTAT
1 ACATATGTAT
46858785 TGCTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
ACATATGTATATAATAATAA
Found at i:46858785 original size:19 final size:20
Alignment explanation
Indices: 46858747--46858785 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46858737 ACATGTGTAA
46858747 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
46858767 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
46858786 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:46859311 original size:17 final size:18
Alignment explanation
Indices: 46859289--46859322 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46859279 TAAATGAGTT
46859289 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
46859306 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
46859323 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:46859643 original size:18 final size:18
Alignment explanation
Indices: 46859620--46859657 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46859610 GTATATTGAT
46859620 TTGAAT-GTGAAATTGAAA
1 TTGAATAGTGAAATT-AAA
*
46859638 TTGAATAGTGATATTAAA
1 TTGAATAGTGAAATTAAA
46859656 TT
1 TT
46859658 TGGTATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (18 bp):
TTGAATAGTGAAATTAAA
Found at i:46859764 original size:23 final size:23
Alignment explanation
Indices: 46859734--46859796 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
46859724 TTTTTCGATT
46859734 AGGCACTTTATGTGTCGTATTTC
1 AGGCACTTTATGTGTCGTATTTC
**
46859757 AGGCACTTCGTGTGTC--ATTTC
1 AGGCACTTTATGTGTCGTATTTC
*
46859778 AGGCAC-TTATGTGTGGTAT
1 AGGCACTTTATGTGTCGTAT
46859797 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 6 0.18
21 11 0.33
22 2 0.06
23 14 0.42
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.40
Consensus pattern (23 bp):
AGGCACTTTATGTGTCGTATTTC
Found at i:46864579 original size:15 final size:15
Alignment explanation
Indices: 46864539--46864579 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
46864529 TTAATTTCAC
46864539 ATTTTACTA-TTATGT
1 ATTTTA-TATTTATGT
46864554 ATTTTATATTTATGT
1 ATTTTATATTTATGT
*
46864569 CTTTTATATTT
1 ATTTTATATTT
46864580 TGCATGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (15 bp):
ATTTTATATTTATGT
Found at i:46867400 original size:29 final size:29
Alignment explanation
Indices: 46867368--46867438 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
46867358 AATCTCGAGA
*
46867368 TATTTTTTCAGGA-TCCATCTAATCAAAAT
1 TATTTTTTCAGAACT-CATCTAATCAAAAT
* *
46867397 TATTTTTTTAGAACTCATCTCATCAAAAT
1 TATTTTTTCAGAACTCATCTAATCAAAAT
*
46867426 TATTTTTTTAGAA
1 TATTTTTTCAGAA
46867439 TCCCTAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (29 bp):
TATTTTTTCAGAACTCATCTAATCAAAAT
Found at i:46867486 original size:14 final size:14
Alignment explanation
Indices: 46867469--46867496 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46867459 ATTTATGAAT
46867469 AATAAAACCCTAAA
1 AATAAAACCCTAAA
46867483 AATAAAACCCTAAA
1 AATAAAACCCTAAA
46867497 CCCTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAAACCCTAAA
Found at i:46867665 original size:21 final size:22
Alignment explanation
Indices: 46867602--46867663 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
46867592 AACTTAAATA
*
46867602 AAACACAAAACCCTAATTTAAT
1 AAACACCAAACCCTAATTTAAT
* *
46867624 TAACACCAAAACCTAATTTAAT
1 AAACACCAAACCCTAATTTAAT
46867646 AAAC-CCTAAACCCTAATT
1 AAACACC-AAACCCTAATT
46867664 AAACAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACACCAAACCCTAATTTAAT
Found at i:46873917 original size:3 final size:3
Alignment explanation
Indices: 46873911--46873956 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
46873901 ATAAATTACG
* * * *
46873911 TTA TTA TTA TTA GTA TTA TTA TTA ATA TTA TTG TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46873957 ATTTTCATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:46874146 original size:28 final size:28
Alignment explanation
Indices: 46874115--46874176 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
46874105 ATATACTTAT
*
46874115 ATATTTTTATAT-TTTATAACTTATATAC
1 ATATTTTTATATCTATATAAC-TATATAC
* * *
46874143 ATATCTATATATCTATATATCTATATAC
1 ATATTTTTATATCTATATAACTATATAC
46874171 AT-TTTT
1 ATATTTT
46874177 AAATTTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.07
28 19 0.70
29 6 0.22
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (28 bp):
ATATTTTTATATCTATATAACTATATAC
Found at i:46874156 original size:8 final size:8
Alignment explanation
Indices: 46874143--46874169 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46874133 ACTTATATAC
46874143 ATATCTAT
1 ATATCTAT
46874151 ATATCTAT
1 ATATCTAT
46874159 ATATCTAT
1 ATATCTAT
46874167 ATA
1 ATA
46874170 CATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATCTAT
Found at i:46874193 original size:52 final size:51
Alignment explanation
Indices: 46874034--46874193 Score: 129
Period size: 50 Copynumber: 3.2 Consensus size: 51
46874024 AATTTTGTTA
* * * * *
46874034 TATGTATATACATAC-ATACATTTATATATATATGTACATATTTT-AATTTT
1 TATGAATATACATACTATATATCTATATATCTATATACAT-TTTTAAATTTT
* * * *
46874084 TATAAATATACATA-TGTATA-C-ATATA-CT-TATATATTTTTATATTTT
1 TATGAATATACATACTATATATCTATATATCTATATACATTTTTAAATTTT
*
46874130 ATAACT-TATATACATATCTATATATCTATATATCTATATACATTTTTAAATTTT
1 -T-A-TGAATATACATA-CTATATATCTATATATCTATATACATTTTTAAATTTT
46874184 TATGAATATA
1 TATGAATATA
46874194 TAAATACATG
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
45 4 0.05
46 10 0.12
47 2 0.02
48 15 0.18
49 1 0.01
50 20 0.24
51 2 0.02
52 11 0.13
53 3 0.04
54 16 0.19
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (51 bp):
TATGAATATACATACTATATATCTATATATCTATATACATTTTTAAATTTT
Found at i:46874194 original size:54 final size:52
Alignment explanation
Indices: 46874038--46874200 Score: 146
Period size: 54 Copynumber: 3.2 Consensus size: 52
46874028 TTGTTATATG
* * * *
46874038 TATATACATAC-ATACATTTATATATATATGTACATATTTT-AATTTTTATAA
1 TATATACATACTATATATCTATATATCTATATACAT-TTTTAAATTTTTATAA
* * *
46874089 -ATATACATA-TGTATA-C-ATATA-CT-TATATATTTTTATA-TTTTATAA
1 TATATACATACTATATATCTATATATCTATATACATTTTTAAATTTTTATAA
46874134 CTTATATACATATCTATATATCTATATATCTATATACATTTTTAAATTTTTATGAA
1 --TATATACATA-CTATATATCTATATATCTATATACATTTTTAAATTTTTAT-AA
*
46874190 TATATAAATAC
1 TATATACATAC
46874201 ATGCTTATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
45 12 0.14
46 6 0.07
47 1 0.01
48 14 0.16
50 17 0.19
51 1 0.01
52 5 0.06
53 3 0.03
54 21 0.24
55 6 0.07
56 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (52 bp):
TATATACATACTATATATCTATATATCTATATACATTTTTAAATTTTTATAA
Found at i:46877585 original size:60 final size:60
Alignment explanation
Indices: 46877428--46877595 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 60
46877418 TATATTTTTT
* *
46877428 ATTTTTAGAGTTAGGACTAAATTGATAGATTTTTGTAAATATTGAAGGCTAAATTTATTGA
1 ATTTTTAGAATTAGGACTAAATTGATAGA-ATTTGTAAATATTGAAGGCTAAATTTATTGA
* * ** * * * *
46877489 ATTTTTAGAATTAGAACCAAAACGACA-AATTTTGTAAACATTGAAGGTTAAATTTGTTGA
1 ATTTTTAGAATTAGGACTAAATTGATAGAA-TTTGTAAATATTGAAGGCTAAATTTATTGA
* * * * *
46877549 ATTTTTATATTTAGGATTAAATTGATAGAATGTGTAAATATTAAAGG
1 ATTTTTAGAATTAGGACTAAATTGATAGAATTTGTAAATATTGAAGG
46877596 GATAATTTTA
Statistics
Matches: 84, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
60 61 0.73
61 23 0.27
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (60 bp):
ATTTTTAGAATTAGGACTAAATTGATAGAATTTGTAAATATTGAAGGCTAAATTTATTGA
Found at i:46878524 original size:125 final size:123
Alignment explanation
Indices: 46878294--46878717 Score: 573
Period size: 125 Copynumber: 3.4 Consensus size: 123
46878284 ACGTGGACGC
* * * * *
46878294 GAAGAATTTGTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATAA
* *
46878359 TTTCGAATTAACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGA
65 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC-AGGATGCTTTATGA
* * * *
46878419 GAAGAATTTGTTAAATCGTGCCCACGTGGACGCGCTTTTCCTACAGTAGGTCCTGAAAAAATTAT
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAAT
*
46878484 TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTT-TAAGCAGGATGCTATT-TGA
66 TTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCT-A-CAGGATGCT-TTATGA
* * * * * *
46878544 GAAGAATTTCTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCTTGAAAGAACTAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAA-AAATAA
46878609 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
65 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-CAGGATGCTTTATGA
* * *
46878669 GAAGAATTTGTGAAATCGCGCTCACATGGACACGCTTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
46878718 CATGTTTGGG
Statistics
Matches: 263, Mismatches: 29, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
124 40 0.15
125 184 0.70
126 39 0.15
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (123 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAAT
TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACAGGATGCTTTATGA
Found at i:46879787 original size:9 final size:9
Alignment explanation
Indices: 46879769--46879800 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
46879759 ATTCTCAAAT
46879769 AATA-TCAA
1 AATATTCAA
46879777 AATATTCAA
1 AATATTCAA
46879786 AATATTCAA
1 AATATTCAA
46879795 AATATT
1 AATATT
46879801 TGTACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (9 bp):
AATATTCAA
Found at i:46879905 original size:70 final size:69
Alignment explanation
Indices: 46879824--46879953 Score: 224
Period size: 70 Copynumber: 1.9 Consensus size: 69
46879814 TAAGCTCATG
* *
46879824 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAAATC-AAAAAAATTCTATTTAATTACATAAAATAAACTT
46879889 CTATT
65 CTATT
*
46879894 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTATTTAATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAATTCTATTTAATTACATAAAATAA
46879954 TATCAAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
69 28 0.49
70 29 0.51
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (69 bp):
TTATTACATCAAATAATATCAAAATAAATCAAAAAAATTCTATTTAATTACATAAAATAAACTTC
TATT
Found at i:46879907 original size:25 final size:25
Alignment explanation
Indices: 46879851--46879909 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
46879841 ATCAAAATAA
*
46879851 ATCAAAAAAAATTCTATTTTATTAC
1 ATCAAATAAAATTCTATTTTATTAC
*
46879876 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAAATTCTATTTTATTAC
46879901 ATCAAATAA
1 ATCAAATAA
46879910 TATCAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
ATCAAATAAAATTCTATTTTATTAC
Found at i:46879944 original size:44 final size:45
Alignment explanation
Indices: 46879877--46879963 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
46879867 TTTTATTACA
* * *
46879877 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAAATTCTATTTAATTACATAAAATAATATCAAAATAAC
46879922 TCAAA-AAAATTCTATTTAATTACATAAAATAATATCAAAATA
1 TCAAATAAAATTCTATTTAATTACATAAAATAATATCAAAATA
46879964 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (45 bp):
TCAAATAAAATTCTATTTAATTACATAAAATAATATCAAAATAAC
Found at i:46881720 original size:11 final size:12
Alignment explanation
Indices: 46881706--46881748 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
46881696 TTAAATATGG
46881706 ATTTGAGA-GAA
1 ATTTGAGAGGAA
46881717 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
46881729 A-TTGAGAGGAA
1 ATTTGAGAGGAA
46881740 ATTTGAGAG
1 ATTTGAGAG
46881749 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.14
11 8 0.29
12 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:46883962 original size:55 final size:55
Alignment explanation
Indices: 46883893--46884141 Score: 426
Period size: 55 Copynumber: 4.5 Consensus size: 55
46883883 AAAAATAGAG
* * * *
46883893 TGTTTATATGTTTAAATCAATTGTTATGTTGGAATATTGATTCTTTTGAATCGAT
1 TGTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
*
46883948 TCTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
1 TGTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
46884003 TGTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
1 TGTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
* *
46884058 TGTTTATATGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCAAT
1 TGTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
*
46884113 TGTTTATACGTTTAAATCGATTGTTATGT
1 TGTTTATACGTTTAAATCGATTATTATGT
46884142 AGCACATATA
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 184 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (55 bp):
TGTTTATACGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCGAT
Found at i:46884265 original size:13 final size:13
Alignment explanation
Indices: 46884243--46884275 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
46884233 AGATATAACT
*
46884243 ATAAATCTCGAAA
1 ATAAACCTCGAAA
46884256 ATAAACCTCGAAA
1 ATAAACCTCGAAA
46884269 ATAAACC
1 ATAAACC
46884276 GTAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.55, C:0.21, G:0.06, T:0.18
Consensus pattern (13 bp):
ATAAACCTCGAAA
Found at i:46884292 original size:8 final size:8
Alignment explanation
Indices: 46884279--46884306 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
46884269 ATAAACCGTA
46884279 AAAAATAT
1 AAAAATAT
46884287 AAAAATAT
1 AAAAATAT
46884295 AAAAATAT
1 AAAAATAT
46884303 AAAA
1 AAAA
46884307 GAAAACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:46885019 original size:8 final size:9
Alignment explanation
Indices: 46884931--46885059 Score: 73
Period size: 10 Copynumber: 13.4 Consensus size: 9
46884921 ACATGTGACA
46884931 AAAAATTAT
1 AAAAATTAT
46884940 AAAAA--AT
1 AAAAATTAT
*
46884947 AAAAATCAAT
1 AAAAAT-TAT
*
46884957 AAAAGTTAT
1 AAAAATTAT
46884966 AAAAATTATT
1 AAAAATTA-T
**
46884976 AAATTTTAAT
1 AAAAATT-AT
46884986 AAAAATATAATT
1 AAAAAT-T-A-T
* * *
46884998 TAAAATGAA
1 AAAAATTAT
46885007 AAAAATTAT
1 AAAAATTAT
46885016 AAAAATTAT
1 AAAAATTAT
*
46885025 AAAAAATTGT
1 -AAAAATTAT
*
46885035 AAAATTTTAT
1 AAAA-ATTAT
46885045 AAAAAATTTAT
1 -AAAAA-TTAT
46885056 AAAA
1 AAAA
46885060 TGCATCAAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
7 7 0.08
9 33 0.36
10 34 0.37
11 12 0.13
12 6 0.07
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46885030 original size:19 final size:19
Alignment explanation
Indices: 46884930--46885059 Score: 81
Period size: 19 Copynumber: 6.7 Consensus size: 19
46884920 AACATGTGAC
46884930 AAAAAATTATAAAAA--AT
1 AAAAAATTATAAAAATTAT
* *
46884947 -AAAAATCAATAAAAGTTAT
1 AAAAAAT-TATAAAAATTAT
**
46884966 -AAAAATTATTAAATTTTAAT
1 AAAAAATTA-TAAAAATT-AT
* * *
46884986 AAAAATATAATTTAAAATGA-
1 AAAAA-ATTA-TAAAAATTAT
46885006 AAAAAATTATAAAAATTAT
1 AAAAAATTATAAAAATTAT
* *
46885025 AAAAAATTGTAAAATTTTAT
1 AAAAAATTATAAAA-ATTAT
46885045 AAAAAATTTATAAAA
1 AAAAAA-TTATAAAA
46885060 TGCATCAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.07
17 6 0.07
18 8 0.09
19 30 0.34
20 17 0.20
21 12 0.14
22 8 0.09
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAAATTATAAAAATTAT
Found at i:46885348 original size:9 final size:9
Alignment explanation
Indices: 46885334--46885399 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
46885324 TTCTACATTT
*
46885334 TTTTTATGA
1 TTTTTATAA
46885343 TTTTTATAAAA
1 TTTTTAT--AA
* **
46885354 TTTTAATTT
1 TTTTTATAA
46885363 TTTTTATAA
1 TTTTTATAA
**
46885372 TTTCTTACGA
1 TTT-TTATAA
46885382 TTTTTATAA
1 TTTTTATAA
46885391 TTTTTATAA
1 TTTTTATAA
46885400 CTTTAATTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
9 29 0.67
10 7 0.16
11 7 0.16
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46887178 original size:198 final size:199
Alignment explanation
Indices: 46886748--46887161 Score: 661
Period size: 202 Copynumber: 2.1 Consensus size: 199
46886738 TAAAAAAAAT
* * * *
46886748 TTAAAAGAATATCCATTGATTCAAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTTC
1 TTAAGAGAATA-CCATTAATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCC
46886813 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTATTTTTTTTAGAAAAAAATCTTCATTTCGAG
65 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTA--TTTTTTAGAAAAAAATCTTCATTTCGAG
* *
46886878 AAATCAATATGTCACATCCAATACGTTAGGACACAACGTGTTGAATTCCCAACAATGAACTCTTA
128 AAATCAATACGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTA
46886943 TTTTTGA
193 TTTTTGA
*
46886950 TTAAGAGAATATCCATTTATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCC
1 TTAAGAGAATA-CCATTAATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCC
* *
46887015 TTTAAAATCCCAAACTTGGAATATTTCCTTTATTA-TTTTTAG-GAAAAATCTTCATTTCGAGAA
65 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTATTTTTTAGAAAAAAATCTTCATTTCGAGAA
* *
46887078 ATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAATAATGAACTCTTATT
130 ATCAATACGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATT
46887143 TTTGA
195 TTTGA
46887148 TTAAAGAAGAATAC
1 TT-AAG-AGAATAC
46887162 TTGAATGTCA
Statistics
Matches: 200, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
198 88 0.44
199 11 0.05
200 6 0.03
202 95 0.47
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (199 bp):
TTAAGAGAATACCATTAATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCCT
TTAAAATCCCAAACTCGGAATATTTCCTTTATTATTTTTTAGAAAAAAATCTTCATTTCGAGAAA
TCAATACGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATTT
TTGA
Found at i:46889359 original size:2 final size:2
Alignment explanation
Indices: 46889352--46889379 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46889342 GATAGAGACG
46889352 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
46889380 CTGTTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46891265 original size:28 final size:26
Alignment explanation
Indices: 46891220--46891274 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
46891210 ACCTTTCACT
* *
46891220 TACATATATATCTGCATGTCTACATTCA
1 TACATATATATATACATG-C-ACATTCA
46891248 TACATATATATATACATGCACATTCA
1 TACATATATATATACATGCACATTCA
46891274 T
1 T
46891275 GAACGCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 1 0.04
28 16 0.64
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (26 bp):
TACATATATATATACATGCACATTCA
Found at i:46896159 original size:56 final size:55
Alignment explanation
Indices: 46896072--46896179 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
46896062 TTATAGATTG
*
46896072 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
* *
46896127 CAAATTTAATTATTCATAAGCACTATTTAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATC
46896180 CAATGGATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 4 0.08
56 45 0.92
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
Done.