Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 129 of 318
Found at i:39429925 original size:119 final size:119
Alignment explanation
Indices: 39429652--39429927 Score: 306
Period size: 119 Copynumber: 2.3 Consensus size: 119
39429642 TATTTGATTC
* * * * * * *
39429652 AGGGTTACCAAAGTACAAACAGGGGCACATAAGTGCATTCAAAGGTACCAAAGTACAAACAATGG
1 AGGGCTACCAAAGTACAAATAAGGGCACGTATGTGCATTCAAAGGTACCAAAGTACAAACAACGA
* * *
39429717 CACGTATGTGCATTCAGGGTACCGAAGTACAAACACGAGCACGCATGTCCATTT
66 AACGTATGTGCATTCAGGGTACCAAAGTACAAACACGAGCACACATGTCCATTT
* * **
39429771 AGGGGTACCAAAGTACAAAT-AGGGACACG-AGTGTGCTTTCAGGGGTACCAAAGTACAAACAAC
1 AGGGCTACCAAAGTACAAATAAGGG-CACGTA-TGTGCATTCAAAGGTACCAAAGTACAAACAAC
* * * * * * *
39429834 GAAATGTATGTGCATTTAGGGGTACCAAAGTACAAATAGGGGCACATATGTGCATTT
64 GAAACGTATGTGCATTCA-GGGTACCAAAGTACAAACACGAGCACACATGTCCATTT
*
39429891 AGGGCTACC-GAGTACAAATAAGGGCACGTATGTGCAT
1 AGGGCTACCAAAGTACAAATAAGGGCACGTATGTGCAT
39429928 CCATACATTA
Statistics
Matches: 129, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
118 4 0.03
119 81 0.63
120 44 0.34
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (119 bp):
AGGGCTACCAAAGTACAAATAAGGGCACGTATGTGCATTCAAAGGTACCAAAGTACAAACAACGA
AACGTATGTGCATTCAGGGTACCAAAGTACAAACACGAGCACACATGTCCATTT
Found at i:39431466 original size:21 final size:21
Alignment explanation
Indices: 39431417--39431464 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
39431407 CATGTATTTT
*
39431417 AATGATTGATGATAGATTATG
1 AATGTTTGATGATAGATTATG
39431438 AATGTTTGATGATAG-TTAT-
1 AATGTTTGATGATAGATTATG
39431457 ACATGTTT
1 A-ATGTTT
39431465 TGTTAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 10 0.40
21 14 0.56
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATG
Found at i:39433242 original size:26 final size:27
Alignment explanation
Indices: 39433213--39433309 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
39433203 GTAAGCTAAT
39433213 ATTACTGAAATACCCCTGTAGGGTAG-
1 ATTACTGAAATACCCCTGTAGGGTAGA
* * * *
39433239 ATTACTGAAATGCCCTTATAGGATAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
*
39433266 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
*
39433293 ATTACTAAAATACCCCT
1 ATTACTGAAATACCCCT
39433310 AGTTTACAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.36
27 39 0.64
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGGGTAGA
Found at i:39433329 original size:54 final size:53
Alignment explanation
Indices: 39433213--39433334 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 53
39433203 GTAAGCTAAT
* * * * *
39433213 ATTACTGAAATACCCCTGTAGGGTAGATTACTGAAATGCCCTTATAGGATAGA
1 ATTACTGAAATACCCCTGTAGGGTAGATTACTAAAATACCCCTATAGGACAAA
* **
39433266 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTAAAATACCCCTAGT-TTACAAA
1 ATTACTGAAATACCCCTGTAGGGTAG-ATTACTAAAATACCCCTA-TAGGACAAA
*
39433320 ATTATTGAAATACCC
1 ATTACTGAAATACCC
39433335 TTGGTTTACA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
53 25 0.44
54 31 0.54
55 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (53 bp):
ATTACTGAAATACCCCTGTAGGGTAGATTACTAAAATACCCCTATAGGACAAA
Found at i:39433453 original size:54 final size:54
Alignment explanation
Indices: 39433346--39433605 Score: 265
Period size: 54 Copynumber: 4.8 Consensus size: 54
39433336 TGGTTTACAG
* * * **
39433346 AATTACCAAAATACCCTTAATTAGCAAAATTACCAAAATATCCCT-GGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATA-CCCTCAATTTGTAA
* **
39433400 AATTACCAAAATACCCTTGATTTGTGAAATTACCAAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAA
* * * * *
39433454 AATTATCGAAATACCCTCGACTTATAAAATTACCAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAA
* * * * *
39433508 AATTACCAAAATACCCCTGATTTGGAAAATTATCAAAATACCCTTAATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAA
* * ** *
39433562 AATTA-TAGAAAT-GCCTCTGATTTACAAAATTACAAAAATACCCT
1 AATTACCA-AAATACCCT-TGATTTGTAAAATTACCAAAATACCCT
39433606 TGACTTTCAA
Statistics
Matches: 170, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
53 7 0.04
54 163 0.96
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAA
Found at i:39433616 original size:27 final size:28
Alignment explanation
Indices: 39433292--39433689 Score: 222
Period size: 27 Copynumber: 14.7 Consensus size: 28
39433282 TGTAGGGTAG
* * *
39433292 AATTACTAAAATACCCCT-AGTTTACAA
1 AATTACCAAAATACCCTTGAGTTTGCAA
*** * *
39433319 AATTATTGAAATACCCTTG-GTTTACAG
1 AATTACCAAAATACCCTTGAGTTTGCAA
* *
39433346 AATTACCAAAATACCCTT-AATTAGCAA
1 AATTACCAAAATACCCTTGAGTTTGCAA
*
39433373 AATTACCAAAATATCCC-TG-GTTTGTAA
1 AATTACCAAAATA-CCCTTGAGTTTGCAA
**
39433400 AATTACCAAAATACCCTTGA-TTTGTGA
1 AATTACCAAAATACCCTTGAGTTTGCAA
* *** *
39433427 AATTACCAAAATACCC-TCAACCTGTAA
1 AATTACCAAAATACCCTTGAGTTTGCAA
* * * *
39433454 AATTATCGAAATACCCTCGACTTAT--AA
1 AATTACCAAAATACCCTTGAGTT-TGCAA
* * *
39433481 AATTACCAAAATACCC-TCAATTTGTAA
1 AATTACCAAAATACCCTTGAGTTTGCAA
* *
39433508 AATTACCAAAATACCCCTGA-TTTGGAA
1 AATTACCAAAATACCCTTGAGTTTGCAA
* * *
39433535 AATTATCAAAATACCCTT-AATTTGGAA
1 AATTACCAAAATACCCTTGAGTTTGCAA
* * *
39433562 AATTA-TAGAAAT-GCCTCTGA-TTTACAA
1 AATTACCA-AAATACCCT-TGAGTTTGCAA
* *
39433589 AATTACAAAAATACCCTTGACTTT-CAAA
1 AATTACCAAAATACCCTTGAGTTTGC-AA
* *
39433617 AATTA-CAGAAATACCATTG-GTTTGCAC
1 AATTACCA-AAATACCCTTGAGTTTGCAA
** * *
39433644 AATTACTGAAATACCCTTG-GTTTGTAG
1 AATTACCAAAATACCCTTGAGTTTGCAA
* *
39433671 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
39433690 TAGGGTGAAA
Statistics
Matches: 294, Mismatches: 54, Indels: 46
0.75 0.14 0.12
Matches are distributed among these distances:
25 1 0.00
26 13 0.04
27 247 0.84
28 32 0.11
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
AATTACCAAAATACCCTTGAGTTTGCAA
Found at i:39434566 original size:62 final size:62
Alignment explanation
Indices: 39434469--39434595 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
39434459 AAATGAATTA
39434469 AAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGCAAGGAG
1 AAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGCAAGGAG
39434531 AAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGCAAGGAG
1 AAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGCAAGGAG
39434593 AAA
1 AAA
39434596 CTATGGCTAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (62 bp):
AAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGCAAGGAG
Found at i:39435048 original size:46 final size:46
Alignment explanation
Indices: 39434994--39435166 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
39434984 TGGTTGAGCA
39434994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
39435040 TCCTAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
39435085 CATCCGAATTCGTTGAGTTGAGTCCGATTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39435133 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39435167 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.56
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39435150 original size:93 final size:93
Alignment explanation
Indices: 39434991--39435161 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
39434981 GGATGGTTGA
* * * * *
39434991 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCTAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
39435056 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
39435084 GCATCCGAATTCGTTGAGTTGAGTCCGATTTCACTTATGGATACGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
39435149 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39435162 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39436849 original size:22 final size:22
Alignment explanation
Indices: 39436805--39436849 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39436795 GTTGCTGTGA
* * *
39436805 TGTTTACGGCTATGTGTTATCC
1 TGTTTACGACTACGTGATATCC
*
39436827 TGTTTACGACTACGTGATGTCC
1 TGTTTACGACTACGTGATATCC
39436849 T
1 T
39436850 ATCTACGGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (22 bp):
TGTTTACGACTACGTGATATCC
Found at i:39438862 original size:24 final size:24
Alignment explanation
Indices: 39438798--39438872 Score: 98
Period size: 23 Copynumber: 3.1 Consensus size: 24
39438788 AGCTCCCCCT
* * *
39438798 GAGCTGATGGACAGTAAGCTCTGAT
1 GAGCTGA-GAACAGTAAGCTCTAAC
39438823 GAGCTGA-AACAGTAAGCTCTAAC
1 GAGCTGAGAACAGTAAGCTCTAAC
*
39438846 GAGCTGAGAACAGTAAGCTCTTAC
1 GAGCTGAGAACAGTAAGCTCTAAC
39438870 GAG
1 GAG
39438873 TTGAAATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
23 20 0.44
24 18 0.40
25 7 0.16
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (24 bp):
GAGCTGAGAACAGTAAGCTCTAAC
Found at i:39444022 original size:39 final size:39
Alignment explanation
Indices: 39443968--39444076 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
39443958 GTTATTTTAA
* * *
39443968 TTTGAACATCATTAATTTGAAG-CTTTAATTATGTCTTAT
1 TTTGAACATCATTAATATG-AGTCTTTAATTATATCTTAG
* *
39444007 TTTGAACACCATTAATATGTGTCTTTAATTATATCTTAG
1 TTTGAACATCATTAATATGAGTCTTTAATTATATCTTAG
*
39444046 TTTGAATATCATTAATAT--GTCTTTTAATTAT
1 TTTGAACATCATTAATATGAGTC-TTTAATTAT
39444077 GTGTTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
37 3 0.05
38 10 0.16
39 48 0.79
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (39 bp):
TTTGAACATCATTAATATGAGTCTTTAATTATATCTTAG
Found at i:39444805 original size:15 final size:16
Alignment explanation
Indices: 39444759--39444805 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
39444749 CATTTAAGGA
39444759 GTGTTTATAAATATTT
1 GTGTTTATAAATATTT
39444775 GTGTTTATAAATATTT
1 GTGTTTATAAATATTT
* *
39444791 GT-TTTCTAAACATTT
1 GTGTTTATAAATATTT
39444806 AAGGAGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (16 bp):
GTGTTTATAAATATTT
Found at i:39450651 original size:34 final size:34
Alignment explanation
Indices: 39450608--39450677 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
39450598 TTTCCTAAAC
**
39450608 TATATGGAATGCTTATCATACATATGCATGAACA
1 TATATGGAATGCCCATCATACATATGCATGAACA
39450642 TATATGGAATGCCCATCATACATATGCATGAACA
1 TATATGGAATGCCCATCATACATATGCATGAACA
39450676 TA
1 TA
39450678 CTTTGTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (34 bp):
TATATGGAATGCCCATCATACATATGCATGAACA
Found at i:39452315 original size:20 final size:20
Alignment explanation
Indices: 39452292--39452330 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39452282 TCGGGCCGCG
39452292 ATGGGCCGAAAGGGGCCATA
1 ATGGGCCGAAAGGGGCCATA
*
39452312 ATGGGTCGAAAGGGGCCAT
1 ATGGGCCGAAAGGGGCCAT
39452331 GTGGGCCCAA
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:0.18, G:0.41, T:0.13
Consensus pattern (20 bp):
ATGGGCCGAAAGGGGCCATA
Found at i:39452561 original size:27 final size:27
Alignment explanation
Indices: 39452531--39452816 Score: 401
Period size: 27 Copynumber: 10.6 Consensus size: 27
39452521 TTAGTTTACC
39452531 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
39452558 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
39452585 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
39452612 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
39452639 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
39452666 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
39452693 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
39452720 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
39452747 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
39452774 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
39452801 AAATTACTGAAATACC
1 AAATTACCAAAATACC
39452817 TTCGACCTGT
Statistics
Matches: 226, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 226 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:39452828 original size:81 final size:81
Alignment explanation
Indices: 39452531--39452889 Score: 420
Period size: 81 Copynumber: 4.4 Consensus size: 81
39452521 TTAGTTTACC
* * * * *
39452531 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
39452596 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTGTA
**
39452612 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-AA
* * *
39452676 AATACCCTTTGTTTATA
65 AATACCCCTAGTTTGTA
39452693 AAATTACCAAAATACCAC-TGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAA
1 AAATTACCAAAATACC-CTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAA
39452757 AATACCCCTAGTTTGTA
65 AATACCCCTAGTTTGTA
* * ** * *** **
39452774 AAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATA-CCTTCGACCTGTAAAATTATGGA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTATCAA
* *
39452838 AATA-CCCTCGACTTGTA
65 AATACCCCTAG-TTTGTA
* * * *
39452855 AAATTACCAAAGTACCCTTGATTTATAGAATTACC
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACC
39452890 GTTTTACCCT
Statistics
Matches: 241, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
80 10 0.04
81 229 0.95
82 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
ATACCCCTAGTTTGTA
Found at i:39452886 original size:27 final size:27
Alignment explanation
Indices: 39452531--39452955 Score: 367
Period size: 27 Copynumber: 15.7 Consensus size: 27
39452521 TTAGTTTACC
* *
39452531 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
39452558 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
39452585 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* **
39452612 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
39452639 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
39452666 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TTGATTTGTA
*
39452693 AAATTACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACC-CTTGATTTGTA
* *
39452720 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
39452747 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*
39452774 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** **
39452801 AAATTACTGAAATA-CCTTCGACCTGTA
1 AAATTACCAAAATACCCTT-GATTTGTA
*** * *
39452828 AAATTATGGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
39452855 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* **** * **
39452882 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
39452909 AAATTACCGAATTACCCTT-ATGGGGTA
1 AAATTACCAAAATACCCTTGAT-TTGTA
*
39452936 GAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
39452956 TAGGGTAGAA
Statistics
Matches: 328, Mismatches: 58, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.03
27 312 0.95
28 7 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:39452961 original size:27 final size:27
Alignment explanation
Indices: 39452910--39453425 Score: 772
Period size: 27 Copynumber: 19.3 Consensus size: 27
39452900 CGATTTACAA
* * * *
39452910 AATTACCGAATTACCCTTATGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39452937 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39452964 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39452991 AATTATC-ACAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
39453018 AATTACCAAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39453045 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39453072 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39453099 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39453126 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39453153 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39453180 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39453207 AATTA-CGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39453233 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39453260 AATTA-CGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39453285 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39453312 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39453339 AATTATCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
39453366 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
39453393 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
39453419 AATTACC
1 AATTACC
39453426 ATTTTGCCCC
Statistics
Matches: 447, Mismatches: 37, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
25 10 0.02
26 71 0.16
27 365 0.82
28 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:39453907 original size:22 final size:22
Alignment explanation
Indices: 39453855--39453919 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
39453845 TTAAAGCCTT
* * *
39453855 CTGATTATGGCTTTGTGTCGAC
1 CTGATTATGGCTCTGTGCCAAC
*
39453877 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
39453899 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
39453920 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:39454114 original size:26 final size:27
Alignment explanation
Indices: 39454078--39454151 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
39454068 ATTCTGTTAA
* *
39454078 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
*
39454104 GTGGCTCTGCCATAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
39454131 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
39454152 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:39454326 original size:6 final size:6
Alignment explanation
Indices: 39454299--39454398 Score: 71
Period size: 6 Copynumber: 16.2 Consensus size: 6
39454289 TTCTAATTTT
* * * *
39454299 TGATTC T-ATTAC ATGATAC TGATTC TGATTT TGATTC TG-TTACC TCATAC
1 TGATTC TGATT-C -TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC
* *
39454349 TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC TAATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
39454398 T
1 T
39454399 AGTTTTGATA
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
5 6 0.08
6 57 0.77
7 7 0.09
8 4 0.05
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:39454334 original size:31 final size:31
Alignment explanation
Indices: 39454299--39454399 Score: 130
Period size: 31 Copynumber: 3.3 Consensus size: 31
39454289 TTCTAATTTT
* *
39454299 TGATTCTATTACATGATACTGATTCTGATTT
1 TGATTCTATTACCTGATACTGATTCTGATTC
* *
39454330 TGATTCTGTTACCTCATACTGATTCTGATTC
1 TGATTCTATTACCTGATACTGATTCTGATTC
* * *
39454361 TGATTCTGTCACCTGATTCTGATTCTGATTC
1 TGATTCTATTACCTGATACTGATTCTGATTC
*
39454392 TAATTCTA
1 TGATTCTA
39454400 GTTTTGATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.47
Consensus pattern (31 bp):
TGATTCTATTACCTGATACTGATTCTGATTC
Found at i:39458105 original size:38 final size:38
Alignment explanation
Indices: 39458055--39458143 Score: 144
Period size: 38 Copynumber: 2.4 Consensus size: 38
39458045 ATTTTATTTG
39458055 CATA-CATAAATGTGTAAATTTTAGCAAAGTGTATGAA
1 CATACCATAAATGTGTAAATTTTAGCAAAGTGTATGAA
* * *
39458092 CATACCATAAATGTGTAATTTTTAGCGAAGTGTATGAG
1 CATACCATAAATGTGTAAATTTTAGCAAAGTGTATGAA
39458130 CATACCATAAATGT
1 CATACCATAAATGT
39458144 ACAACAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 4 0.08
38 44 0.92
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (38 bp):
CATACCATAAATGTGTAAATTTTAGCAAAGTGTATGAA
Found at i:39464267 original size:22 final size:22
Alignment explanation
Indices: 39464240--39464304 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
39464230 GTACATACGT
*
39464240 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
39464262 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
39464284 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
39464305 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:39464508 original size:41 final size:42
Alignment explanation
Indices: 39464447--39464568 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 42
39464437 AAAAGCCATC
* *
39464447 GGTGGATCCACAGTCATCAAGCAACCATGTGATCCTTAAT-A
1 GGTGGATCCACGGTCATCAAGCAACCATGCGATCCTTAATCA
* * *
39464488 GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAATCA
1 GGTGGATCCACGGTCATCAAGCAACCATGCGATCCTTAATCA
39464530 -GTGGATCCACGGTCATCAAGCAACCATGCGATCCTTAAT
1 GGTGGATCCACGGTCATCAAGCAACCATGCGATCCTTAAT
39464569 TTCTTCCTCC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 71 0.99
42 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (42 bp):
GGTGGATCCACGGTCATCAAGCAACCATGCGATCCTTAATCA
Found at i:39464885 original size:27 final size:26
Alignment explanation
Indices: 39464803--39464972 Score: 123
Period size: 27 Copynumber: 6.3 Consensus size: 26
39464793 CAAAACAGTC
* * *
39464803 ATTTTACCCTATAGGGGTATGTTGGTC
1 ATTTTACACTATAAGGGTAT-TTGGTA
*
39464830 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTATAAGGGTATTT-GGTA
*
39464857 ATTTTACACTATAAGGGTATTCTGATA
1 ATTTTACACTATAAGGGTATT-TGGTA
* * *
39464884 ATTTTACA-AATCAGGGGTGTTTTGGTA
1 ATTTTACACTAT-AAGGGT-ATTTGGTA
* *
39464911 ATTTTACA-AATCGAGGGTATTTTGGTA
1 ATTTTACACTAT-AAGGGTA-TTTGGTA
*
39464938 ATTTTACA-AATTGAA-GGTATTTCGGTA
1 ATTTTACACTA-T-AAGGGTATTT-GGTA
39464965 ATTTTACA
1 ATTTTACA
39464973 AATCGATGGT
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.06
27 109 0.90
28 5 0.04
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTACACTATAAGGGTATTTGGTA
Found at i:39464973 original size:27 final size:27
Alignment explanation
Indices: 39464843--39465478 Score: 610
Period size: 27 Copynumber: 23.7 Consensus size: 27
39464833 TTACACTACA
* *
39464843 AGGGTATTTCGGTAATTTTACACTAT-A
1 AGGGTATTTCGGTAATTTTACA-AATCG
*
39464870 AGGGTA-TTCTGATAATTTTACAAATC-
1 AGGGTATTTC-GGTAATTTTACAAATCG
* *
39464896 AGGGGTGTTTTGGTAATTTTACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
39464924 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
39464951 AAGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
39464978 ATGGTATTTCAGTAATCTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
39465005 AGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
39465032 AGGGTGTTTCGGTGATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
39465059 AGGGTGTTTAGGTAATTTCACAAATCAG
1 AGGGTATTTCGGTAATTTTACAAATC-G
* * *
39465087 GGGGTA-TTCTGATAATTTTACAAATTG
1 AGGGTATTTC-GGTAATTTTACAAATCG
** *
39465114 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
39465140 AGGG--TTTCGATAATTTTAAAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
39465165 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
39465192 AGGGTGTTTCGATAATTTTATAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
39465219 AGAGTGTTTCAGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
39465246 GGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
39465273 AGGGTATTTCGGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
39465299 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
39465326 GGGGTGTTTCGGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * **
39465353 GGGGTATTCCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
39465380 AGGATATTTTGATAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
39465406 AGGGTATTTCGGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
39465432 AGGGGTATTTCAATAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTACAAATCG
*
39465459 AGGGGTATTTTGGTAATTTT
1 A-GGGTATTTCGGTAATTTT
39465479 GTAAACCATG
Statistics
Matches: 501, Mismatches: 94, Indels: 28
0.80 0.15 0.04
Matches are distributed among these distances:
24 10 0.02
25 9 0.02
26 60 0.12
27 399 0.80
28 23 0.05
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:39465543 original size:80 final size:81
Alignment explanation
Indices: 39465407--39465555 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 81
39465397 TCACAATTGA
* * * * *
39465407 GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAATAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCAATAATTCTACAAACTAGGGGCATTTTAG
39465472 TAATTTTGTAAACCAT
66 TAATTTTGTAAACCAT
** * **
39465488 GGGTA-TTCAGTAATTTTGTAAACCAAGGGTATTTCAGTAATTCTACCCTAC-AGGGGCATTTTA
1 GGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCAATAATTCTA-CAAACTAGGGGCATTTTA
39465551 GTAAT
65 GTAAT
39465556 ACTAACCTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
80 49 0.86
81 8 0.14
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCAATAATTCTACAAACTAGGGGCATTTTAG
TAATTTTGTAAACCAT
Found at i:39466799 original size:42 final size:42
Alignment explanation
Indices: 39466737--39466858 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
39466727 TAAGGTTAGT
* *
39466737 TGAGATTACGTGTAAAACCATATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
39466779 TGAGATTTCATGTAAGACCATAGCTGGGCTATTAGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATA-TGGCATCGATA
** *
39466822 TGAGATCCCATGTAGGACCATATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
39466859 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:39469589 original size:29 final size:29
Alignment explanation
Indices: 39469547--39469628 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
39469537 GTATTTTTTT
39469547 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
39469576 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
39469605 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
39469629 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:39477472 original size:29 final size:29
Alignment explanation
Indices: 39477430--39477511 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
39477420 GTATTTTTTT
39477430 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
39477459 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
39477488 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
39477512 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:39487663 original size:125 final size:127
Alignment explanation
Indices: 39487409--39487777 Score: 386
Period size: 125 Copynumber: 2.9 Consensus size: 127
39487399 GTATATGAGA
* *
39487409 CATCGATATGTGATTACGTGTAAGACCACGTCTGGAACATTGGCATCGATATGTGATTATGTGTA
1 CATCGATATGTGATTAAGTGT-AGA-CACGTCTGGAACATTGGCATCAATATGTGATTATGTGTA
* ** *
39487474 AGACCACGTCTGGGATGTTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACGTTGG
64 AGACCACATCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACATTGG
* * *
39487538 CATCGATATGTGATTAAGTGT-G-CACGTCTGGGACGTTGGCATCAATATTTGATTATGTGTAAG
1 CATCGATATGTGATTAAGTGTAGACACGTCTGGAACATTGGCATCAATATGTGATTATGTGTAAG
* * * * **
39487601 ACTACATCTGGGACATTGGCATCGATATGTGATTAGGTGTAAGACCACGTCTGGGACATTGG
66 ACCACATCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACATTGG
* ** ** ** * ***
39487663 CATCGATATGTGATTATGTGTAAGACCACGTCT-GAGATGTTAACATTGATATGTGTTTAAAAGT
1 CATCGATATGTGATTAAGTGT-AGA-CACGTCTGGA-ACATTGGCATCAATATGTGATTATGTGT
* * * *
39487727 AAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCAC
63 AAGACCAC-ATCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCAC
39487778 GTTAGGGACG
Statistics
Matches: 202, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
125 109 0.54
127 2 0.01
128 2 0.01
129 89 0.44
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (127 bp):
CATCGATATGTGATTAAGTGTAGACACGTCTGGAACATTGGCATCAATATGTGATTATGTGTAAG
ACCACATCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACATTGG
Found at i:39487716 original size:168 final size:168
Alignment explanation
Indices: 39487409--39487777 Score: 479
Period size: 168 Copynumber: 2.2 Consensus size: 168
39487399 GTATATGAGA
* * *
39487409 CATCGATATGTGATTACGTGTAAGACCACGTCTGGAACATTGGCATCGATATGTGATTATGTGTA
1 CATCAATATGTGATTACGTGTAAGACCACATCTGGAACATTGGCATCGATATGTGATTAGGTGTA
** **
39487474 AGACCACGTCTGGGATGTTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACGTTGGC
66 AGACCACGTCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACGTTAAC
39487539 ATCGATATGTGATTAAGTGTGCACGTCTGGGACGTTGG
131 ATCGATATGTGATTAAGTGTGCACGTCTGGGACGTTGG
* * * *
39487577 CATCAATATTTGATTATGTGTAAGACTACATCTGGGACATTGGCATCGATATGTGATTAGGTGTA
1 CATCAATATGTGATTACGTGTAAGACCACATCTGGAACATTGGCATCGATATGTGATTAGGTGTA
* * * * *
39487642 AGACCACGTCTGGGACATTGGCATCGATATGTGATTATGTGTAAGACCACGTCTGAGATGTTAAC
66 AGACCACGTCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACGTTAAC
* * ** *
39487707 ATTGATATGTGTTTAAAAGTAAGACCCTGTCTGGGACAG-TGG
131 ATCGATATGTGATT--AAGTGTG-CAC-GTCTGGGAC-GTTGG
* *
39487749 CATCGATATGTGATTACATGTAAGACCAC
1 CATCAATATGTGATTACGTGTAAGACCAC
39487778 GTTAGGGACG
Statistics
Matches: 170, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
168 126 0.74
170 5 0.03
171 2 0.01
172 36 0.21
173 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (168 bp):
CATCAATATGTGATTACGTGTAAGACCACATCTGGAACATTGGCATCGATATGTGATTAGGTGTA
AGACCACGTCTGGGACATTGGCATCGAAATGTGATTACGTGTAAGACCACATCTAAGACGTTAAC
ATCGATATGTGATTAAGTGTGCACGTCTGGGACGTTGG
Found at i:39487794 original size:43 final size:43
Alignment explanation
Indices: 39487409--39487794 Score: 435
Period size: 43 Copynumber: 9.1 Consensus size: 43
39487399 GTATATGAGA
* *
39487409 CATCGATATGTGATTACGTGTAAGACCACGTCTGGAACATTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* *
39487452 CATCGATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * **
39487495 CATCGAAATGTGATTACGTGTAAGACCACATCTAAGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
*
39487538 CATCGATATGTGATTAAGTGT--G--CACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * * * * *
39487577 CATCAATATTTGATTATGTGTAAGACTACATCTGGGACATTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* *
39487620 CATCGATATGTGATTAGGTGTAAGACCACGTCTGGGACATTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * * **
39487663 CATCGATATGTGATTATGTGTAAGACCACGTCTGAGATGTTAA
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * ***
39487706 CATTGATATGTGTTTAAAAGTAAGACC-CTGTCTGGGACAG-TGG
1 CATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGG
* *
39487749 CATCGATATGTGATTACATGTAAGACCACGT-TAGGGACGTCGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCT-GGGACGTTGG
39487792 CAT
1 CAT
39487795 TGTACCAAAT
Statistics
Matches: 288, Mismatches: 46, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
39 32 0.11
41 2 0.01
42 3 0.01
43 249 0.86
44 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
Found at i:39504263 original size:27 final size:27
Alignment explanation
Indices: 39504208--39504282 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 27
39504198 AAGAATAGTG
39504208 AAATTACTTGA-ATACCCCTA--TGCATAA
1 AAATTAC-TGATATACCCCTAGGTGC--AA
39504235 AAATTACTGATATACCCCTAGGTGC-A
1 AAATTACTGATATACCCCTAGGTGCAA
*
39504261 AAATTAC-CATTATACCCCTAGG
1 AAATTACTGA-TATACCCCTAGG
39504283 GTTACTTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 1 0.02
26 23 0.53
27 16 0.37
29 3 0.07
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACTGATATACCCCTAGGTGCAA
Found at i:39504437 original size:27 final size:26
Alignment explanation
Indices: 39504397--39504491 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
39504387 TGATGGCACA
* *
39504397 ATTATCTGATCTGGTGGCTCTGCCAT
1 ATTATCTGTTCTGGTGGCTCTGCCAC
39504423 ATATATCTGTTCTGGTGGCTCTGCCAC
1 AT-TATCTGTTCTGGTGGCTCTGCCAC
* * **
39504450 GATTATCTATATCTGGTGACTCTGTTAC
1 -ATTATCTGT-TCTGGTGGCTCTGCCAC
39504478 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
39504492 CAGCCATGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.12
27 36 0.61
28 16 0.27
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTGCCAC
Found at i:39506157 original size:23 final size:23
Alignment explanation
Indices: 39506129--39506210 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
39506119 TGATGATCAT
39506129 TAAGCTCAAATGAGCTGAAACAG
1 TAAGCTCAAATGAGCTGAAACAG
* *
39506152 TAAGCTCTATTGAGCTG-AACAG
1 TAAGCTCAAATGAGCTGAAACAG
* * *
39506174 TAAGCTCATATGAGTTGAAACGG
1 TAAGCTCAAATGAGCTGAAACAG
*
39506197 TAAGCTCCAATGAG
1 TAAGCTCAAATGAG
39506211 ATAAAAATAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (23 bp):
TAAGCTCAAATGAGCTGAAACAG
Found at i:39506897 original size:21 final size:21
Alignment explanation
Indices: 39506873--39506912 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39506863 AAACTGGTAT
*
39506873 ATCTATCATTAAACCTTTATA
1 ATCTATCATTAAACATTTATA
39506894 ATCTATCATTAAACATTTA
1 ATCTATCATTAAACATTTA
39506913 AATACTCAAT
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:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (21 bp):
ATCTATCATTAAACATTTATA
Found at i:39510780 original size:38 final size:37
Alignment explanation
Indices: 39510608--39510785 Score: 169
Period size: 38 Copynumber: 4.7 Consensus size: 37
39510598 AAAACCAAAC
* * *
39510608 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AAC-CCGAT
* * *
39510648 ATAATACCAGCACTAGGCTTGCGGGATTTAACCCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCC-GAT
** **
39510686 ATAATACTTGCACGAAGCCTGCAAGATTTAACCCGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGAT
* *
39510723 ATATTACCAGTACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCC-GAT
* *
39510761 ATAATTCCAGCA-TATAGCCTGCGGG
1 ATAATACCAGCACGA-AGCCTGCGGG
39510786 TCTTTAAGCC
Statistics
Matches: 112, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
37 33 0.29
38 55 0.49
39 3 0.03
40 21 0.19
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (37 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGAT
Found at i:39514985 original size:57 final size:58
Alignment explanation
Indices: 39514916--39515026 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
39514906 GTGCCCACTG
*
39514916 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
* * * *
39514973 ACCGATTTCGCACACATTGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTC
39515027 TAATCATTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 28 0.58
58 20 0.42
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
Found at i:39515477 original size:19 final size:18
Alignment explanation
Indices: 39515449--39515484 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
39515439 TTCTCATTCA
*
39515449 CATATTTAAAATATAACAT
1 CATATATAAAAT-TAACAT
39515468 CATATATAAAATTAACA
1 CATATATAAAATTAACA
39515485 AAGCATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
CATATATAAAATTAACAT
Found at i:39516922 original size:38 final size:39
Alignment explanation
Indices: 39516838--39517032 Score: 204
Period size: 38 Copynumber: 5.0 Consensus size: 39
39516828 AAACCCAAAC
* * * *
39516838 ATAACACCAGCAC-GAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACTGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
39516878 ATAATACAAGCACTG-GGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACTGAAGCCTGCGGGATTTAACCCGGAT
* *
39516916 ATAATACCAGTA-TGAAGCCTACGGGATTTAACCCGGAT
1 ATAATACCAGCACTGAAGCCTGCGGGATTTAACCCGGAT
*
39516954 ATATTACCAGCAC-GAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACTGAAGCCTGCGGGATTTAACCCGGAT
* *
39516992 ATAATTCCAGCA-T-ATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACTGA-AGCCTGCGGG-ATTTAA-CCCGGAT
39517032 A
1 A
39517033 CACATCAAAT
Statistics
Matches: 132, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
37 3 0.02
38 92 0.70
39 8 0.06
40 28 0.21
41 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (39 bp):
ATAATACCAGCACTGAAGCCTGCGGGATTTAACCCGGAT
Found at i:39522639 original size:38 final size:38
Alignment explanation
Indices: 39522588--39522664 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
39522578 TTTCAAATTA
39522588 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
39522626 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
39522664 A
1 A
39522665 ATGAATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:39522702 original size:47 final size:47
Alignment explanation
Indices: 39522643--39522754 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 47
39522633 TAACCGTGGT
*
39522643 ATATCCACTTAGCACCACGTTAATGAATCGATATATGTAACCGTAAC
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTAAC
* * * ** * *
39522690 ATATCCACTTAGCACCACGTTACTGTATCAATATGTGTAATTGTGAT
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTAAC
*
39522737 ATATCCACTTAGTACCAC
1 ATATCCACTTAGCACCAC
39522755 ATTTTTTCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (47 bp):
ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTAAC
Found at i:39525168 original size:40 final size:40
Alignment explanation
Indices: 39525113--39525320 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
39525103 TGAATGATAC
* *
39525113 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
39525153 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
39525193 CTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
39525233 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
39525273 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
39525313 CC-GGCTAA
1 CCGGGCTAA
39525321 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:39530856 original size:14 final size:15
Alignment explanation
Indices: 39530829--39530857 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39530819 TCAGCTATGT
39530829 GAGGCACATGGCCTG
1 GAGGCACATGGCCTG
39530844 GAGGCAC-TGGCCTG
1 GAGGCACATGGCCTG
39530858 TGCCTTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.17, C:0.28, G:0.41, T:0.14
Consensus pattern (15 bp):
GAGGCACATGGCCTG
Found at i:39531939 original size:50 final size:50
Alignment explanation
Indices: 39531880--39532054 Score: 155
Period size: 50 Copynumber: 3.5 Consensus size: 50
39531870 TGTGAGCTAG
*
39531880 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGA-A-AGAGAAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATA-AGAA-AGCCAA
* * * *
39531930 TGTAAGACCATGTTTGGGATATGGCATCGGCCTCGATATAAGAAAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATAAGAAAGCCAA
** * ** ***
39531980 TGTAAGACCATGTCTGTTACATGGCATC-GACTCGATATGTG-ATTTC-A
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATAAGAAAGCCAA
39532027 TGTAAGACCATGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACA-TGGCAT
39532055 AGTATTGTGA
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
47 19 0.18
48 9 0.09
49 11 0.11
50 59 0.57
51 5 0.05
52 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATAAGAAAGCCAA
Found at i:39532107 original size:43 final size:43
Alignment explanation
Indices: 39532011--39532123 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
39532001 TGGCATCGAC
**
39532011 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACAGAGGCA
* * * *
39532054 TAG-TATTGTGATTTCGTGTAAGACCCTGTGTGGGACAGAGGCA
1 TCGATA-TGTGATTTCATGTAAGACCATGTCTGGGACAGAGGCA
**
39532097 TCGATATGTGATAACATGTAAGACCAT
1 TCGATATGTGATTTCATGTAAGACCAT
39532124 ATCTAGGATA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.04
43 53 0.93
44 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTGGGACAGAGGCA
Found at i:39535506 original size:46 final size:45
Alignment explanation
Indices: 39535456--39535631 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
39535446 TGTTTGGGCA
*
39535456 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
39535502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
39535549 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
39535595 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39535632 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:39535611 original size:93 final size:93
Alignment explanation
Indices: 39535452--39535623 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39535442 AGGATGTTTG
* * *
39535452 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39535517 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
39535545 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39535610 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39535624 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:39537883 original size:47 final size:47
Alignment explanation
Indices: 39537765--39537883 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
39537755 GTTTAACCAT
* *
39537765 GTATATCCACTTAGCACCACGTTAATGAATCGATATATGTAACCGTA
1 GTATATCCACTTAGCACCACGTTACTGAATCAATATATGTAACCGTA
** * * * * *
39537812 ACATATCCACTTAGCACTACGTTACTGTATCAATATGTGTAATCGTG
1 GTATATCCACTTAGCACCACGTTACTGAATCAATATATGTAACCGTA
39537859 GTATATCCACTTAGCACCACGTTAC
1 GTATATCCACTTAGCACCACGTTAC
39537884 ACGTATAACC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (47 bp):
GTATATCCACTTAGCACCACGTTACTGAATCAATATATGTAACCGTA
Found at i:39539746 original size:208 final size:208
Alignment explanation
Indices: 39539384--39539807 Score: 751
Period size: 208 Copynumber: 2.0 Consensus size: 208
39539374 GCATCTCTGT
* *
39539384 CTCTAATTGAAATTCCTGTAGAAGTAGTAGAACTAGGATGATAATCTCTAAATTTCTTTGATGCT
1 CTCTAATTGAAATTCCTGCAGAAGCAGTAGAACTAGGATGATAATCTCTAAATTTCTTTGATGCT
*
39539449 GACTGATACGATTTGCCCGAAAATCTTTCTAGAATCTCTAGACTCAGTATCGGCTTTTCTTTTCT
66 GACTGATACGATTTGCCCGAAAATCTTTCTAGAATCTCTAGACTCAGTATCGACTTTTCTTTTCT
*
39539514 ATTTGCACATCTCTTCGGCTTCACAAGCTTAGTCAAACAAAACAACAAACTCTTTCAGCTCAAGA
131 ATTTGCACATCTCTTCGACTTCACAAGCTTAGTCAAACAAAACAACAAACTCTTTCAGCTCAAGA
39539579 ATTCCAAATAACA
196 ATTCCAAATAACA
*
39539592 CTCTAATTGAAATT-CTAGCAGAAGCAGTAGAACTAGTATGATAATCTCTAAATTTCTTTGATGC
1 CTCTAATTGAAATTCCT-GCAGAAGCAGTAGAACTAGGATGATAATCTCTAAATTTCTTTGATGC
* * *
39539656 TGACTGATGCGATTTGCTCGCAAATCTTTCTAGAATCTCTAGACTCAGTATCGACTTTTCTTTTC
65 TGACTGATACGATTTGCCCGAAAATCTTTCTAGAATCTCTAGACTCAGTATCGACTTTTCTTTTC
*
39539721 TCTTTGCACATCTCTTCGACTTCACAAGCTTAGTCAAACAAAACAACAAACTCTTTCAGCTCAAG
130 TATTTGCACATCTCTTCGACTTCACAAGCTTAGTCAAACAAAACAACAAACTCTTTCAGCTCAAG
39539786 AATTCCAAATAACA
195 AATTCCAAATAACA
39539800 CTCTAATT
1 CTCTAATT
39539808 TCTTCATTTA
Statistics
Matches: 206, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
207 2 0.01
208 204 0.99
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (208 bp):
CTCTAATTGAAATTCCTGCAGAAGCAGTAGAACTAGGATGATAATCTCTAAATTTCTTTGATGCT
GACTGATACGATTTGCCCGAAAATCTTTCTAGAATCTCTAGACTCAGTATCGACTTTTCTTTTCT
ATTTGCACATCTCTTCGACTTCACAAGCTTAGTCAAACAAAACAACAAACTCTTTCAGCTCAAGA
ATTCCAAATAACA
Found at i:39543409 original size:29 final size:29
Alignment explanation
Indices: 39543268--39543397 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
39543258 GACAAGATTG
* * * *
39543268 GCACTAAGTGTGCGGGTTTAAAATTGTATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* * *
39543298 GCACTAAGTGTGCGAGTTTG--ATTCTATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
39543326 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
*
39543355 GCAGTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
39543384 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39543398 GATTCACTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.24
29 48 0.55
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:39545361 original size:23 final size:24
Alignment explanation
Indices: 39545303--39545427 Score: 70
Period size: 22 Copynumber: 5.4 Consensus size: 24
39545293 GAGCCATGAT
**
39545303 CGGTAAGCTCCTCCTGAGCTAATGAA
1 CGGTAAGCT-CTAATGAGCTAA-GAA
*
39545329 CAGTAAGCTCTAATGAGCTAA-AA
1 CGGTAAGCTCTAATGAGCTAAGAA
39545352 CGGTAAGCTCT-ATCGAGCT--GAA
1 CGGTAAGCTCTAAT-GAGCTAAGAA
* **
39545374 CAGTAAGCT-TTGTCGAGCT--GAA
1 CGGTAAGCTCTAAT-GAGCTAAGAA
* *
39545396 CAGTAAGCTCTATTGAGCT--GAA
1 CGGTAAGCTCTAATGAGCTAAGAA
*
39545418 CAGTAAGCTC
1 CGGTAAGCTC
39545428 ATACGAGCTG
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.01
22 49 0.56
23 19 0.22
25 10 0.11
26 8 0.09
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (24 bp):
CGGTAAGCTCTAATGAGCTAAGAA
Found at i:39545382 original size:22 final size:22
Alignment explanation
Indices: 39545325--39545438 Score: 142
Period size: 22 Copynumber: 5.1 Consensus size: 22
39545315 CCTGAGCTAA
39545325 TGAACAGTAAGCTCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
* *
39545347 TAAAACGGTAAGCTCTATCGAGC
1 T-GAACAGTAAGCTCTATCGAGC
* *
39545370 TGAACAGTAAGCTTTGTCGAGC
1 TGAACAGTAAGCTCTATCGAGC
*
39545392 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
39545414 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
39545436 TGA
1 TGA
39545439 TATATCGGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
21 2 0.03
22 60 0.76
23 17 0.22
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:39548474 original size:124 final size:122
Alignment explanation
Indices: 39548254--39548475 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
39548244 GAATTATGTG
* * * *
39548254 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
39548319 TAAGTCCCGAAGGCGATCATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATCATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
39548376 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
* *
39548440 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATCATGCTAGAAATTATA
39548476 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATCATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:39548519 original size:40 final size:40
Alignment explanation
Indices: 39548434--39548584 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
39548424 AATTGAATGA
* * * *
39548434 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
39548474 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
39548515 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
39548554 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
39548585 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:39548598 original size:40 final size:40
Alignment explanation
Indices: 39548471--39548600 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
39548461 ATGCTGGAAA
* * *
39548471 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
39548511 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
39548551 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
39548591 TTATATCCGG
1 TTATATCCGG
39548601 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:39548599 original size:80 final size:80
Alignment explanation
Indices: 39548433--39548600 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
39548423 AAATTGAATG
* *
39548433 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
39548498 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
39548513 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
39548576 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
39548593 ATATCCGG
1 ATATCCGG
39548601 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:39555786 original size:48 final size:46
Alignment explanation
Indices: 39555724--39555893 Score: 211
Period size: 48 Copynumber: 3.7 Consensus size: 46
39555714 GGTTTGAGAA
*
39555724 CTAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAATG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-ATTGAGACG-ATG
* *
39555772 CTAGTGTAAAACCATGTCTGGGACATGGCATCGGTATTGAGACGAGTA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-ATTGAGACGA-TG
* * * *
39555820 CTAGTGTAAGA-CATGTTTGGGACAT-GCATTGGATACGAGATG-TG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGAT-TGAGACGATG
39555864 CTAGTGTAAGACCATGTCTGGGACATGGCA
1 CTAGTGTAAGACCATGTCTGGGACATGGCA
39555894 ACAGCACAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
44 12 0.11
45 15 0.14
46 14 0.13
47 14 0.13
48 52 0.49
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGATTGAGACGATG
Found at i:39558369 original size:47 final size:47
Alignment explanation
Indices: 39558300--39558596 Score: 450
Period size: 47 Copynumber: 6.3 Consensus size: 47
39558290 CCCTTCGGGA
* * * * *
39558300 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39558347 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39558394 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39558441 CTTATCGCACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39558488 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39558535 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39558582 CTTATCATATATATA
1 CTTATCACATATATA
39558597 TGTATATCAT
Statistics
Matches: 225, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39558461 original size:94 final size:94
Alignment explanation
Indices: 39558300--39558596 Score: 522
Period size: 94 Copynumber: 3.2 Consensus size: 94
39558290 CCCTTCGGGA
* * * * *
39558300 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
39558365 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
39558394 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCGCACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
39558459 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
39558488 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
39558553 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
39558582 CTTATCATATATATA
1 CTTATCACATATATA
39558597 TGTATATCAT
Statistics
Matches: 193, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 193 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39562045 original size:40 final size:40
Alignment explanation
Indices: 39562001--39562264 Score: 397
Period size: 40 Copynumber: 6.6 Consensus size: 40
39561991 CCAGCATGAT
* * * *
39562001 TGCTCTTC-GAGACCTAGTCCGGATATATCACCAGGACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
*
39562041 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
39562081 TGCGCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
39562121 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
39562161 TGCTCTTCGGCACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
39562201 TGCTCTTCGGGACTTAG-CTCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
* *
39562241 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGAACTTAGTCCGGAT
39562265 CGTCGTCGAG
Statistics
Matches: 210, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
39 1 0.00
40 206 0.98
41 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:39564678 original size:47 final size:47
Alignment explanation
Indices: 39564609--39564905 Score: 443
Period size: 47 Copynumber: 6.3 Consensus size: 47
39564599 CCCTTCGGGA
* * *
39564609 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
39564656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39564703 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39564750 CTTATCGCACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39564797 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39564844 CTTATCACACATATGCACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39564891 CTTATAACATATATA
1 CTTATCACATATATA
39564906 TGTATATCAT
Statistics
Matches: 225, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 3 0.01
47 222 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39564688 original size:25 final size:24
Alignment explanation
Indices: 39564612--39564738 Score: 66
Period size: 25 Copynumber: 5.3 Consensus size: 24
39564602 TTCGGGACTT
*
39564612 ATCACATTTATACACTTTCACATCC
1 ATCACA-TTATACACTTTCACATTC
*** *
39564637 ATCACATTGGCCAC-TT-AGCCTT-
1 ATCACATTATACACTTTCA-CATTC
39564659 ATCACATATATACACTTTCACATTC
1 ATCACAT-TATACACTTTCACATTC
**** *** *
39564684 ATCACATCGGCCA-TTAGGCCTT-
1 ATCACATTATACACTTTCACATTC
39564706 ATCACATATATACACTTTCACATTC
1 ATCACAT-TATACACTTTCACATTC
39564731 ATCACATT
1 ATCACATT
39564739 GGCCATTCGG
Statistics
Matches: 69, Mismatches: 25, Indels: 17
0.62 0.23 0.15
Matches are distributed among these distances:
22 15 0.22
23 15 0.22
24 18 0.26
25 21 0.30
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.34
Consensus pattern (24 bp):
ATCACATTATACACTTTCACATTC
Found at i:39564770 original size:94 final size:94
Alignment explanation
Indices: 39564609--39564905 Score: 497
Period size: 94 Copynumber: 3.2 Consensus size: 94
39564599 CCCTTCGGGA
* * * * *
39564609 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTT-AGCCTTATCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCA-TTCGGCCTTATCACACATATGCA
39564673 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
39564703 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCGCACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
39564768 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
39564797 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
*
39564862 TTTCACATTCACCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
39564891 CTTATAACATATATA
1 CTTATCACATATATA
39564906 TGTATATCAT
Statistics
Matches: 191, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
93 2 0.01
94 189 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39578238 original size:46 final size:46
Alignment explanation
Indices: 39578140--39578249 Score: 154
Period size: 43 Copynumber: 2.5 Consensus size: 46
39578130 CAGCCTTCAG
* * *
39578140 GATATTATTATGGGATATTATCTTTTAACAATTTAATTCTTATTGA
1 GATATTATTATAGGATATTATCTCTTAACAATTTAATTCTTAATGA
* *
39578186 GATATTA-TA-A-GATATTATCTCTTAGCAATTTGATTCTTAATGA
1 GATATTATTATAGGATATTATCTCTTAACAATTTAATTCTTAATGA
39578229 GATATTATTATAGGATATTAT
1 GATATTATTATAGGATATTAT
39578250 TATGATATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 36 0.64
44 2 0.04
45 3 0.05
46 15 0.27
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (46 bp):
GATATTATTATAGGATATTATCTCTTAACAATTTAATTCTTAATGA
Found at i:39578259 original size:13 final size:13
Alignment explanation
Indices: 39578225--39578262 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
39578215 TTGATTCTTA
39578225 ATGAGATATTATT
1 ATGAGATATTATT
39578238 AT-AGGATATTATT
1 ATGA-GATATTATT
*
39578251 ATGATATATTAT
1 ATGAGATATTAT
39578263 CTTTTAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (13 bp):
ATGAGATATTATT
Found at i:39581349 original size:46 final size:46
Alignment explanation
Indices: 39581245--39581350 Score: 140
Period size: 46 Copynumber: 2.3 Consensus size: 46
39581235 CAAGGCTTAA
*
39581245 TATTCATGTATTCTCAAGTTTGAAACATATACAGGAGCTCAAAACC
1 TATTCATGTATTCTCAAGTCTGAAACATATACAGGAGCTCAAAACC
* * * * **
39581291 TAATCCTTTATTCTCAAGTCTGCAACATATACAGGAGCTCGGAACC
1 TATTCATGTATTCTCAAGTCTGAAACATATACAGGAGCTCAAAACC
*
39581337 TATTCAAGTATTCT
1 TATTCATGTATTCT
39581351 TGTGTTTGCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (46 bp):
TATTCATGTATTCTCAAGTCTGAAACATATACAGGAGCTCAAAACC
Found at i:39583159 original size:28 final size:27
Alignment explanation
Indices: 39583115--39583213 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 27
39583105 TTAAGTGTTA
* *
39583115 AATGTGTCTT-GTTTTAATATATGTTTT
1 AATGTGTCTTAG-CTTAATACATGTTTT
39583142 AAATGTGTCTTAGCTTAAATACATGTTATT
1 -AATGTGTCTTAGCTT-AATACATGTT-TT
* *
39583172 AATATGTCTTAGCTTAAAACATGCTTTT
1 AATGTGTCTTAGCTTAATACATG-TTTT
*
39583200 AATGTGTCCTAGCT
1 AATGTGTCTTAGCT
39583214 GCTGCTGAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
28 33 0.54
29 26 0.43
30 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (27 bp):
AATGTGTCTTAGCTTAATACATGTTTT
Found at i:39583179 original size:29 final size:28
Alignment explanation
Indices: 39583115--39583213 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
39583105 TTAAGTGTTA
* * *
39583115 AATGTGTCTT-GTTTTAATATATGTTTT
1 AATGTGTCTTAGCTTAAATACATGTTTT
39583142 AAATGTGTCTTAGCTTAAATACATGTTATT
1 -AATGTGTCTTAGCTTAAATACATGTT-TT
*
39583172 AATATGTCTTAGCTTAAA-ACATGCTTTT
1 AATGTGTCTTAGCTTAAATACATG-TTTT
*
39583200 AATGTGTCCTAGCT
1 AATGTGTCTTAGCT
39583214 GCTGCTGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 29 0.47
29 31 0.50
30 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (28 bp):
AATGTGTCTTAGCTTAAATACATGTTTT
Found at i:39592301 original size:40 final size:40
Alignment explanation
Indices: 39592239--39592485 Score: 235
Period size: 40 Copynumber: 6.2 Consensus size: 40
39592229 CGAATGATAA
* *
39592239 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* * *
39592279 CCGGGCTAAGTCTCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
*
39592319 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
*
39592359 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * *
39592397 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* * *
39592438 CCGGGCTAAGTCCTGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
39592478 CC-GGCTAA
1 CCGGGCTAA
39592486 ACTCCGAAGG
Statistics
Matches: 175, Mismatches: 19, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 39 0.22
40 125 0.71
41 5 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:39592442 original size:79 final size:79
Alignment explanation
Indices: 39592238--39592462 Score: 283
Period size: 80 Copynumber: 2.8 Consensus size: 79
39592228 TCGAATGATA
* * ** *
39592238 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCTCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
39592301 TCGTGCGAGCTACTAT
64 TTGTGCGAGCTACTAT
* * * *
39592317 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
39592382 TGTGCGAGTTATTAT
65 TGTGCGAGCTACTAT
* *
39592397 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCTGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
39592462 G
66 G
39592463 AGCTAGTGGC
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 60 0.48
80 63 0.50
81 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAT
Found at i:39592481 original size:119 final size:120
Alignment explanation
Indices: 39592239--39592465 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
39592229 CGAATGATAA
* * * *
39592239 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCTCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * * * *
39592304 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
* * * *
39592359 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
* *
39592422 GTGCAAGTTACTATAACCGGGCTAAGTCCTGAAGGCATTTGAGC
65 GTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGC
39592466 TAGTGGCTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 64 0.70
120 28 0.30
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
Found at i:39592495 original size:79 final size:79
Alignment explanation
Indices: 39592279--39592485 Score: 258
Period size: 79 Copynumber: 2.6 Consensus size: 79
39592269 GTGGCTAATT
* *
39592279 CCGGGCTAAGT-CTCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTT
1 CCGGGCTAAGTCCT-GAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTT
* * *
39592343 GTGCGAGCTATTATAT
64 GTGCAAGCTACTATAA
* *
39592359 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
39592423 TGCAAGTTACTATAA
65 TGCAAGCTACTATAA
* * *
39592438 CCGGGCTAAGTCCTGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
39592486 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 73 0.66
80 35 0.32
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:39595315 original size:20 final size:20
Alignment explanation
Indices: 39595290--39595337 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
39595280 CTTTTACTCT
39595290 CTTTGATTCTAATGTGATTG
1 CTTTGATTCTAATGTGATTG
39595310 CTTTGATTCTAATGTGATTG
1 CTTTGATTCTAATGTGATTG
39595330 CTTTGATT
1 CTTTGATT
39595338 GACCCCAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (20 bp):
CTTTGATTCTAATGTGATTG
Found at i:39600581 original size:40 final size:40
Alignment explanation
Indices: 39600522--39600759 Score: 208
Period size: 40 Copynumber: 6.0 Consensus size: 40
39600512 ATGATAACCA
*
39600522 GGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-TCCG
1 GGCTAAGTCCCGAAG-GCATTTGTGCTAGT-GCTAATATCCG
* * *
39600562 GGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTAATATCCG
* *
39600602 GGCTAAGTCCCGAAGGCGTTTGTGC--GAGCTATTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTA--ATATCCG
* *
39600642 GGCTAAGTCCCGAAGGCATTTGTG-TGAGT--TATTATACCA
1 GGCTAAGTCCCGAAGGCATTTGTGCT-AGTGCTAATAT-CCG
* * * *
39600681 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTAATATCCG
*
39600721 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGT-GCTAATATCC
39600760 AGCTAAACTC
Statistics
Matches: 161, Mismatches: 22, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 31 0.19
40 117 0.73
41 5 0.03
42 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTAATATCCG
Found at i:39600705 original size:79 final size:80
Alignment explanation
Indices: 39600519--39600742 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 80
39600509 CGGATGATAA
* * *
39600519 CCAGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 CCAGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
39600581 TCGTGCGAGCTACTATAT
63 TTGTGCGAGCTACTATAT
* * * *
39600599 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
39600664 TGTGAGTTATTATA-
66 TGCGAGCTACTATAT
* * *
39600678 CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
39600743 AGCTAGTGGC
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 58 0.47
80 62 0.50
81 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGCTACTATAT
Found at i:39600765 original size:79 final size:78
Alignment explanation
Indices: 39600559--39600765 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 78
39600549 GTGGCTAATT
* * * *
39600559 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATATCC-AGCTAAGTCCCGAAGGCATTTG
* * *
39600624 TGCGAGCTATTATAT
64 TGCAAGCTACTATAA
*
39600639 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTATTATA-CCAGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATATCCA-GCTAAGTCCCGAAGGCATTT
*
39600702 GTGCAAGTTACTATAA
63 GTGCAAGCTACTATAA
* * *
39600718 CTGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCAGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTATATCCAGCTAA
39600766 ACTCCAAAGG
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.64
80 38 0.35
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTATATCCAGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAA
Found at i:39606009 original size:46 final size:47
Alignment explanation
Indices: 39605851--39606207 Score: 263
Period size: 46 Copynumber: 7.6 Consensus size: 47
39605841 TCATTTGTGT
* *
39605851 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTA-A
* * * *
39605897 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-A
* * *
39605945 GCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGTGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
* *
39605991 GCCAGTGTATGA-CATGTCTTGGACATGCATCGG-CTACGAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAA
* * * * *
39606035 GTCAGTGTAAGACCATATCTGGGACATGGCATCGGCATGGAGATGTGGGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT--AA
* * ** **
39606085 GCCAGTGTAAGACCATGTCTAGGACATGGC-TCAGCCTCGATTTCAACA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-A
* * * *
39606133 GTCAGTGTAAGACCATGTCTGGGACTTGGCATC-GACT--TGATGGATAA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGAT-G-TAA
*
39606180 GCCAGTGTAAGACCATGTCTGGGTCATG
1 GCCAGTGTAAGACCATGTCTGGGACATG
39606208 GCTTCAGCAT
Statistics
Matches: 248, Mismatches: 47, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.04
45 14 0.06
46 76 0.31
47 55 0.22
48 55 0.22
49 11 0.04
50 27 0.11
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
Found at i:39606196 original size:95 final size:98
Alignment explanation
Indices: 39606035--39606215 Score: 244
Period size: 95 Copynumber: 1.9 Consensus size: 98
39606025 TACGAGATGT
* *
39606035 GTCAGTGTAAGACCATATCTGGGACATGGCATCGGCATGGAGATGTGGGAGCCAGTGTAAGACCA
1 GTCAGTGTAAGACCATATCTGGGACATGGCATCGACAT-GAGATGTGGAAGCCAGTGTAAGACCA
39606100 TGTCTAGGACATGGC-TCAGCCTCGATTTCAACA
65 TGTCTAGGACATGGCTTCAGCCTCGATTTCAACA
* * * *
39606133 GTCAGTGTAAGACCATGTCTGGGACTTGGCATCGAC-T-TGATG-GATAAGCCAGTGTAAGACCA
1 GTCAGTGTAAGACCATATCTGGGACATGGCATCGACATGAGATGTG-GAAGCCAGTGTAAGACCA
* *
39606195 TGTCTGGGTCATGGCTTCAGC
65 TGTCTAGGACATGGCTTCAGC
39606216 ATTACACCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 1 0.01
95 33 0.45
96 5 0.07
97 1 0.01
98 33 0.45
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (98 bp):
GTCAGTGTAAGACCATATCTGGGACATGGCATCGACATGAGATGTGGAAGCCAGTGTAAGACCAT
GTCTAGGACATGGCTTCAGCCTCGATTTCAACA
Found at i:39612018 original size:43 final size:43
Alignment explanation
Indices: 39611962--39612061 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
39611952 TAGGATATTT
* **
39611962 TTATAGGATATTATATTTTAGTAATTTAAGCCCTAATGGGATA
1 TTATAGGATATTATATCTTAACAATTTAAGCCCTAATGGGATA
* * * **
39612005 TTATAAGATATTATCTCTTAACAATTTGATTCCTAATGGGATA
1 TTATAGGATATTATATCTTAACAATTTAAGCCCTAATGGGATA
39612048 TTATAGGATATTAT
1 TTATAGGATATTAT
39612062 TATGGGATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (43 bp):
TTATAGGATATTATATCTTAACAATTTAAGCCCTAATGGGATA
Found at i:39612477 original size:20 final size:20
Alignment explanation
Indices: 39612441--39612490 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
39612431 ATCAAAACTT
*
39612441 TACTTTAA-TATAATATTTA
1 TACTTTAATTATAATATTCA
* *
39612460 TAGTTTAATTATATTATTCA
1 TACTTTAATTATAATATTCA
39612480 TACTTT-ATTAT
1 TACTTTAATTAT
39612491 CTTCAATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
TACTTTAATTATAATATTCA
Found at i:39612817 original size:27 final size:27
Alignment explanation
Indices: 39612774--39612826 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
39612764 ATAACTATAA
* *
39612774 AGCCAGGTCCCTGTACTGTCTCTCAAT
1 AGCCAGGTCCCTATACTATCTCTCAAT
*
39612801 AGCCAGGTCTCTATACTATCTCTCAA
1 AGCCAGGTCCCTATACTATCTCTCAA
39612827 CACCCCACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (27 bp):
AGCCAGGTCCCTATACTATCTCTCAAT
Found at i:39613926 original size:22 final size:22
Alignment explanation
Indices: 39613901--39613952 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
39613891 AAACAGGGTC
* * *
39613901 ACACGCCCTTGTGGGCATAGGG
1 ACACGCCCGTGTGGACATAAGG
39613923 ACACGCCCGTGTGGACATAAGG
1 ACACGCCCGTGTGGACATAAGG
39613945 ACACGCCC
1 ACACGCCC
39613953 ATATGCCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGGACATAAGG
Found at i:39615871 original size:50 final size:50
Alignment explanation
Indices: 39615797--39616032 Score: 209
Period size: 50 Copynumber: 4.9 Consensus size: 50
39615787 ACATATTGAT
* * * * *
39615797 GCCGATGTCATATCCGAGATATGGTCTTACACTGGCTCTCATATATCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAG
* * * * **
39615847 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATCTGT-TGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAG
* * *
39615896 TGCCGATGCCATGTTCCAGACATGGTCTTACACT-G---ACACATATCAA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAG
* * * * *
39615942 GCCGATGCCTTGTCCCAGACATGGTCTTACATTAGCTTTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAG
* * *
39615992 GCCGATG-CATGTCCTAGACAT-GTCTTATAGTAGCTCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
39616033 ATAGTAGTGT
Statistics
Matches: 151, Mismatches: 28, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
45 30 0.20
46 5 0.03
48 17 0.11
49 21 0.14
50 78 0.52
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAG
Found at i:39615996 original size:95 final size:94
Alignment explanation
Indices: 39615839--39616018 Score: 249
Period size: 95 Copynumber: 1.9 Consensus size: 94
39615829 TGGCTCTCAT
* * * *
39615839 ATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATCTGTTGGTGCCGATG
1 ATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGGTGCCGATG
39615904 CCATGTTCC-AGACATGGTCTTACACTGACAC
66 -CATG-TCCTAGACAT-GTCTTACACTGACAC
* *
39615935 ATATCAA-GCCGATGCCTTGTCCCAGACATGGTCTTACATTAGCTTTCATATCTCGAG-GCCGAT
1 ATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCG-GTGCCGAT
39615998 GCATGTCCTAGACATGTCTTA
65 GCATGTCCTAGACATGTCTTA
39616019 TAGTAGCTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
93 9 0.12
94 10 0.13
95 49 0.64
96 8 0.11
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (94 bp):
ATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGGTGCCGATG
CATGTCCTAGACATGTCTTACACTGACAC
Found at i:39621476 original size:42 final size:42
Alignment explanation
Indices: 39621417--39621501 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
39621407 AAGACCACAA
39621417 AGACAAACAATTCGGTAAATTCCTTAAACTCCTTAAAAAATT
1 AGACAAACAATTCGGTAAATTCCTTAAACTCCTTAAAAAATT
39621459 AGACAAACAATTCGGTAAATTCCTTAAACTCCTTAAAAAATT
1 AGACAAACAATTCGGTAAATTCCTTAAACTCCTTAAAAAATT
39621501 A
1 A
39621502 CATATTAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (42 bp):
AGACAAACAATTCGGTAAATTCCTTAAACTCCTTAAAAAATT
Found at i:39623346 original size:22 final size:21
Alignment explanation
Indices: 39623317--39623357 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
39623307 CCTAGTTTTT
*
39623317 TTTCCTTTTTTTTCCTTCCCA
1 TTTCCTTTCTTTTCCTTCCCA
*
39623338 TTTCTCTTTCTTTTCTTTCC
1 TTTC-CTTTCTTTTCCTTCC
39623358 TTTCTTCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTCCTTTCTTTTCCTTCCCA
Found at i:39623915 original size:3 final size:3
Alignment explanation
Indices: 39623907--39623978 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
39623897 TCTTCATTCA
39623907 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
39623955 ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
39623979 TTCTATTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:39625278 original size:6 final size:6
Alignment explanation
Indices: 39625263--39625312 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
39625253 ATTGAGTCCA
* *
39625263 TTTATC TTTATG TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
39625311 TT
1 TT
39625313 GTTTTCCTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:39632770 original size:30 final size:30
Alignment explanation
Indices: 39632736--39632796 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39632726 TCCTTAACTC
39632736 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
39632766 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
39632796 A
1 A
39632797 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:39635157 original size:25 final size:23
Alignment explanation
Indices: 39635120--39635169 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
39635110 AATTTAAATT
39635120 TAAATTTTTTTAAA-TAATTAATA
1 TAAATTTTTTTAAATTAA-TAATA
39635143 TAAATTATTTGTTAAATTAATAATA
1 TAAATT-TTT-TTAAATTAATAATA
39635168 TA
1 TA
39635170 TAAAAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 3 0.12
25 12 0.50
26 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAATTTTTTTAAATTAATAATA
Found at i:39637378 original size:19 final size:19
Alignment explanation
Indices: 39637332--39637379 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
39637322 TTATATATTT
**
39637332 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGAAAGA
*
39637350 TAAATCTTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
39637369 TAAATTTTATT
1 TAAATTTTATT
39637380 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:39641253 original size:19 final size:18
Alignment explanation
Indices: 39641225--39641273 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
39641215 TATATATTTT
*
39641225 AAATTTATTTAGGTAGAA
1 AAATTTATTTAGGAAGAA
39641243 AAATCTTATTTAGGAAGATA
1 AAAT-TTATTTAGGAAGA-A
*
39641263 AATTTTATTTA
1 AAATTTATTTA
39641274 TATTCTAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (18 bp):
AAATTTATTTAGGAAGAA
Found at i:39646001 original size:29 final size:29
Alignment explanation
Indices: 39645959--39646040 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
39645949 ATTATTTTTT
*
39645959 TTTCCAGTATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
39645988 TTTCTAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
39646017 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
39646041 TATCTCGTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:39653212 original size:29 final size:29
Alignment explanation
Indices: 39653170--39653251 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
39653160 TATTTTTTTT
39653170 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
39653199 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
39653228 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
39653252 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:39655372 original size:40 final size:40
Alignment explanation
Indices: 39655293--39655450 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
39655283 TTCGAATGAT
* * * *
39655293 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
39655333 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
39655373 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
39655413 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
39655451 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:39655471 original size:80 final size:80
Alignment explanation
Indices: 39655293--39655480 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
39655283 TTCGAATGAT
* *
39655293 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
39655358 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
39655373 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
39655434 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
39655454 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
39655481 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:39663430 original size:40 final size:40
Alignment explanation
Indices: 39663351--39663508 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
39663341 TTCGAATGAT
* * * *
39663351 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
39663391 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
39663431 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
39663471 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
39663509 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:39663529 original size:80 final size:80
Alignment explanation
Indices: 39663351--39663538 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
39663341 TTCGAATGAT
* *
39663351 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
39663416 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
39663431 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
39663492 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
39663512 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
39663539 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:39667616 original size:44 final size:43
Alignment explanation
Indices: 39667475--39667633 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
39667465 AGCTCATATA
* * *
39667475 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAA-GTCG
* * *
39667518 ATACC-ACTGTCCTAGACAG-GGTCTTACAC-AAAATC-AAGTACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAAGT-CG
39667560 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AAGTCG
* *
39667604 ATGCCAATGTCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
39667634 AAAACACATA
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 32 0.33
44 31 0.32
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAAGTCG
Found at i:39671726 original size:40 final size:40
Alignment explanation
Indices: 39671681--39671847 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
39671671 CGGAATATAA
39671681 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
39671721 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
39671761 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39671801 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39671840 CCGGATAT
1 CCGGATAT
39671848 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39671831 original size:80 final size:79
Alignment explanation
Indices: 39671681--39671847 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
39671671 CGGAATATAA
* *
39671681 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
39671746 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
39671761 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
39671823 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
39671840 CCGGATAT
1 CCGGATAT
39671848 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:39672694 original size:17 final size:19
Alignment explanation
Indices: 39672671--39672716 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
39672661 AAGAAGCATG
39672671 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
39672689 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
39672707 AATCATGCTC
1 AATCATGCTC
39672717 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:39673827 original size:68 final size:68
Alignment explanation
Indices: 39673680--39673835 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
39673670 AGCCGATTTG
* * * * *
39673680 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
39673745 TATC
65 TATA
* *
39673749 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
39673811 ATATAGTA
62 ATATA-TA
39673819 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
39673836 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:39684174 original size:68 final size:68
Alignment explanation
Indices: 39684027--39684182 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
39684017 AGCCGATTTG
* * * * *
39684027 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
39684092 TATC
65 TATA
* *
39684096 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
39684158 ATATAGTA
62 ATATA-TA
39684166 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
39684183 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:39695671 original size:3 final size:3
Alignment explanation
Indices: 39695655--39695696 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
39695645 TGAAATCTTC
* * *
39695655 ATT ATT ATG GTT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
39695697 TTAGTTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:39695672 original size:12 final size:12
Alignment explanation
Indices: 39695655--39695696 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
39695645 TGAAATCTTC
*
39695655 ATTATTATGGTT
1 ATTATTATTGTT
39695667 ATTATTATTGTT
1 ATTATTATTGTT
*
39695679 ATTATTATTATT
1 ATTATTATTGTT
39695691 ATTATT
1 ATTATT
39695697 TTAGTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (12 bp):
ATTATTATTGTT
Found at i:39698040 original size:25 final size:25
Alignment explanation
Indices: 39698012--39698059 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39698002 TTATACCATG
* * *
39698012 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39698037 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39698060 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39698114 original size:9 final size:9
Alignment explanation
Indices: 39698097--39698154 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
39698087 TTTTGATAAA
*
39698097 TATGGTATG
1 TATGATATG
39698106 TATGATATG
1 TATGATATG
*
39698115 TACATGAAATG
1 T--ATGATATG
39698126 TATGATATG
1 TATGATATG
*
39698135 CACATGATATG
1 --TATGATATG
39698146 TATGATATG
1 TATGATATG
39698155 CACATGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (9 bp):
TATGATATG
Found at i:39698128 original size:20 final size:20
Alignment explanation
Indices: 39698103--39698161 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
39698093 TAAATATGGT
*
39698103 ATGTATGATATGTACATGAA
1 ATGTATGATATGCACATGAA
*
39698123 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
39698143 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
39698162 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:39698239 original size:24 final size:24
Alignment explanation
Indices: 39698212--39698378 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
39698202 GAGGAAGTGA
39698212 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
39698236 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
39698260 AAAAAGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
39698284 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
39698307 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
39698331 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
39698355 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
39698379 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 23 0.17
24 99 0.74
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:39698329 original size:71 final size:71
Alignment explanation
Indices: 39698212--39698379 Score: 248
Period size: 71 Copynumber: 2.3 Consensus size: 71
39698202 GAGGAAGTGA
39698212 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCC
39698277 AGTTATC
65 AGTTATC
** * *
39698284 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCCA
*
39698349 GTTATT
66 GTTATC
*
39698355 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
39698380 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 53 0.60
72 35 0.40
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCCA
GTTATC
Found at i:39698605 original size:31 final size:31
Alignment explanation
Indices: 39698570--39698664 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
39698560 CGTTTACAGT
39698570 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39698601 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
39698632 AAAGGCTTCAGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39698663 AA
1 AA
39698665 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39709173 original size:28 final size:27
Alignment explanation
Indices: 39709137--39709305 Score: 149
Period size: 28 Copynumber: 5.9 Consensus size: 27
39709127 TCATACATGT
* *
39709137 ATATTGCCCACTTGGCCCAATCTCATTC
1 ATATGGCCCA-TTGGCCCAATCACATTC
* *
39709165 ATATAGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCAT-TGGCCCAA-TCACATTC
* *
39709194 ATATGGTCCATCAGGCCCAATTCACATTC
1 ATATGGCCCAT-TGGCCCAA-TCACATTC
* * * *
39709223 ATATTGCCTATTAGGCCCAATCTCATTT
1 ATATGGCCCATT-GGCCCAATCACATTC
*
39709251 ATATGGCCCATTAGGCCCAATCACATTT
1 ATATGGCCCATT-GGCCCAATCACATTC
*
39709279 ATATGGCCCATCTGGTCCAAATCACAT
1 ATATGGCCCAT-TGG-CCCAATCACAT
39709306 AATATTCATG
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 60 0.50
29 60 0.50
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (27 bp):
ATATGGCCCATTGGCCCAATCACATTC
Found at i:39709204 original size:29 final size:28
Alignment explanation
Indices: 39709150--39709305 Score: 177
Period size: 29 Copynumber: 5.5 Consensus size: 28
39709140 TTGCCCACTT
* *
39709150 GGCCCAATCTCATTCATATAGCCCATCA
1 GGCCCAATCACATTCATATGGCCCATCA
*
39709178 GGCCCAATTCACATTCATATGGTCCATCA
1 GGCCCAA-TCACATTCATATGGCCCATCA
* * *
39709207 GGCCCAATTCACATTCATATTGCCTATTA
1 GGCCCAA-TCACATTCATATGGCCCATCA
* * *
39709236 GGCCCAATCTCATTTATATGGCCCATTA
1 GGCCCAATCACATTCATATGGCCCATCA
* *
39709264 GGCCCAATCACATTTATATGGCCCATCT
1 GGCCCAATCACATTCATATGGCCCATCA
*
39709292 GGTCCAAATCACAT
1 GG-CCCAATCACAT
39709306 AATATTCATG
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
28 51 0.46
29 60 0.54
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.29
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCA
Found at i:39709249 original size:86 final size:85
Alignment explanation
Indices: 39709137--39709305 Score: 232
Period size: 86 Copynumber: 2.0 Consensus size: 85
39709127 TCATACATGT
*
39709137 ATATTGCCCACTTGGCCCAATCTCATTCATATAGCCCATCAGGCCCAATTCACATTCATATGGTC
1 ATATTGCCCACTTGGCCCAATCTCATTCATATAGCCCATCAGGCCCAA-TCACATTCATATGGCC
*
39709202 CATCAGGCCCAATTCACATTC
65 CATCAGGCCCAAATCACATTC
* * * * *
39709223 ATATTGCCTA-TTAGGCCCAATCTCATTTATATGGCCCATTAGGCCCAATCACATTTATATGGCC
1 ATATTGCCCACTT-GGCCCAATCTCATTCATATAGCCCATCAGGCCCAATCACATTCATATGGCC
* *
39709287 CATCTGGTCCAAATCACAT
65 CATCAGGCCCAAATCACAT
39709306 AATATTCATG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
85 32 0.44
86 41 0.56
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (85 bp):
ATATTGCCCACTTGGCCCAATCTCATTCATATAGCCCATCAGGCCCAATCACATTCATATGGCCC
ATCAGGCCCAAATCACATTC
Found at i:39709402 original size:18 final size:19
Alignment explanation
Indices: 39709379--39709415 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39709369 TGGGCCCAAC
*
39709379 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCCGGCCCATTT
39709397 AGCCCATTCCGGCCCATTT
1 AGCCCATTCCGGCCCATTT
39709416 GGCCTACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.41, G:0.19, T:0.24
Consensus pattern (19 bp):
AGCCCATTCCGGCCCATTT
Done.