Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 157 of 207
Found at i:48198424 original size:30 final size:28
Alignment explanation
Indices: 48198390--48198484 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 28
48198380 TCCAATTTGG
48198390 TACCTAAACTTACATTTTTTCCTAATTTAA
1 TACCTAAACTTAC-TTTTTTCCTAATTT-A
* *
48198420 TACCTAATCTT--TTTGGTAGTCC-AATTTGA
1 TACCTAAACTTACTTT--T-TTCCTAATTT-A
*
48198449 TACCTAAACTTGACTTTTTTCCTAATTTG
1 TACCTAAACTT-ACTTTTTTCCTAATTTA
48198478 TACCTAA
1 TACCTAA
48198485 TCTCTTCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
27 3 0.06
29 27 0.52
30 19 0.37
32 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.45
Consensus pattern (28 bp):
TACCTAAACTTACTTTTTTCCTAATTTA
Found at i:48198601 original size:7 final size:7
Alignment explanation
Indices: 48198591--48198627 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
48198581 ATATATGACC
48198591 GACATGT
1 GACATGT
48198598 GACATGT
1 GACATGT
48198605 GACATGT
1 GACATGT
48198612 GA-ATTGT
1 GACA-TGT
48198619 GACATGT
1 GACATGT
48198626 GA
1 GA
48198628 TATGATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.04
7 26 0.93
8 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (7 bp):
GACATGT
Found at i:48199034 original size:59 final size:59
Alignment explanation
Indices: 48198905--48199052 Score: 158
Period size: 59 Copynumber: 2.5 Consensus size: 59
48198895 ATTGAATCTA
** * * *
48198905 AAAAAAGAGCTTAGATATCAAATTAAGAAAAAGTATCAAGTTCAAGTACCAAATTGGGCC
1 AAAAAAGAATTTAGATACCAAATTAA-AAAAAATATCAAGTTCAAATACCAAATTGGGCC
* * * *
48198965 CAAAAA-AATTTAGATACCAAATTAGAAAAAAATGTCAAGTTCAAATATCAAATTGGG-T
1 AAAAAAGAATTTAGATACCAAATTA-AAAAAAATATCAAGTTCAAATACCAAATTGGGCC
* *
48199023 AAAAAAGAATTTAGGTACTAAA-TAAAAAAA
1 AAAAAAGAATTTAGATACCAAATTAAAAAAA
48199053 TGTAAAATTC
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
57 6 0.08
58 7 0.09
59 55 0.74
60 6 0.08
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (59 bp):
AAAAAAGAATTTAGATACCAAATTAAAAAAAATATCAAGTTCAAATACCAAATTGGGCC
Found at i:48199481 original size:2 final size:2
Alignment explanation
Indices: 48199474--48199500 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48199464 CCTGTTTATC
48199474 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48199501 TTAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48201117 original size:16 final size:17
Alignment explanation
Indices: 48201093--48201135 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
48201083 CCCACATTTA
48201093 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
48201109 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
48201125 TTCAATAAAAT
1 TTAAATAAAAT
48201136 GTTTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:48201659 original size:3 final size:3
Alignment explanation
Indices: 48201651--48201679 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48201641 GCATTGACTG
48201651 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48201680 CCTACCGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48204688 original size:23 final size:23
Alignment explanation
Indices: 48204651--48204722 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
48204641 CTTTGGCTTA
* * *
48204651 AAAGACATTGCAGAATACACCAC
1 AAAGACACTGTAGAATACGCCAC
* *
48204674 AAAGGCACTGTAGAATATGCCAC
1 AAAGACACTGTAGAATACGCCAC
* *
48204697 AAAGATATTGTAGAATACGCCAC
1 AAAGACACTGTAGAATACGCCAC
48204720 AAA
1 AAA
48204723 TACATTACAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (23 bp):
AAAGACACTGTAGAATACGCCAC
Found at i:48204736 original size:23 final size:23
Alignment explanation
Indices: 48204710--48204819 Score: 121
Period size: 23 Copynumber: 4.8 Consensus size: 23
48204700 GATATTGTAG
**
48204710 AATACGCCACAAATACATTACAA
1 AATACGCCACAAAGGCATTACAA
* *
48204733 AATACGCCATAAAGGCATTACAG
1 AATACGCCACAAAGGCATTACAA
* *
48204756 AATATGCCACAAAGGCATTACAG
1 AATACGCCACAAAGGCATTACAA
* * *
48204779 AATACACCATAATGGCATTACAA
1 AATACGCCACAAAGGCATTACAA
**
48204802 AATATACCACAAAGGCAT
1 AATACGCCACAAAGGCAT
48204820 CTCAAGTAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.18
Consensus pattern (23 bp):
AATACGCCACAAAGGCATTACAA
Found at i:48204781 original size:69 final size:69
Alignment explanation
Indices: 48204650--48204819 Score: 182
Period size: 69 Copynumber: 2.5 Consensus size: 69
48204640 ACTTTGGCTT
* * * ** * **
48204650 AAAA-GACATTGCAGAATACACCACAAAGGCACTGTAGAATATGCCACAAAGATATTGTAGAATA
1 AAAATGACATTACAAAATACACCACAAAGGCATTACAGAATATGCCACAAAGACATTACAGAATA
*
48204714 CGCC
66 CACC
* * *
48204718 ACAAAT-ACATTACAAAATACGCCATAAAGGCATTACAGAATATGCCACAAAGGCATTACAGAAT
1 A-AAATGACATTACAAAATACACCACAAAGGCATTACAGAATATGCCACAAAGACATTACAGAAT
48204782 ACACC
65 ACACC
* * *
48204787 ATAATGGCATTACAAAATATACCACAAAGGCAT
1 AAAATGACATTACAAAATACACCACAAAGGCAT
48204820 CTCAAGTAAC
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
68 4 0.05
69 78 0.95
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18
Consensus pattern (69 bp):
AAAATGACATTACAAAATACACCACAAAGGCATTACAGAATATGCCACAAAGACATTACAGAATA
CACC
Found at i:48204816 original size:46 final size:46
Alignment explanation
Indices: 48204716--48204819 Score: 145
Period size: 46 Copynumber: 2.3 Consensus size: 46
48204706 GTAGAATACG
** * * *
48204716 CCACAAATACATTACAAAATACGCCATAAAGGCATTACAGAATATG
1 CCACAAAGGCATTACAAAATACACCATAAAGGCATTACAAAATATA
* *
48204762 CCACAAAGGCATTACAGAATACACCATAATGGCATTACAAAATATA
1 CCACAAAGGCATTACAAAATACACCATAAAGGCATTACAAAATATA
48204808 CCACAAAGGCAT
1 CCACAAAGGCAT
48204820 CTCAAGTAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.18
Consensus pattern (46 bp):
CCACAAAGGCATTACAAAATACACCATAAAGGCATTACAAAATATA
Found at i:48207203 original size:23 final size:23
Alignment explanation
Indices: 48207177--48207231 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
48207167 AAAGAAAAAG
48207177 AAAAAGAAAAAAAAAGG-AGAGA
1 AAAAAGAAAAAAAAAGGAAGAGA
* * *
48207199 TAAAAGATAAGAAAAGGAAGAGA
1 AAAAAGAAAAAAAAAGGAAGAGA
48207222 AAGAAAGAAA
1 AA-AAAGAAA
48207232 TATATCATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 14 0.54
23 6 0.23
24 6 0.23
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.04
Consensus pattern (23 bp):
AAAAAGAAAAAAAAAGGAAGAGA
Found at i:48207300 original size:27 final size:26
Alignment explanation
Indices: 48207251--48207302 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
48207241 GTTATAAAAT
*
48207251 AAAGAAAGATAGAGAGAATAAAGAAC
1 AAAGAAAGATAGAAAGAATAAAGAAC
48207277 AAAGAAA-ATATGAAAGCAATAAAGAA
1 AAAGAAAGATA-GAAAG-AATAAAGAA
48207303 TATACTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 11 0.48
27 9 0.39
ACGTcount: A:0.67, C:0.04, G:0.19, T:0.10
Consensus pattern (26 bp):
AAAGAAAGATAGAAAGAATAAAGAAC
Found at i:48211871 original size:17 final size:17
Alignment explanation
Indices: 48211835--48211884 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
48211825 TTAATAGAAC
*
48211835 TAAAAATATCATATAAAAT
1 TAAAAATAT-TTA-AAAAT
48211854 TAAAAATATTTAAAAAT
1 TAAAAATATTTAAAAAT
*
48211871 TATAAA-ATTTAAAA
1 TAAAAATATTTAAAA
48211885 TAATACTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.28
17 10 0.34
18 2 0.07
19 9 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATATTTAAAAAT
Found at i:48220459 original size:19 final size:20
Alignment explanation
Indices: 48220431--48220470 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48220421 TTCTAAATTA
*
48220431 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
48220450 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
48220470 T
1 T
48220471 CTTTTTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:48221223 original size:33 final size:33
Alignment explanation
Indices: 48221181--48221248 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
48221171 AAAAGGGACG
48221181 AATCTAACTTCGAAGATGGAATTGTTGCACTCT
1 AATCTAACTTCGAAGATGGAATTGTTGCACTCT
*
48221214 AATCTAACTTCGAAGATGGAATTGTTTCACTCT
1 AATCTAACTTCGAAGATGGAATTGTTGCACTCT
48221247 AA
1 AA
48221249 CTCACTGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (33 bp):
AATCTAACTTCGAAGATGGAATTGTTGCACTCT
Found at i:48222752 original size:25 final size:25
Alignment explanation
Indices: 48222694--48222741 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
48222684 CAAGCCAATA
*
48222694 GCTCTCCCTGTACAACCAACCTAAG
1 GCTCTTCCTGTACAACCAACCTAAG
48222719 GCTCTTCCTGTACAACCAACCTA
1 GCTCTTCCTGTACAACCAACCTA
48222742 CGGCCTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.40, G:0.10, T:0.23
Consensus pattern (25 bp):
GCTCTTCCTGTACAACCAACCTAAG
Found at i:48227148 original size:18 final size:18
Alignment explanation
Indices: 48227109--48227148 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48227099 TATGCTATGT
*
48227109 TTTTGAAATTTTTAATAT
1 TTTTGAAATTTTTAATAA
* *
48227127 TTTTGCAATTTTTATTAA
1 TTTTGAAATTTTTAATAA
48227145 TTTT
1 TTTT
48227149 TTATATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTGAAATTTTTAATAA
Found at i:48240280 original size:19 final size:19
Alignment explanation
Indices: 48240256--48240294 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48240246 CTTGCAGATA
48240256 TCTTCCATCTGAAAAGCTT
1 TCTTCCATCTGAAAAGCTT
48240275 TCTTCCATCTGAAAAGCTT
1 TCTTCCATCTGAAAAGCTT
48240294 T
1 T
48240295 ATACTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTTCCATCTGAAAAGCTT
Found at i:48240841 original size:14 final size:14
Alignment explanation
Indices: 48240822--48240854 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
48240812 ATCAAGCTAT
48240822 TGAGAGAAGCTAAA
1 TGAGAGAAGCTAAA
48240836 TGAGAGAAGCTAAA
1 TGAGAGAAGCTAAA
48240850 TGAGA
1 TGAGA
48240855 TCCCCATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.30, T:0.15
Consensus pattern (14 bp):
TGAGAGAAGCTAAA
Found at i:48245404 original size:25 final size:24
Alignment explanation
Indices: 48245376--48245531 Score: 107
Period size: 25 Copynumber: 6.2 Consensus size: 24
48245366 AAGCTCTTTC
*
48245376 GAGCCATGTAACGGGAAGCTCATGT
1 GAGCCAT-TAACGGGAAGCTCATGA
** * *
48245401 GAGCTGTATAACTGGAAGCTCAAT-C
1 GAGCCAT-TAACGGGAAGCTC-ATGA
** * *
48245426 GAGCTGTTTATCGGGAAGCTCATAA
1 GAGC-CATTAACGGGAAGCTCATGA
*
48245451 GAGCCATTAATCGGGAAGCTCATGC
1 GAGCCATTAA-CGGGAAGCTCATGA
* ** *
48245476 GAGCCAATTATCAAGAAGCTCAAGA
1 GAGCC-ATTAACGGGAAGCTCATGA
*
48245501 GAGCCATTAATCGGGAAGCTCGTGA
1 GAGCCATTAA-CGGGAAGCTCATGA
48245526 GAGCCA
1 GAGCCA
48245532 AATATTAGGA
Statistics
Matches: 100, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
24 9 0.09
25 84 0.84
26 7 0.07
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATGA
Found at i:48245554 original size:50 final size:50
Alignment explanation
Indices: 48245440--48245554 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 50
48245430 TGTTTATCGG
* *
48245440 GAAGCTCATAAGAGCCATTAATCGGGAAGCTCATGCGAGCCAATTATCAA
1 GAAGCTCATAAGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAA
* * *
48245490 GAAGCTCA-AGAGAGCCATTAATCGGGAAGCTCGTGAGAGCCAAATATTAG
1 GAAGCTCATA-AGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAA
*
48245540 GATGCTCATAAGAGC
1 GAAGCTCATAAGAGC
48245555 TGTGGTGTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 1 0.02
50 55 0.96
51 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (50 bp):
GAAGCTCATAAGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAA
Found at i:48253433 original size:35 final size:36
Alignment explanation
Indices: 48253375--48253450 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
48253365 AATCCCTCCA
* *
48253375 AAACACACCAAATGCTTACAAGAGCTAGTCCAACCG
1 AAACAAACCAAATGCTCACAAGAGCTAGTCCAACCG
* *
48253411 AAACAAACC-AATGCTCATAAGAGCTAGTCTAACCG
1 AAACAAACCAAATGCTCACAAGAGCTAGTCCAACCG
48253446 AAACA
1 AAACA
48253451 TGCCAAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 28 0.78
36 8 0.22
ACGTcount: A:0.45, C:0.28, G:0.13, T:0.14
Consensus pattern (36 bp):
AAACAAACCAAATGCTCACAAGAGCTAGTCCAACCG
Found at i:48266956 original size:14 final size:15
Alignment explanation
Indices: 48266937--48266966 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48266927 TTACAGTTCT
48266937 ATAATAATTT-TTTA
1 ATAATAATTTATTTA
48266951 ATAATAATTTATTTA
1 ATAATAATTTATTTA
48266966 A
1 A
48266967 ATTTATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATAATTTATTTA
Found at i:48267700 original size:155 final size:153
Alignment explanation
Indices: 48267421--48267831 Score: 646
Period size: 155 Copynumber: 2.7 Consensus size: 153
48267411 AAATTTTGTA
* * * *
48267421 TATAAAATAACTGTTGATTCGGTTTACACGAAAACCGAGTCATTCTAT-G-GTGTATACGTCGCA
1 TATAAAATAACTGTTGATTCAGTTT-CACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCA
* *
48267484 GAAGTGAGAAGAGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTCT
65 GAAATGGGAAGAGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTCT
*
48267549 GCGAGATTCTTTGAAATGTTTTAC
130 GCAAGATTCTTTGAAATGTTTTAC
* * *
48267573 TATAAAATAACTGTTGATTTAGTTTCTACGAAAACTGAGTCATACTATGGTGTGTATACATTACA
1 TATAAAATAACTGTTGATTCAGTTTC-ACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCA
*
48267638 GAAATGGGAAGAGGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAGGCCATAGAGTCATGTTC
65 GAAATGGGAAGA-GGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTC
48267703 TGCAAGATTCTTTGAAATGTTTTAC
129 TGCAAGATTCTTTGAAATGTTTTAC
*
48267728 TATAAAATAACTGTTGATTCAGTTTCCACGAAAACTGAATCATACTATGGTGTGTATACGTTGCA
1 TATAAAATAACTGTTGATTCAGTTT-CACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCA
* *
48267793 GAAATGGGAAGAGGAAAGAGAAATGCATTAACCGCTCTA
65 GAAATGGGAAGAGGAAGGAGAAGTGCATTAACCGCTCTA
48267832 TCTCTCACTC
Statistics
Matches: 237, Mismatches: 17, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
151 1 0.00
152 42 0.18
153 1 0.00
154 46 0.19
155 146 0.62
156 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (153 bp):
TATAAAATAACTGTTGATTCAGTTTCACGAAAACTGAGTCATACTATGGTGTGTATACGTTGCAG
AAATGGGAAGAGGAAGGAGAAGTGCATTAACCGCTCTACCCATTAAGCCATAGAGTCATGTTCTG
CAAGATTCTTTGAAATGTTTTAC
Found at i:48269528 original size:16 final size:16
Alignment explanation
Indices: 48269503--48269539 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
48269493 TTAGTTCGCT
48269503 GTAATGGAATAGAGCC
1 GTAATGGAATAGAGCC
* *
48269519 GTAATTGAATAGAGCT
1 GTAATGGAATAGAGCC
48269535 GTAAT
1 GTAAT
48269540 AAGTAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (16 bp):
GTAATGGAATAGAGCC
Found at i:48273145 original size:23 final size:22
Alignment explanation
Indices: 48273094--48273145 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
48273084 CCTCGTCTTT
*
48273094 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
48273116 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
48273139 TTCTTTT
1 TTCTTTT
48273146 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:48273154 original size:12 final size:12
Alignment explanation
Indices: 48273103--48273157 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
48273093 TTTCTTTTGT
48273103 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
48273116 -TCATTTTC-TC
1 TTCTTTTTCAAC
48273126 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
48273139 TTCTTTTTCAAT
1 TTCTTTTTCAAC
48273151 TTCTTTT
1 TTCTTTT
48273158 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:48273164 original size:17 final size:18
Alignment explanation
Indices: 48273139--48273176 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
48273129 TTTCTTCAAC
* *
48273139 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
48273156 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
48273174 TTC
1 TTC
48273177 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:48276961 original size:15 final size:17
Alignment explanation
Indices: 48276931--48276964 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
48276921 AGATTCTTCT
48276931 AAATTCCTATAAATTTC
1 AAATTCCTATAAATTTC
48276948 AAATT-CTA-AAATTTC
1 AAATTCCTATAAATTTC
48276963 AA
1 AA
48276965 TCTTGATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 3 0.18
17 5 0.29
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTCCTATAAATTTC
Found at i:48281859 original size:17 final size:17
Alignment explanation
Indices: 48281837--48281872 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48281827 TTACTAACTA
48281837 ATTAATTTCTTTATTCT
1 ATTAATTTCTTTATTCT
48281854 ATTAATTTCTTTATTCT
1 ATTAATTTCTTTATTCT
48281871 AT
1 AT
48281873 CTTAATTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTAATTTCTTTATTCT
Found at i:48284477 original size:51 final size:50
Alignment explanation
Indices: 48284363--48284578 Score: 342
Period size: 51 Copynumber: 4.3 Consensus size: 50
48284353 CTTACGTATG
* *
48284363 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
*
48284413 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
*
48284464 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTTAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGC-TAAGCTACCACTT
* * *
48284515 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
48284566 ATCACTTGTCACT
1 ATCACTTGTCACT
48284579 GATCAGAAGT
Statistics
Matches: 153, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
50 36 0.24
51 116 0.76
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (50 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
Found at i:48289050 original size:11 final size:11
Alignment explanation
Indices: 48289034--48289058 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48289024 TATAGTATAA
48289034 ATATTTAAAAT
1 ATATTTAAAAT
48289045 ATATTTAAAAT
1 ATATTTAAAAT
48289056 ATA
1 ATA
48289059 AAACCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:48292314 original size:15 final size:16
Alignment explanation
Indices: 48292294--48292326 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48292284 ATAGGGATAT
48292294 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
48292309 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
48292325 AA
1 AA
48292327 AGAGACATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:48292494 original size:192 final size:194
Alignment explanation
Indices: 48291989--48292519 Score: 579
Period size: 192 Copynumber: 2.7 Consensus size: 194
48291979 AAAGTGCACA
* * * * ** * * *
48291989 CAAGTATACTAAATATTAACCTTTAAGAGAAATTATTTGGTATGCTGTTAATGGAGTTTTTAGAC
1 CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAAC
* * * * *
48292054 TCTACAAGTAAAGTCCGAGGTTGACAAGTGTCTTATAGAGATATAGTAAAATATT-AAAAATAAA
66 TC-ACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGGTATAGTAAAATATTAAAAAATAAA
*
48292118 TA-TTTAAAAGAAGGAGACACATGCCAATTTTTTAAGGTTGTTTGTGAAATAAAAAAAGTAGTAC
130 TATTTTAAAA-AA--AGACACATGCCAATTTTTCAAGGTTGTTTGTGAAATAAAAAAAG-AGTAC
48292182 ATTG
191 ATTG
** * * * * ** *
48292186 CAAGTGTATTAAATACTAACCCTTAA-AGAAATTATATGGTACATTACCAGTAAAGGTTTTAAAT
1 CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAA-
* * * * * * *
48292250 TTCACAAGCAAGATAAGGGATTGACAAGTGTCTTAT-AGGGATATAATAAAATATTAAAAAATAA
65 CTCACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGG-TATAGTAAAATATTAAAAAATAA
* * *
48292314 ATATTTTAAAAAAAGAGACATGCTAATTTTTCAAGGTTGTTTGTGGAATAAAAAAA-AGTACATT
129 ATATTTTAAAAAAAGACACATGCCAATTTTTCAAGGTTGTTTGTGAAATAAAAAAAGAGTACATT
48292378 G
194 G
* * *
48292379 CCA-TGTACAAAATACTAACCCTTAAGGGAAATTATTTGATACACTGCTAGTGGAGTTTTTAAAC
1 CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAAC
* * * * *
48292443 TCCCAAGTAGGGTCAGGGGTTGACAAGTGTTTTATAAAGGCATAGTAAAATAATAAAAAATAAAT
66 TCACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGGTATAGTAAAATATTAAAAAATAAAT
48292508 ATTTTAAAAAAA
131 ATTTTAAAAAAA
48292520 ATACATATAA
Statistics
Matches: 272, Mismatches: 56, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
192 82 0.30
193 42 0.15
195 40 0.15
196 64 0.24
197 37 0.14
198 7 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (194 bp):
CAAGTGTACAAAATACTAACCCTTAAGAGAAATTATTTGGTACACTGCTAGTGGAGTTTTTAAAC
TCACAAGTAAGGTCAGGGGTTGACAAGTGTCTTATAAAGGTATAGTAAAATATTAAAAAATAAAT
ATTTTAAAAAAAGACACATGCCAATTTTTCAAGGTTGTTTGTGAAATAAAAAAAGAGTACATTG
Found at i:48292585 original size:34 final size:34
Alignment explanation
Indices: 48292547--48292615 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
48292537 AAGACTACTT
48292547 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
1 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
48292581 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
1 TTGGAATAAAAACATACATTGTTCGTGTACTAAA
48292615 T
1 T
48292616 AGTAACCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (34 bp):
TTGGAATAAAAACATACATTGTTCGTGTACTAAA
Found at i:48297471 original size:25 final size:25
Alignment explanation
Indices: 48297438--48297494 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
48297428 CCCAACCCAT
* * *
48297438 AATAAATATAT-ATTTAATATATAAA
1 AATATATATATGATTAAAAATA-AAA
*
48297463 AATATATATTTGATTAAAAATAAAA
1 AATATATATATGATTAAAAATAAAA
48297488 AATATAT
1 AATATAT
48297495 TTAATATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
AATATATATATGATTAAAAATAAAA
Found at i:48297482 original size:19 final size:21
Alignment explanation
Indices: 48297436--48297501 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
48297426 GACCCAACCC
48297436 ATAATAAATATATATTTAATAT
1 ATAA-AAATATATATTTAATAT
* *
48297458 ATAAAAATATATATTTGATTAAAA
1 ATAAAAATATATATTT-A--ATAT
48297482 ATAAAAA-ATATATTTAATAT
1 ATAAAAATATATATTTAATAT
48297502 GTAATTCGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 6 0.16
23 8 0.22
24 9 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAAAAATATATATTTAATAT
Found at i:48302757 original size:20 final size:20
Alignment explanation
Indices: 48302713--48302759 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
48302703 GGCCGTGTGG
**
48302713 TTAGGCCGTGTGACATGGCC
1 TTAGGCCGTGTGACATGAAC
*
48302733 CTAGGCCGTGTGACATGAAC
1 TTAGGCCGTGTGACATGAAC
48302753 TTAGGCC
1 TTAGGCC
48302760 ATGTAACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (20 bp):
TTAGGCCGTGTGACATGAAC
Found at i:48302886 original size:25 final size:25
Alignment explanation
Indices: 48302840--48302888 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48302830 AGGGTTACAC
* *
48302840 GACCATGTCACACGCCCTTGTGCCT
1 GACCATGTCACACACCCGTGTGCCT
* *
48302865 GACCATGTCACATACTCGTGTGCC
1 GACCATGTCACACACCCGTGTGCC
48302889 AGCTTGTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.18, C:0.37, G:0.20, T:0.24
Consensus pattern (25 bp):
GACCATGTCACACACCCGTGTGCCT
Found at i:48306791 original size:69 final size:71
Alignment explanation
Indices: 48306699--48306882 Score: 232
Period size: 71 Copynumber: 2.6 Consensus size: 71
48306689 TGAACCTACA
* * *
48306699 AGCCTTAGAATGACAACTGGGAGCTTTTAACTATCACTAACTGTTTGGA-GGCTGCA-ATATT-A
1 AGCCTTAGAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGGAGGGCTGCAGA-ATTGA
48306761 ACCTGAG
65 ACCTGAG
* * * *
48306768 AGCCTTAGAATGATAGCTAGGAGCTTTTAACTCTCGCTAACTATTTTGAGGGCTGCAGAATTGAA
1 AGCCTTAGAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGGAGGGCTGCAGAATTGAA
*
48306833 CCTGTG
66 CCTGAG
* *
48306839 AGCCTTAGAATGACAG-TTGAGAGCTTTTAACTCTTACTAACTGT
1 AGCCTTAGAATGACAGCTAG-GAGCTTTTAACTCTCACTAACTGT
48306883 ATGGGTTTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
69 42 0.43
70 12 0.12
71 44 0.45
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (71 bp):
AGCCTTAGAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGGAGGGCTGCAGAATTGAA
CCTGAG
Found at i:48306850 original size:71 final size:71
Alignment explanation
Indices: 48306667--48306880 Score: 233
Period size: 69 Copynumber: 3.1 Consensus size: 71
48306657 GTGTTAAAAA
* * * * * *
48306667 AACTATTTTG-GGGTTGTAGTATTGAACCT-ACAAGCCTTAGAATGACAACTGGGAGCTTTTAAC
1 AACTATTTTGAGGGCTGCAGAATTGAACCTGA-GAGCCTTAGAATGACAGCTAGGAGCTTTTAAC
*
48306730 TATCACT
65 TCTCACT
* * *
48306737 AACTGTTTGGA-GGCTGCA-ATATT-AACCTGAGAGCCTTAGAATGATAGCTAGGAGCTTTTAAC
1 AACTATTTTGAGGGCTGCAGA-ATTGAACCTGAGAGCCTTAGAATGACAGCTAGGAGCTTTTAAC
*
48306799 TCTCGCT
65 TCTCACT
* *
48306806 AACTATTTTGAGGGCTGCAGAATTGAACCTGTGAGCCTTAGAATGACAG-TTGAGAGCTTTTAAC
1 AACTATTTTGAGGGCTGCAGAATTGAACCTGAGAGCCTTAGAATGACAGCTAG-GAGCTTTTAAC
*
48306870 TCTTACT
65 TCTCACT
48306877 AACT
1 AACT
48306881 GTATGGGTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
69 47 0.39
70 29 0.24
71 43 0.36
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (71 bp):
AACTATTTTGAGGGCTGCAGAATTGAACCTGAGAGCCTTAGAATGACAGCTAGGAGCTTTTAACT
CTCACT
Found at i:48321120 original size:31 final size:31
Alignment explanation
Indices: 48321095--48321302 Score: 274
Period size: 31 Copynumber: 6.7 Consensus size: 31
48321085 ATCCAATGAT
*
48321095 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
** ** **
48321125 CAAATCAAATTCAACAATGTATATTTATGGA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
48321156 CAAATCAAATTCGACAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
48321187 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
48321218 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
48321249 CAAATCAAATTCAGCAATTTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
48321280 CAAATCAAATTCGGAAATGTATA
1 CAAATCAAATTCGGCAATGTATA
48321303 AAACATATAC
Statistics
Matches: 154, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
30 6 0.04
31 148 0.96
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:48324910 original size:27 final size:27
Alignment explanation
Indices: 48324865--48324950 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
48324855 TATAACGGTT
*
48324865 ATTTTACCCTATG-GTGGTATTTTAGTC
1 ATTTTACCCTATGAG-GGTATTTTGGTC
* *
48324892 ATTTTACCCTACGAGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
**
48324919 A-TTTAGTCTATGAGGGTATTTTGGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
*
48324945 ACTTTA
1 ATTTTA
48324951 TTGACCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.44
27 27 0.54
28 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTTGGTC
Found at i:48330315 original size:33 final size:33
Alignment explanation
Indices: 48330273--48330341 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
48330263 CATAGCTTGG
48330273 GATAGTGCATCTTCCCTAGCCACTCGATCAAAT
1 GATAGTGCATCTTCCCTAGCCACTCGATCAAAT
48330306 GATAGTGCATCTTCCCTAGCCACTCGATCAAAT
1 GATAGTGCATCTTCCCTAGCCACTCGATCAAAT
48330339 GAT
1 GAT
48330342 CCCGTCTCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (33 bp):
GATAGTGCATCTTCCCTAGCCACTCGATCAAAT
Found at i:48331795 original size:26 final size:27
Alignment explanation
Indices: 48331751--48331824 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
48331741 TAATCTCCTA
** *
48331751 GGGGTATAACAGTCATTTTACCTTA-T
1 GGGGTATTTCAGTCATTTTACCTTACG
* *
48331777 GGGGTATTTCATTCGTTTTACCTTACG
1 GGGGTATTTCAGTCATTTTACCTTACG
48331804 GGGGTATTTCAGTCATTTTAC
1 GGGGTATTTCAGTCATTTTAC
48331825 ACCATGGGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.52
27 19 0.47
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCTTACG
Found at i:48331833 original size:27 final size:27
Alignment explanation
Indices: 48331751--48331848 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
48331741 TAATCTCCTA
**
48331751 GGGGTATAACAGTCATTTTACCTTAT-
1 GGGGTATTTCAGTCATTTTACCTTATG
* * *
48331777 GGGGTATTTCATTCGTTTTACCTTACG
1 GGGGTATTTCAGTCATTTTACCTTATG
*
48331804 GGGGTATTTCAGTCATTTTACAC-CATG
1 GGGGTATTTCAGTCATTTTAC-CTTATG
48331831 GGGGTATTTC-GATCATTT
1 GGGGTATTTCAG-TCATTT
48331849 CATTGACCTC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 22 0.37
27 37 0.62
28 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCTTATG
Found at i:48338086 original size:31 final size:31
Alignment explanation
Indices: 48338057--48338221 Score: 231
Period size: 31 Copynumber: 5.3 Consensus size: 31
48338047 AATCAATTTA
* * *
48338057 GCAATATATATCCATATACGAATCAAATTTG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
48338088 ACAATGTATATCTATATACAAATCAAATTCG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
48338119 GCAATGAATATCCATATACAAATCAAATTTG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
48338150 GTAATGTATAACCATATACAAATCAAATTCG
1 GCAATGTATATCCATATACAAATCAAATTCG
* *
48338181 GCAATGTATATCTATATACAAATCAAATTCA
1 GCAATGTATATCCATATACAAATCAAATTCG
48338212 GCAATGTATA
1 GCAATGTATA
48338222 AAACATATAC
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 117 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (31 bp):
GCAATGTATATCCATATACAAATCAAATTCG
Found at i:48338194 original size:93 final size:92
Alignment explanation
Indices: 48338046--48338217 Score: 263
Period size: 93 Copynumber: 1.9 Consensus size: 92
48338036 TCCAATGCTG
* * *
48338046 AAATCAATTTAGCAATATATATCCATATACGAATCAAATTTGACAATGTATATCTATATACAAAT
1 AAATCAATTTAGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAAT
*
48338111 CAAATTCGGCAATGAATATCCATATAC
66 CAAATTCAGCAATGAATATCCATATAC
* * * *
48338138 AAATCAAATTTGGTAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
1 AAATC-AATTTAGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAA
48338203 TCAAATTCAGCAATG
65 TCAAATTCAGCAATG
48338218 TATAAAACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 5 0.07
93 66 0.93
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (92 bp):
AAATCAATTTAGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAAT
CAAATTCAGCAATGAATATCCATATAC
Found at i:48341628 original size:19 final size:19
Alignment explanation
Indices: 48341604--48341640 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
48341594 AAAGAAAAGT
48341604 ATAAAATTGAATTTGTACA
1 ATAAAATTGAATTTGTACA
48341623 ATAAAATTGAATTTGTAC
1 ATAAAATTGAATTTGTAC
48341641 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAAAATTGAATTTGTACA
Found at i:48342104 original size:34 final size:34
Alignment explanation
Indices: 48342061--48342131 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
48342051 AAATAAAATT
*
48342061 TTTATTTGTTAAAAATCAAATTTATCCTCCATGA
1 TTTATTTGTTAAAAATCAAACTTATCCTCCATGA
*
48342095 TTTATTTGTTAAAAATCAAACTTATCCTTCATGA
1 TTTATTTGTTAAAAATCAAACTTATCCTCCATGA
48342129 TTT
1 TTT
48342132 TTCATTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (34 bp):
TTTATTTGTTAAAAATCAAACTTATCCTCCATGA
Found at i:48343832 original size:77 final size:77
Alignment explanation
Indices: 48343735--48343891 Score: 242
Period size: 77 Copynumber: 2.0 Consensus size: 77
48343725 CAAGTTTGAT
* * * * *
48343735 ATTTTAGATCTCAGTTTTATCCATACATGTGATTTATAATGAACTCCATGCATGACTTGGCTATT
1 ATTTTAAATATCAGTTTTATCCATACATGTGATTTAGAATAAACTCCATGCATGACTTGACTATT
48343800 TATTTCTAATTA
66 TATTTCTAATTA
* *
48343812 ATTTTAAATATCAGTTTTATCCATACATTTGATTTGGAATAAACTCCATGCATGACTTGACTATT
1 ATTTTAAATATCAGTTTTATCCATACATGTGATTTAGAATAAACTCCATGCATGACTTGACTATT
*
48343877 TCTTTCTAATTA
66 TATTTCTAATTA
48343889 ATT
1 ATT
48343892 GATGATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (77 bp):
ATTTTAAATATCAGTTTTATCCATACATGTGATTTAGAATAAACTCCATGCATGACTTGACTATT
TATTTCTAATTA
Found at i:48346296 original size:13 final size:13
Alignment explanation
Indices: 48346280--48346304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48346270 AAAAATATTT
48346280 TAAAAATAAAAAA
1 TAAAAATAAAAAA
48346293 TAAAAATAAAAA
1 TAAAAATAAAAA
48346305 TATTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:48348882 original size:11 final size:11
Alignment explanation
Indices: 48348868--48348892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48348858 GCTAATTTTG
48348868 AGGCTCGATTA
1 AGGCTCGATTA
48348879 AGGCTCGATTA
1 AGGCTCGATTA
48348890 AGG
1 AGG
48348893 GGCTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (11 bp):
AGGCTCGATTA
Found at i:48353210 original size:27 final size:28
Alignment explanation
Indices: 48353172--48353241 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
48353162 TATATATATT
*
48353172 TATATATTATATAATAAAACCCACGCATA
1 TATATATTATATAA-AAAACCCACGCAAA
*
48353201 TA-ATA-TATATACAACAACCCACGCAAA
1 TATATATTATATA-AAAAACCCACGCAAA
48353228 TATATATTATATAA
1 TATATATTATATAA
48353242 CACAACACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 20 0.56
28 8 0.22
29 8 0.22
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (28 bp):
TATATATTATATAAAAAACCCACGCAAA
Found at i:48353239 original size:31 final size:31
Alignment explanation
Indices: 48353172--48353303 Score: 93
Period size: 29 Copynumber: 4.5 Consensus size: 31
48353162 TATATATATT
*
48353172 TATATATTATATA-ATAA-AACCCACGC--A
1 TATATATTATATATACAACAACCCACGCAAA
48353199 TATA-A-TATATATACAACAACCCACGCAAA
1 TATATATTATATATACAACAACCCACGCAAA
* *
48353228 TATATATTATATA-AC-ACAACACC-CACTAA
1 TATATATTATATATACAACAAC-CCACGCAAA
* * * * *
48353257 TATATATTTTGTATACAACAGAACCATGCATA
1 TATATATTATATATACAACA-ACCCACGCAAA
* *
48353289 TGTATAGTATATATA
1 TATATATTATATATA
48353304 TTATATAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
25 6 0.08
26 4 0.05
27 13 0.16
29 25 0.31
30 7 0.09
31 11 0.14
32 14 0.17
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.30
Consensus pattern (31 bp):
TATATATTATATATACAACAACCCACGCAAA
Found at i:48353246 original size:29 final size:29
Alignment explanation
Indices: 48353172--48353264 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
48353162 TATATATATT
* * *
48353172 TATATATTATATAATAAAACCCACGCATA
1 TATATATTATATAACACAACCCACGCAAA
48353201 TA-ATA-TATAT-ACAACAACCCACGCAAA
1 TATATATTATATAAC-ACAACCCACGCAAA
* *
48353228 TATATATTATATAACACAACACC-CACTAA
1 TATATATTATATAACACAAC-CCACGCAAA
48353257 TATATATT
1 TATATATT
48353265 TTGTATACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 19 0.35
28 6 0.11
29 24 0.44
30 4 0.07
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.29
Consensus pattern (29 bp):
TATATATTATATAACACAACCCACGCAAA
Found at i:48353833 original size:18 final size:19
Alignment explanation
Indices: 48353810--48353851 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
48353800 TGTTTTAAAG
48353810 TTTATAG-T-TTAATTTTAT
1 TTTATAGATATTAATTTT-T
48353828 TTTATAGATATTAATTTTT
1 TTTATAGATATTAATTTTT
48353847 TTTAT
1 TTTAT
48353852 CTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATAGATATTAATTTTT
Found at i:48356338 original size:18 final size:18
Alignment explanation
Indices: 48356301--48356363 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
48356291 TCTTTCTAGT
*
48356301 TTATTTTTATTT-ATTAAA
1 TTATTTTTCTTTAATT-AA
48356319 TTATTTTTCTTTAATTAA
1 TTATTTTTCTTTAATTAA
*
48356337 TT-TTTATT-TTTAAATTTA
1 TTATTT-TTCTTT-AATTAA
48356355 TTATTTTTC
1 TTATTTTTC
48356364 ATTATCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 6 0.16
18 26 0.68
19 6 0.16
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTCTTTAATTAA
Found at i:48356358 original size:15 final size:14
Alignment explanation
Indices: 48356303--48356362 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
48356293 TTTCTAGTTT
48356303 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
48356318 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
48356336 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
48356350 ATTTATTATTTTT
1 ATTT-TTATTTTT
48356363 CATTATCTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 6 0.16
17 6 0.16
18 6 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:48358357 original size:50 final size:49
Alignment explanation
Indices: 48358301--48358683 Score: 193
Period size: 50 Copynumber: 7.7 Consensus size: 49
48358291 ACTACATCGC
* *
48358301 CAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGT
1 CAGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTT-TTAATTGCAATGT
* * * ** * * ** *
48358351 CGGGGAAATCAA-ATTCGCCATCGCAGCTTCAATCTATTCCACTACACCGC
1 CAGGGAAAT-AAGATTCGCCGTCGTAGCTTCAATCT-TTTAATTGCAATGT
* * * * * *
48358401 CAGGGAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATAT
1 CAGGGAAATAAGATTCGCCGTCGTAGCTTCAATC-TTTTAATTGCAATGT
* * ** * **
48358451 C-GGGAAAATCAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGCACCG-
1 CAGGG-AAATAAGATTCGCCGTCGTAGCTTCAATCT-TTTAATTGCAATGT
* * * *
48358500 CTA-AGAAAGTAAGATTCGCCGTTGTGGCTTCAGTCTTTTTAATTGCAATGT
1 C-AGGGAAA-TAAGATTCGCCGTCGTAGCTTCAATC-TTTTAATTGCAATGT
* * ** * **
48358551 -TGGAGAAATCAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCG-
1 CAGG-GAAATAAGATTCGCCGTCGTAGCTTCAATCT-TTTAATTGCAATGT
* * * * * *
48358600 CTAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGTAATGT
1 C-AGGGAAATAAGATTCGCCGTCGTAGCTTCAATC-TTTTAATTGCAATGT
* * * *
48358651 CAGGGAAACAAGATCCGCCGTCATGGCTTCAAT
1 CAGGGAAATAAGATTCGCCGTCGTAGCTTCAAT
48358684 TTGTTCCACG
Statistics
Matches: 231, Mismatches: 84, Indels: 36
0.66 0.24 0.10
Matches are distributed among these distances:
49 11 0.05
50 208 0.90
51 12 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (49 bp):
CAGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTTTTAATTGCAATGT
Found at i:48358379 original size:100 final size:100
Alignment explanation
Indices: 48358227--48358735 Score: 540
Period size: 100 Copynumber: 5.1 Consensus size: 100
48358217 GATTCGTCGT
* * * * * * * *
48358227 CTTCAACCTGTTTAACTGTAATGTCGGGGAAA-CAAGATTCGCTGTCGTAGCTTCGACCTGTTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAA-ATTCGCCGTCGTAGCTTCAATCTATTCC
*
48358291 ACTACATCGCCAGGGAAATAAGATTCGCCGTTGTGG
65 ACTACACCGCCAGGGAAATAAGATTCGCCGTTGTGG
* * *
48358327 CTTCAATCTTCTTAATTGCAATGTCGGGGAAATCAAATTCGCCATCGCAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTATTCCA
* * *
48358392 CTACACCGCCAGGGAAGTAATATTCGCTGTTGTGG
66 CTACACCGCCAGGGAAATAAGATTCGCCGTTGTGG
* * * * *
48358427 CTTCAATCTTTTTAATTGCAATATCGGGAAAATCAGATTCACCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTATTCCA
* * *
48358492 CTGCACCGCTA-AGAAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAGGGAAA-TAAGATTCGCCGTTGTGG
* * * *
48358527 CTTCAGTCTTTTTAATTGCAATGTTGGAGAAATCAGATTCGCCGTCGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTATTCCA
* * * * * *
48358592 CTGCACCGCTAAGGAAGTAAGATTCACCGTTGTAG
66 CTACACCGCCAGGGAAATAAGATTCGCCGTTGTGG
* * * * * * * *
48358627 CTTAAATCTTTTTAATTGTAATGTCAGGGAAA-CAAGATCCGCCGTCATGGCTTCAATTTGTTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAA-ATTCGCCGTCGTAGCTTCAATCTATTCC
* * * * *
48358691 ACGACACTGCCATAGG-AGTAAGATTCGCCGTCGTGG
65 ACTACACCGCCA-GGGAAATAAGATTCGCCGTTGTGG
48358727 CTTCAATCT
1 CTTCAATCT
48358736 GTTCCACTAC
Statistics
Matches: 344, Mismatches: 60, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
99 5 0.01
100 330 0.96
101 9 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAATCAAATTCGCCGTCGTAGCTTCAATCTATTCCA
CTACACCGCCAGGGAAATAAGATTCGCCGTTGTGG
Found at i:48358637 original size:200 final size:201
Alignment explanation
Indices: 48358253--48358735 Score: 600
Period size: 200 Copynumber: 2.4 Consensus size: 201
48358243 TGTAATGTCG
* * * * * *
48358253 GGGAAACAAGATTCGCTGTCGTAGCTTCGACCTGTTCCACTACATCGCCAGGGAAA-TAAGATTC
1 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGAGAAAGTAAGATTC
*
48358317 GCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGGGAAATCAAATTCGCCATCGCAGCTTCA
66 GCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGAGAAATCAAATTCGCCATCGCAGCTTCA
* * * * * *
48358382 ATCTATTCCACTACACCGCCAGGGAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCA
131 ATCTATTCCACTACACCGCCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGCA
48358447 ATATC-
196 ATATCA
* *
48358452 GGGAAA-ATCAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTA-AGAAAGTAAGAT
1 GGGAAACA--AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGAGAAAGTAAGAT
* * * * * *
48358515 TCGCCGTTGTGGCTTCAGTCTTTTTAATTGCAATGTTGGAGAAATCAGATTCGCCGTCGTAGCTT
64 TCGCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGAGAAATCAAATTCGCCATCGCAGCTT
* *
48358580 CAATCTATTCCACTGCACCGCTAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTG
129 CAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTG
* *
48358645 TAATGTCA
194 CAATATCA
* * * * * * *
48358653 GGGAAACAAGATCCGCCGTCATGGCTTCAATTTGTTCCAC-GACACTGCCATAG-GAGTAAGATT
1 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTG-CACCGCCAGAGAAAGTAAGATT
*
48358716 CGCCGTCGTGGCTTCAATCT
65 CGCCGTTGTGGCTTCAATCT
48358736 GTTCCACTAC
Statistics
Matches: 242, Mismatches: 35, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
198 1 0.00
199 11 0.05
200 221 0.91
201 8 0.03
202 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (201 bp):
GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGAGAAAGTAAGATTC
GCCGTTGTGGCTTCAATCTTCTTAATTGCAATGTCGGAGAAATCAAATTCGCCATCGCAGCTTCA
ATCTATTCCACTACACCGCCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGCA
ATATCA
Found at i:48358767 original size:200 final size:199
Alignment explanation
Indices: 48358274--48358794 Score: 457
Period size: 200 Copynumber: 2.6 Consensus size: 199
48358264 TTCGCTGTCG
* * * * * *
48358274 TAGCTTCGACCTGTTCCACTACATCGCCAGGGAAA-TAAGATTCGCCGTTGTGGCTTCAATCT-T
1 TAGCTTCAATCTGTTCCACTGCACCGCCA-AGAAAGTAAGATTCGCCGTCGTGGCTTCAATCTGT
* * * * * * * *
48358337 CTTAATTGCAATG-TCGGGGAAATCAA-ATTCGCCATCGCAGCTTCAATCTATTCCACTACACCG
65 -TCAACTACAACGAT-GGAGAAAT-AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCG
* * * * * *
48358400 CCAGGGAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATATCGGGAAAATCAGAT
127 CCAAGGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGCAATATCGGGAAAA-CAGAT
* *
48358465 TCACCGTCG
191 CCACCGTCA
* * * *
48358474 TAGCTTCAATCTGTTCCACTGCACCGCTAAGAAAGTAAGATTCGCCGTTGTGGCTTCAGTCTTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTAAGATTCGCCGTCGTGGCTTCAATCTGTT
* * * * * * *
48358539 TAATTGCAATGTTGGAGAAATCAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCGCTAA
66 CAACTACAACGATGGAGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCGCCAA
* * *
48358604 GGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGTAATGTCAGGG-AAACAAGATCCG
131 GGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGCAATATC-GGGAAAAC-AGATCCA
48358668 CCGTCA
194 CCGTCA
* * * *
48358674 TGGCTTCAATTTGTTCCAC-GACACTGCCATAG-GAGTAAGATTCGCCGTCGTGGCTTCAATCTG
1 TAGCTTCAATCTGTTCCACTG-CACCGCCA-AGAAAGTAAGATTCGCCGTCGTGGCTTCAATCTG
* * * * * **
48358737 TTCCACTACACCGCCATGG-G-AGTAAGATTCGCCGTTGTGGCTTCAATCCGTTCCACTG
64 TTCAACTACAACG--ATGGAGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTG
48358795 TAATGCCAAA
Statistics
Matches: 266, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
199 7 0.03
200 248 0.93
201 8 0.03
202 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (199 bp):
TAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTAAGATTCGCCGTCGTGGCTTCAATCTGTT
CAACTACAACGATGGAGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCGCCAA
GGAAGTAAGATTCACCGTTGTAGCTTAAATCTTTTTAATTGCAATATCGGGAAAACAGATCCACC
GTCA
Found at i:48358793 original size:50 final size:50
Alignment explanation
Indices: 48358660--48358793 Score: 196
Period size: 50 Copynumber: 2.7 Consensus size: 50
48358650 TCAGGGAAAC
* * * * *
48358660 AAGATCCGCCGTCATGGCTTCAATTTGTTCCACGACACTGCCATAGGAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATAGGAGT
*
48358710 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATGGGAGT
1 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATAGGAGT
* *
48358760 AAGATTCGCCGTTGTGGCTTCAATCCGTTCCACT
1 AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACT
48358794 GTAATGCCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGATTCGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCATAGGAGT
Found at i:48358980 original size:50 final size:48
Alignment explanation
Indices: 48358874--48358980 Score: 106
Period size: 50 Copynumber: 2.1 Consensus size: 48
48358864 ACACCAGGGA
* * * *
48358874 GATAAGATTCATCGTCGTGGCTTCTATCTGCTCCGCTACAACGCCAGG
1 GATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCAAGG
** * *
48358922 GAAGTAAGATTCACCGTCGTGGCTTCAATCTTTTCCATTGCAACGTCAAGG
1 G-A-TAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACG-CAAGG
48358973 CGATAAGA
1 -GATAAGA
48358981 CTAATGTCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
48 1 0.02
49 1 0.02
50 39 0.83
51 5 0.11
52 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (48 bp):
GATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCAAGG
Found at i:48359083 original size:88 final size:88
Alignment explanation
Indices: 48358987--48359159 Score: 247
Period size: 88 Copynumber: 2.0 Consensus size: 88
48358977 AAGACTAATG
* * * * *
48358987 TCTTCGATCTGCTTCACTGCCAGCACAAGAAGGCGAGATCTGCTATCTTCAACGTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
48359052 TGCTCAAGGAGACAAGGCTGGTA
66 TGCTCAAGGAGACAAGGCTGGTA
* * * *
48359075 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCGCTGC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
* *
48359140 TGCTCAGGGAGATAAGGCTG
66 TGCTCAAGGAGACAAGGCTG
48359160 AAGTTTCACC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
TGCTCAAGGAGACAAGGCTGGTA
Found at i:48372680 original size:29 final size:29
Alignment explanation
Indices: 48372606--48372698 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
48372596 CATATATATT
* * * *
48372606 TATATATTATAGAATAAAACCCACGCATA
1 TATATATTATATAACACAACCCACGCAAA
48372635 TA-ATA-TATAT-ACAACAACCCACGCAAA
1 TATATATTATATAAC-ACAACCCACGCAAA
* *
48372662 TATATATTATATAACACAACACC-CACTAA
1 TATATATTATATAACACAAC-CCACGCAAA
48372691 TATATATT
1 TATATATT
48372699 CTGTATACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.02
27 18 0.34
28 6 0.11
29 24 0.45
30 4 0.08
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.28
Consensus pattern (29 bp):
TATATATTATATAACACAACCCACGCAAA
Found at i:48373265 original size:18 final size:19
Alignment explanation
Indices: 48373242--48373283 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
48373232 TGTTTTAAAG
48373242 TTTATAG-T-TTAATTTTAT
1 TTTATAGATATTAATTTT-T
48373260 TTTATAGATATTAATTTTT
1 TTTATAGATATTAATTTTT
48373279 TTTAT
1 TTTAT
48373284 CTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATAGATATTAATTTTT
Found at i:48385929 original size:18 final size:19
Alignment explanation
Indices: 48385908--48385969 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
48385898 TCTTTCTAGT
48385908 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
* *
48385926 TTATTTTTCTTTAATTAAT
1 TTATTTTTATTTAATTAAA
* *
48385945 TTATATTT-TTAAATT-AA
1 TTATTTTTATTTAATTAAA
48385962 TTATTTTT
1 TTATTTTT
48385970 CATTATCTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 8 0.22
18 17 0.46
19 12 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:48399091 original size:24 final size:24
Alignment explanation
Indices: 48399063--48399114 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48399053 TTTCTAGAAG
*
48399063 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGTATTTATTAGCATAATTT
* *
48399087 ATTTAGTCTTTATTAGCATAGTTT
1 ATTTAGTATTTATTAGCATAATTT
48399111 ATTT
1 ATTT
48399115 GGCCTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.58
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATTT
Found at i:48404819 original size:28 final size:28
Alignment explanation
Indices: 48404780--48404837 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
48404770 GTGATATTTT
*
48404780 ATAATAATTAATA-TT-ATATATAAACTTA
1 ATAATAAATAATACTTAAT-TA-AAACTTA
48404808 ATAATAAATAATACTTAATTAAAACTTA
1 ATAATAAATAATACTTAATTAAAACTTA
48404836 AT
1 AT
48404838 TTAAATTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 21 0.78
29 4 0.15
30 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
ATAATAAATAATACTTAATTAAAACTTA
Found at i:48407007 original size:26 final size:29
Alignment explanation
Indices: 48406978--48407043 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 29
48406968 ATTACATTGC
*
48406978 CCTCTGTTCT-GT-TAGCACATCGGTGT-
1 CCTCTGTTCTAATATAGCACATCGGTGTG
**
48407004 CCTCCATTCTAATATAGCACATCGGTGTG
1 CCTCTGTTCTAATATAGCACATCGGTGTG
*
48407033 ACTCTGTTCTA
1 CCTCTGTTCTA
48407044 TTAATGCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 8 0.26
27 1 0.03
28 14 0.45
29 8 0.26
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (29 bp):
CCTCTGTTCTAATATAGCACATCGGTGTG
Found at i:48407052 original size:29 final size:27
Alignment explanation
Indices: 48406979--48407052 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 27
48406969 TTACATTGCC
* *
48406979 CTCTGTTCTGTTA-GCACATCGGTGTC
1 CTCTGTTCTATTATGCACATCGGTGTA
** *
48407005 CTCCATTCTAATATAGCACATCGGTGTGA
1 CTCTGTTCTATTAT-GCACATCGGTGT-A
48407034 CTCTGTTCTATTAATGCAC
1 CTCTGTTCTATT-ATGCAC
48407053 TTTGGTGCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
26 9 0.25
28 12 0.33
29 13 0.36
30 2 0.06
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (27 bp):
CTCTGTTCTATTATGCACATCGGTGTA
Found at i:48421242 original size:43 final size:43
Alignment explanation
Indices: 48421194--48421279 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
48421184 AACCTGATAC
*
48421194 TCGACTGTAACTTACATCTTCAGCACCACTGTAAGCGTTACCT
1 TCGACTGTAACTTACATCTTCAGCACCACTGTAAGCGTGACCT
* * *
48421237 TCGACTGTAACTTACGTCTTCGGCACCACTGTAGGCGTGACCT
1 TCGACTGTAACTTACATCTTCAGCACCACTGTAAGCGTGACCT
48421280 CCACTTTGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (43 bp):
TCGACTGTAACTTACATCTTCAGCACCACTGTAAGCGTGACCT
Found at i:48436959 original size:44 final size:45
Alignment explanation
Indices: 48436896--48437488 Score: 281
Period size: 44 Copynumber: 13.5 Consensus size: 45
48436886 CATAATTAGG
* * *
48436896 TTGAAGA-TAGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
48436940 TTGAAGACGA-CAAATCTTATCTTTCC-AAG-A-TAGTGAGAAGCAGA
1 TTGAAGACTACCAAATCTTATC-TCCCTAAGCAGTAGTG-G-AGCAGA
* * * ** * * * * * *
48436984 TTTAAG-CCACCGAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * *
48437028 TCGAAGA-TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *** *
48437072 TCGAAGAC-GGTAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGACTACCAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* * ** * * * *
48437116 TTTAAG-CCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGCAGG
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
48437160 TTGAAGA-TAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** * *
48437204 TCGAAGA-TGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGAAGA
1 TTGAAGACTACCAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* * ** * * * * *
48437248 TTTAAG-CCACCAAGCCTTGTTTCCCTGAA-CAGCAG-GAGAGTAGG
1 TTGAAGACTACCAAATCTTATCTCCCT-AAGCAGTAGTG-GAGCAGA
*
48437292 TTGAAGA-TAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * *
48437336 TCGAAGACGA-CAAATCTTATCTTTCC-AAG-A-TAGTAGGAAGCAGA
1 TTGAAGACTACCAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* ** * * * * * *
48437380 TTTAAG-CTACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
48437424 TTGAAGATTA-CAAATCTTATCTCCCTAAGCCGTAGTGGAGCAGA
1 TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
**
48437468 TCAAAGAC-A-CAAATCTTATCT
1 TTGAAGACTACCAAATCTTATCT
48437489 TTCCAAGATA
Statistics
Matches: 400, Mismatches: 110, Indels: 79
0.68 0.19 0.13
Matches are distributed among these distances:
42 17 0.04
43 43 0.11
44 301 0.75
45 29 0.07
46 10 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (45 bp):
TTGAAGACTACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:48437132 original size:132 final size:132
Alignment explanation
Indices: 48436892--48437599 Score: 1109
Period size: 132 Copynumber: 5.4 Consensus size: 132
48436882 TAGGCATAAT
* * *
48436892 TAGGTTGAAGATAGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGACAAATCT
1 TAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCT
* *
48436957 TATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGCGG
66 TATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGG
48437022 AG
131 AG
* * **
48437024 TAGGTCGAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAATCT
1 TAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCT
*
48437089 TATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGG
66 TATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGG
48437154 AG
131 AG
* * *
48437156 CAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
1 TAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCT
* * *
48437221 TATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCACCAAGCCTTGTTTCCCTGAACAGCAG-GA
66 TATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCG-
48437285 GAG
130 GAG
48437288 TAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCT
1 TAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCT
* *
48437353 TATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCTACCAAGCCTTGTCTCCCTGAGCAGCAGCGG
66 TATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGG
48437418 AG
131 AG
* *
48437420 TAGGTTGAAGATTA-CAAATCTTATCTCCCTAAGCCGTAGTGGAGCAGATCAAAGAC-ACAAATC
1 TAGGTTGAAGA-TAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATC
* *
48437483 TTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGTAGCG
65 TTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCG
48437548 GAG
130 GAG
* * ** *
48437551 TAGGTTGAAGATTA-AAAATCCTATCTCCCTCAAGTTGCAGTGGAGCAGA
1 TAGGTTGAAGA-TAGCAAATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
48437600 CTAAGTATAG
Statistics
Matches: 537, Mismatches: 35, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
131 100 0.19
132 434 0.81
133 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (132 bp):
TAGGTTGAAGATAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCT
TATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGG
AG
Found at i:48439662 original size:19 final size:21
Alignment explanation
Indices: 48439628--48439674 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
48439618 ATAATACATT
48439628 TTTTAAATTGTTATCAATATG
1 TTTTAAATTGTTATCAATATG
48439649 TTTTAAA-T-TTATCAATAT-
1 TTTTAAATTGTTATCAATATG
48439667 TATTTAAA
1 T-TTTAAA
48439675 AATACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 1 0.04
21 7 0.28
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTAAATTGTTATCAATATG
Found at i:48442502 original size:28 final size:28
Alignment explanation
Indices: 48442462--48442519 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
48442452 CTTTACTTCA
*
48442462 AATGGACATTAAAGTCTTAAAGTACATT
1 AATGGACATTAAAGTCATAAAGTACATT
48442490 AATGGACATTAAAGTCATAAAGTACATT
1 AATGGACATTAAAGTCATAAAGTACATT
48442518 AA
1 AA
48442520 ACCTGTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (28 bp):
AATGGACATTAAAGTCATAAAGTACATT
Found at i:48442520 original size:10 final size:10
Alignment explanation
Indices: 48442467--48442520 Score: 62
Period size: 10 Copynumber: 5.8 Consensus size: 10
48442457 CTTCAAATGG
48442467 ACATTAAAGT
1 ACATTAAAGT
48442477 -C-TTAAAGT
1 ACATTAAAGT
* *
48442485 ACATTAATGG
1 ACATTAAAGT
48442495 ACATTAAAGT
1 ACATTAAAGT
48442505 -CA-TAAAGT
1 ACATTAAAGT
48442513 ACATTAAA
1 ACATTAAA
48442521 CCTGTCTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 13 0.36
9 6 0.17
10 17 0.47
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (10 bp):
ACATTAAAGT
Found at i:48444492 original size:12 final size:12
Alignment explanation
Indices: 48444475--48444499 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48444465 ATTTTTTTTC
48444475 TTAAACAAATAA
1 TTAAACAAATAA
48444487 TTAAACAAATAA
1 TTAAACAAATAA
48444499 T
1 T
48444500 CTCACCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAACAAATAA
Found at i:48444904 original size:45 final size:44
Alignment explanation
Indices: 48444821--48444905 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
48444811 TGGACTAGTA
**
48444821 AACTTCTGGTTTACTATGCACGTGATTTGACAATACTAATGTAG
1 AACTTCTGGTTTACTATGCACGTGATTCAACAATACTAATGTAG
* *
48444865 AACTTCTGGTTTA-TCATGTCATGTGATTCAACGATACTAAT
1 AACTTCTGGTTTACT-ATG-CACGTGATTCAACAATACTAAT
48444906 ATATCCATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 1 0.03
44 16 0.46
45 18 0.51
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (44 bp):
AACTTCTGGTTTACTATGCACGTGATTCAACAATACTAATGTAG
Found at i:48446556 original size:18 final size:17
Alignment explanation
Indices: 48446530--48446563 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48446520 CATTATATTT
48446530 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
48446548 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
48446564 TGGCCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:48447255 original size:13 final size:14
Alignment explanation
Indices: 48447230--48447258 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48447220 TAAAATTCAG
48447230 TAGAAAGAGAAAAA
1 TAGAAAGAGAAAAA
48447244 TAGAAA-AGAAAAA
1 TAGAAAGAGAAAAA
48447257 TA
1 TA
48447259 ACTAGGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (14 bp):
TAGAAAGAGAAAAA
Found at i:48454684 original size:12 final size:13
Alignment explanation
Indices: 48454667--48454695 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
48454657 CTCATACATG
48454667 AATAAATAAA-GC
1 AATAAATAAATGC
48454679 AATAAATAAATGC
1 AATAAATAAATGC
48454692 AATA
1 AATA
48454696 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:48464390 original size:30 final size:30
Alignment explanation
Indices: 48464350--48464406 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
48464340 AATATAGATA
* *
48464350 TATTATCTCTTCTAGAGCTTTTAACTAATT
1 TATTAGCTCTTCTAGAGCTTTCAACTAATT
48464380 TATTAGCTCTTCTAGAGCTTTCAACTA
1 TATTAGCTCTTCTAGAGCTTTCAACTA
48464407 GATATGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (30 bp):
TATTAGCTCTTCTAGAGCTTTCAACTAATT
Found at i:48482826 original size:33 final size:33
Alignment explanation
Indices: 48482787--48482857 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
48482777 AGAAGAAGTT
*
48482787 AGGGTTTTAATTGATTTAGAAAAAGTCTTTGGA
1 AGGGTTTTAATTGATTTAGAAAAAGTCTTCGGA
* * *
48482820 AGGGTTTTGATTGATTTAGCAAAAGTGTTCGGA
1 AGGGTTTTAATTGATTTAGAAAAAGTCTTCGGA
48482853 AGGGT
1 AGGGT
48482858 GACTGAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (33 bp):
AGGGTTTTAATTGATTTAGAAAAAGTCTTCGGA
Found at i:48485572 original size:15 final size:15
Alignment explanation
Indices: 48485537--48485565 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48485527 AAAAAATTGA
48485537 AAAAATAAAGTGAAC
1 AAAAATAAAGTGAAC
48485552 AAAAATAAAGTGAA
1 AAAAATAAAGTGAA
48485566 AGAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (15 bp):
AAAAATAAAGTGAAC
Found at i:48488392 original size:18 final size:19
Alignment explanation
Indices: 48488342--48488394 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
48488332 AAAAATTCAC
*
48488342 AAAAATTATAAACATTATTT
1 AAAAAATATAAA-ATTATTT
* *
48488362 TAAAAAT-TTAAATTA-TT
1 AAAAAATATAAAATTATTT
48488379 AAAAAATATAAAATTA
1 AAAAAATATAAAATTA
48488395 AAATAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 8 0.30
18 11 0.41
19 3 0.11
20 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATATAAAATTATTT
Found at i:48488427 original size:17 final size:17
Alignment explanation
Indices: 48488379--48488428 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
48488369 TTAAATTATT
* *
48488379 AAAAAATA-TAAAATTA
1 AAAAAATATTTAATTTA
48488395 AAATAAATATTTTAATTTA
1 AAA-AAATA-TTTAATTTA
48488414 AAAAAATATTTAATT
1 AAAAAATATTTAATT
48488429 GCTAACGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
18 5 0.17
19 9 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAATATTTAATTTA
Found at i:48488451 original size:23 final size:23
Alignment explanation
Indices: 48488421--48488467 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
48488411 TTAAAAAAAT
48488421 ATTTAATTGCTAACGTGACATGC
1 ATTTAATTGCTAACGTGACATGC
48488444 ATTTAATTGCTAACGTGACATGC
1 ATTTAATTGCTAACGTGACATGC
48488467 A
1 A
48488468 CATTGACGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (23 bp):
ATTTAATTGCTAACGTGACATGC
Found at i:48503586 original size:43 final size:43
Alignment explanation
Indices: 48503533--48503680 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
48503523 TATCCCAAAT
** * *
48503533 ATGGTCTTACACATAATCTTGTATTGATGCCAATAGCCCAGCC
1 ATGGTCTTACACATAATCTCATATCGATGCCAATAGCCCAGAC
* * *
48503576 ATGGTCTTACACAAAATCACATATCGATGCCAAT-GTCCTAGAC
1 ATGGTCTTACACATAATCTCATATCGATGCCAATAG-CCCAGAC
* * *
48503619 ATGGTCTTACACGA-AGTCTCATATCGATGCC-ATATCCCAGAT
1 ATGGTCTTACAC-ATAATCTCATATCGATGCCAATAGCCCAGAC
*
48503661 ATGGTCTTACACGTAATCTC
1 ATGGTCTTACACATAATCTC
48503681 GGTAACCTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.29
43 61 0.70
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACATAATCTCATATCGATGCCAATAGCCCAGAC
Found at i:48508271 original size:40 final size:40
Alignment explanation
Indices: 48508211--48508433 Score: 374
Period size: 40 Copynumber: 5.6 Consensus size: 40
48508201 CAAGCTCAAT
* * * * *
48508211 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
48508251 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
48508291 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
48508331 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
48508371 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
48508411 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
48508434 GTATTCAAAT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:48516735 original size:39 final size:39
Alignment explanation
Indices: 48516618--48516835 Score: 316
Period size: 39 Copynumber: 5.6 Consensus size: 39
48516608 CAAGCTCAAT
* * * * *
48516618 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCC-GGAATATCAACTTGCACAAA
*
48516658 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGA-ATATCAACTTGCACAAA
48516698 TGCCTTCGGGTCTTAGCCCGGAATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGAATATCAACTTGCACAAA
*
48516737 TGCCTTCGGGTCTTAGCCCGTAATATCAACTCT-CACAAA
1 TGCCTTCGGGTCTTAGCCCGGAATATCAACT-TGCACAAA
48516776 TGCCTTC-GGTCTTAG-CCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGA-ATATCAACTTGCACAAA
48516814 TGCCTTCGGGTCTTAGCCCGGA
1 TGCCTTCGGGTCTTAGCCCGGA
48516836 TGTATTCAAA
Statistics
Matches: 163, Mismatches: 9, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
37 5 0.03
38 30 0.18
39 69 0.42
40 59 0.36
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGGAATATCAACTTGCACAAA
Found at i:48516809 original size:77 final size:79
Alignment explanation
Indices: 48516618--48516836 Score: 320
Period size: 77 Copynumber: 2.8 Consensus size: 79
48516608 CAAGCTCAAT
* * * * *
48516618 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTT-AGCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
48516683 ATCAACTTGCACAAT
65 ATCAACTTGCACAAA
*
48516698 TGCCTTCGGGTCTTAGCCCGGA-ATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGTA-AT
1 TGCCTTCGGGTCTTAG-CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
48516761 ATCAACTCT-CACAAA
65 ATCAACT-TGCACAAA
48516776 TGCCTTC-GGTCTTAGCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
48516837 GTATTCAAAG
Statistics
Matches: 127, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
76 5 0.04
77 46 0.36
78 21 0.17
79 37 0.29
80 18 0.14
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (79 bp):
TGCCTTCGGGTCTTAGCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
TCAACTTGCACAAA
Found at i:48528355 original size:27 final size:27
Alignment explanation
Indices: 48527881--48528345 Score: 580
Period size: 27 Copynumber: 17.2 Consensus size: 27
48527871 GTAATGGGCT
*
48527881 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
** * *
48527908 TAAAATGACCAAAATGCCATCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
48527935 TAAAATGACCT-ATATACCCTCGAAGGG
1 TAAAATGA-CTGAAATACCCTCGAAGGG
*
48527962 TAAAATGACTGAAATACCCTCGATGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
48527989 TAAAATGACTGAAATACCTTTGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
48528016 TAAAATGACTAAAATACCATCGAAGCG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
48528043 TAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
48528070 TAAAATAACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * * *
48528097 TAAAATGACTGAAACACCCCCAAAAGG
1 TAAAATGACTGAAATACCCTCGAAGGG
** * *
48528124 TAAAATGACCAAAATACCC-CTAAAGTG
1 TAAAATGACTGAAATACCCTC-GAAGGG
*
48528151 TAAAATGA-TCGAAATACCCTCAAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
48528178 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
48528205 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
48528232 TAAAATGACT-AAACTACCCTCAAAAGG
1 TAAAATGACTGAAA-TACCCTCGAAGGG
48528259 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
48528286 TAAAATGACTGAAATACCC-CTAAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
** **
48528313 TAAAACAACCAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
48528340 TAAAAT
1 TAAAAT
48528346 AATCGAAATA
Statistics
Matches: 381, Mismatches: 47, Indels: 20
0.85 0.10 0.04
Matches are distributed among these distances:
26 7 0.02
27 367 0.96
28 7 0.02
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:48528588 original size:26 final size:26
Alignment explanation
Indices: 48528550--48528621 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
48528540 TGCCACATAT
* * *
48528550 ACTATTACCGGCAGCTTTGCTGCGTT
1 ACTATTACTGGCAGCTTTGCTGCATC
* * *
48528576 ATTGTTACTGGCAGCGTTGCTGCATC
1 ACTATTACTGGCAGCTTTGCTGCATC
*
48528602 ACTATTACTGACAGCTTTGC
1 ACTATTACTGGCAGCTTTGC
48528622 CAATTTTATC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
ACTATTACTGGCAGCTTTGCTGCATC
Found at i:48528743 original size:28 final size:28
Alignment explanation
Indices: 48528693--48528749 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
48528683 ACTGCATTGT
* * *
48528693 ACTGTTACTGTATTGGGCCAAGGCCCAC
1 ACTGTTACTGAAATAGGCCAAGGCCCAC
*
48528721 ACTGTTACTGAAATAGGCTAAGGCCCAC
1 ACTGTTACTGAAATAGGCCAAGGCCCAC
48528749 A
1 A
48528750 TTGTACTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (28 bp):
ACTGTTACTGAAATAGGCCAAGGCCCAC
Found at i:48531128 original size:42 final size:43
Alignment explanation
Indices: 48531017--48531129 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
48531007 TCTTGTATTA
* * *
48531017 ATGCCAATAGCCTAGCCATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* *
48531060 ATGCCAATGTCCCAGACATGGTCTTACAC-AAAGTCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAA-TCACATATCG
*
48531103 ATGCC-ATATCCCAGATATGGTCTTACA
1 ATGCCAATATCCCAGACATGGTCTTACA
48531130 AGTAATCTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 23 0.37
43 39 0.63
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:48531139 original size:42 final size:43
Alignment explanation
Indices: 48530975--48531139 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 43
48530965 TACCGTAATA
* ** * ** **
48530975 ATGCC-ATATCCCAGATATGACCTTACATGTAATCTTGTATTA
1 ATGCCAATATCCCAGACATGGTCTTACAAGTAATCTCATATCG
* * * * * *
48531017 ATGCCAATAGCCTAGCCATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACAAGTAATCTCATATCG
*
48531060 ATGCCAATGTCCCAGACATGGTCTTACACA--AAGTCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACA-AGTAA-TCTCATATCG
*
48531103 ATGCC-ATATCCCAGATATGGTCTTACAAGTAATCTCA
1 ATGCCAATATCCCAGACATGGTCTTACAAGTAATCTCA
48531140 GTAACCCTAA
Statistics
Matches: 97, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 32 0.33
43 64 0.66
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACAAGTAATCTCATATCG
Found at i:48533238 original size:7 final size:7
Alignment explanation
Indices: 48533228--48533271 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
48533218 TAAAATAAAT
48533228 AATATTA
1 AATATTA
48533235 AATATTA
1 AATATTA
48533242 AATATTA
1 AATATTA
48533249 AATATTAA
1 AATATT-A
48533257 AATATTA
1 AATATTA
48533264 AA-ATTA
1 AATATTA
48533270 AA
1 AA
48533272 GACAAAGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 23 0.64
8 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATATTA
Found at i:48533252 original size:21 final size:21
Alignment explanation
Indices: 48533215--48533267 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
48533205 TGACCATTTT
* *
48533215 TATTAAAATAAATAATATTAAA
1 TATTAAAAT-ATTAAAATTAAA
48533237 TATT-AAATATTAAATATTAAAA
1 TATTAAAATATTAAA-ATT-AAA
48533259 TATTAAAAT
1 TATTAAAAT
48533268 TAAAGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 7 0.27
22 11 0.42
23 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTAAAATATTAAAATTAAA
Found at i:48544618 original size:16 final size:16
Alignment explanation
Indices: 48544597--48544664 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
48544587 TTTGGTTCGC
*
48544597 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
48544613 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
48544629 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
48544645 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48544661 TGTA
1 TGTA
48544665 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48544921 original size:18 final size:17
Alignment explanation
Indices: 48544900--48544934 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48544890 TTATTATTAA
*
48544900 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48544918 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48544935 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48548825 original size:22 final size:21
Alignment explanation
Indices: 48548779--48548827 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
48548769 TAAAATACTT
* *
48548779 TTAAAATAATTTTTTTTATTT
1 TTAAAATAATTTTGTTTATTA
48548800 TTAAAATAAATTTTAGTTT-TTA
1 TTAAAAT-AATTTT-GTTTATTA
48548822 TTAAAA
1 TTAAAA
48548828 AATGGGTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAAAATAATTTTGTTTATTA
Found at i:48555455 original size:21 final size:21
Alignment explanation
Indices: 48555431--48555483 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
48555421 CATTGTTTCT
*
48555431 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
48555452 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
48555473 AATCTCACCGC
1 AATCTCACCGC
48555484 CACTGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:48558094 original size:14 final size:15
Alignment explanation
Indices: 48558070--48558098 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48558060 TTTTTTAATG
48558070 GTTTAAAATAATCAA
1 GTTTAAAATAATCAA
48558085 GTTT-AAATAATCAA
1 GTTTAAAATAATCAA
48558099 TGGCCATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (15 bp):
GTTTAAAATAATCAA
Found at i:48569374 original size:26 final size:26
Alignment explanation
Indices: 48569345--48569396 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
48569335 TGATAAGAGG
48569345 ACATTGAGGAGACTAGCTATTGACTA
1 ACATTGAGGAGACTAGCTATTGACTA
48569371 ACATTGAGGAGACTAGCTATTGACTA
1 ACATTGAGGAGACTAGCTATTGACTA
48569397 TGTCTTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (26 bp):
ACATTGAGGAGACTAGCTATTGACTA
Found at i:48570492 original size:53 final size:52
Alignment explanation
Indices: 48570421--48570521 Score: 123
Period size: 51 Copynumber: 1.9 Consensus size: 52
48570411 GTCAAGAAAT
* * * *
48570421 ATTTCACTTAAAAGAAGAGAGGAATCAAAGTGAAAACCCGCAAAGGGCGCTCTG
1 ATTTCAC-TAAAA-AAAAGAGAAACCAAAGTGAAAACCCGAAAAGGGCGCTCTG
* *
48570475 ATTTC-CTAAAAAAAAGAGAAGCCAAGGTGAAAACCCGAAAAGGGCGC
1 ATTTCACTAAAAAAAAGAGAAACCAAAGTGAAAACCCGAAAAGGGCGC
48570522 CTAGAGACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 30 0.73
52 5 0.12
53 1 0.02
54 5 0.12
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (52 bp):
ATTTCACTAAAAAAAAGAGAAACCAAAGTGAAAACCCGAAAAGGGCGCTCTG
Found at i:48571637 original size:44 final size:45
Alignment explanation
Indices: 48571587--48572268 Score: 266
Period size: 45 Copynumber: 15.7 Consensus size: 45
48571577 TAATAGATAG
** *
48571587 AGTCTTATCTCCCAAAAGTTCCAGTGGAGCAGACT-AAG-TAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-GGCA
48571631 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCA
* * * * *
48571676 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG-TCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-GGCA
* * * * ** *
48571721 A-TCCTATCTCGCTGAAGTTGCAGT-GAGCGGA-TTAA-A-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGC-A
* * * * * *
48571762 AGATCTTATCTCTCTAAAGTTGCAG-AGAGTAGA-TCG--CAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATGGCA
*
48571803 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGACAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACTGAAGATGGCA
* * * * * ** *
48571848 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCA
* ** * * ** *
48571893 A-TCCTATCTCGTTGAAGTTGCAGT-GAGCGGA-TTAA-A-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGC-A
* * * * *
48571934 AGATCTTATCTCTCTTAAGTTGCAG-AGAGCAGA-TCG--CAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATGGCA
48571975 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCA
* * * * *
48572020 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCA
* * * * * * ** *
48572065 A-TCCTATCTCGCTAAAGTTACAGT-GAGCGGA-TTAA-A-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGC-A
* * ** * * *
48572106 AGATCTTATCTCTCTAAAGTTGCA-AAGAGCAGA-T-CACAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCA
*
48572147 AGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACT-AAG-TGGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-GGCA
*
48572191 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCA
* *
48572236 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
48572269 TTAAAGCCGA
Statistics
Matches: 489, Mismatches: 90, Indels: 117
0.70 0.13 0.17
Matches are distributed among these distances:
39 2 0.00
40 61 0.12
41 29 0.06
42 17 0.03
43 105 0.21
44 116 0.24
45 144 0.29
46 15 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCA
Found at i:48571917 original size:172 final size:171
Alignment explanation
Indices: 48571631--48572515 Score: 1024
Period size: 172 Copynumber: 5.1 Consensus size: 171
48571621 TAAGTAGGCA
*
48571631 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
48571696 GTAGTGGAGCAGATTAAAG-TCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACC
65 GCAGTGGAGCAGATTAAAGCT-GGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACC
*
48571760 TTAGATCTTATCTCTCTAAAGTTGCAGAGAGTAGATCGCATCT
129 TTAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
* *
48571803 AGTCTTATCCTCCTAAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * *
48571868 GCAGTGGAGTAGATTAAAGCCGGTAATCCTATCTCGTTGAAGTTGCAGTGAGCGGATTAAAACCT
65 GCAGTGGAGCAGATTAAAGCTGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
*
48571933 TAGATCTTATCTCTCTTAAGTTGCAGAGAGCAGATCGCATCT
130 TAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
*
48571975 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* *
48572040 GCAGTGGAGCAGATTAAAGCTGGTAATCCTATCTCGCTAAAGTTACAGTGAGCGGATTAAAACCT
65 GCAGTGGAGCAGATTAAAGCTGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
* *
48572105 TAGATCTTATCTCTCTAAAGTTGCAAAGAGCAGATCACATCT
130 TAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
*
48572147 AGTCTTATCTCCCTGAAGTTGCAGTGGAGA-AGACT-AAG-TGGGCAAGTCTTATC-CTCCTGAA
1 AGTCTTATCT-CCTGAAGTTGCAGT-GAGACAGACTGAAGAT-GGCAAATCTTATCTC-CCTGAA
* * * * * * * *
48572208 GTTGCAGT-GAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTA
62 GTTGCAGTGGA-GCAGATTAAAGCTGG-TAATCCTATCTCGCTGAAGTTGCAGT-GAGCGGATTA
* * * * * * ** *** *
48572272 AAGCCGATA-ATCCTATCT-TCCTGAAGTTGTAAGTGGAGTGGATTAAAACCTT
124 AAACC-TTAGATCTTATCTCT-CTAAAGTTG-CAG-AGAGCAGA-TCGCATC-T
* * *** * * ** *
48572324 GGATCTTATCTCTCTAAAGTTGCAAAAAG-CAGA-T-CATAT--TTAGTCTTATCTCCCTGAAGT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
* *
48572384 TGCAGTGGAGCAGATTAAAGCTGATAATCCTATCTTC-CTGAAGTTGCAGTGGAGTGGATTAAAA
64 TGCAGTGGAGCAGATTAAAGCTGGTAATCCTATC-TCGCTGAAGTTGCAGT-GAGCGGATTAAAA
* * *
48572448 CCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGAATTT
127 CCTTAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
48572493 AGTCTTATCTCCCTGAAGTTGCA
1 AGTCTTATCT-CCTGAAGTTGCA
48572516 CCAGGAGTGG
Statistics
Matches: 614, Mismatches: 75, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
168 18 0.03
169 3 0.00
170 7 0.01
171 48 0.08
172 376 0.61
173 81 0.13
174 40 0.07
175 8 0.01
176 6 0.01
177 9 0.01
178 18 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (171 bp):
AGTCTTATCTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGCTGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCTT
AGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
Found at i:48572209 original size:216 final size:218
Alignment explanation
Indices: 48571975--48572393 Score: 702
Period size: 216 Copynumber: 1.9 Consensus size: 218
48571965 GATCGCATCT
*
48571975 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTT
* * *
48572040 GCAGTGGAGCAGATTAAAGCTGGTAATCCTATC-TCGCTAAAG-T-TACAGT-GAGCGGATTAAA
66 GCAGTGGAACAGATTAAAGCCGATAATCCTATCTTC-CTAAAGTTGTA-AGTGGAGCGGATTAAA
*
48572101 ACCTTAGATCTTATCTCTCTAAAGTTGCAAAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGT
129 ACCTTAGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCACATCTAGTCTTATCTCCCTGAAGT
48572166 TGCAGTGGAGAAGACTAAGTGGGCA
194 TGCAGTGGAGAAGACTAAGTGGGCA
48572191 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTT
* *
48572256 GCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAAGTGGAGTGGATTAAAAC
66 GCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTGTAAGTGGAGCGGATTAAAAC
* * *
48572321 CTTGGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCATATTTAGTCTTATCTCCCTGAAGTTG
131 CTTAGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTG
48572386 CAGTGGAG
196 CAGTGGAG
48572394 CAGATTAAAG
Statistics
Matches: 189, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
216 99 0.52
217 6 0.03
218 84 0.44
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (218 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTT
GCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTGTAAGTGGAGCGGATTAAAAC
CTTAGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTG
CAGTGGAGAAGACTAAGTGGGCA
Found at i:48572371 original size:129 final size:128
Alignment explanation
Indices: 48572238--48572515 Score: 468
Period size: 128 Copynumber: 2.2 Consensus size: 128
48572228 AGATGGAAAA
48572238 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTG-A
*
48572303 AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATC-ATATTTAG
65 AGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCGA-ATTTAG
* * *
48572367 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGAA
* * *
48572432 GTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGAATTTAG
66 GTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCGAATTTAG
48572495 TCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
48572516 CCAGGAGTGG
Statistics
Matches: 141, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
128 79 0.56
129 62 0.44
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGAA
GTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTAAAGTTGCAAAAAGCAGATCGAATTTAG
Found at i:48572462 original size:44 final size:44
Alignment explanation
Indices: 48571677--48572515 Score: 279
Period size: 44 Copynumber: 19.5 Consensus size: 44
48571667 AAGATGGCAA
* * * **
48571677 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCGGTA-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTTAG
* *
48571721 ATCCTATC-TCGCTGAAGTTGCAGT-GAGCGGATTAAAACCTTAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* * * *** *
48571764 ATCTTATC-TCTCTAAAGTTGCAG-AGAGTAGA-TCGCATC-TAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* * * * **** *
48571805 -TCTTATCCTCCTAAAGTTGCAGT-GAGACAGACTGAAGATGGCAA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAG-CAGA-TTAAAACCTTAG
* * * * *
48571849 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGGTA-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TTAG
* * *
48571893 ATCCTATC-TCGTTGAAGTTGCAGT-GAGCGGATTAAAACCTTAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* * *** *
48571936 ATCTTATC-TCTCTTAAGTTGCAG-AGAGCAGA-TCGCATC-TAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* * * **** *
48571977 -TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAA
1 ATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTTAG
* *
48572021 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTGGTA-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCT--TAG
* * * *
48572065 ATCCTATC-TCGCTAAAGTTACAGT-GAGCGGATTAAAACCTTAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* ** * * *
48572108 ATCTTATC-TCTCTAAAGTTGCA-AAGAGCAGA-TCACATC-TAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* * * *** *
48572149 -TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGTGGGC-AAG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTTAG
* * * **** *
48572193 -TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGAAA
1 ATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTTAG
* * * *
48572237 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATA-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TTAG
* * ** *
48572281 ATCCTATCTTCCTGAAGTTGTAAGTGGAGTGGATTAAAACCTTGG
1 ATCTTATCTTCCTGAAGTTG-CAGTGGAGCAGATTAAAACCTTAG
* *** * * *
48572326 ATCTTATC-TCTCTAAAGTTGCA-AAAAGCAGA-TCATA-TTTAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* *
48572367 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTGATA-
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCT--TAG
* **
48572410 ATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAG
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
* ** *
48572454 ATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGA-TCGAA-TTTAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
*
48572495 -TCTTATCTCCCTGAAGTTGCA
1 ATCTTATCTTCCTGAAGTTGCA
48572516 CCAGGAGTGG
Statistics
Matches: 591, Mismatches: 150, Indels: 112
0.69 0.18 0.13
Matches are distributed among these distances:
40 94 0.16
41 45 0.08
42 27 0.05
43 131 0.22
44 171 0.29
45 116 0.20
46 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAG
Found at i:48575722 original size:28 final size:28
Alignment explanation
Indices: 48575690--48575784 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
48575680 TGTATGTGAC
48575690 AATATTTACAATGTACGATGATGGCGAA
1 AATATTTACAATGTACGATGATGGCGAA
* * * * ** *
48575718 AATATGTTGAAAAACGGATGAATGTATGTAG-C
1 AATAT-TT--ACAATGTACG-ATG-ATGGCGAA
*
48575750 AATATTTACCATGTACGATGATGGCGAA
1 AATATTTACAATGTACGATGATGGCGAA
48575778 AATATTT
1 AATATTT
48575785 TGAAAAACGG
Statistics
Matches: 46, Mismatches: 15, Indels: 12
0.63 0.21 0.16
Matches are distributed among these distances:
27 4 0.09
28 15 0.33
29 7 0.15
31 8 0.17
32 8 0.17
33 4 0.09
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (28 bp):
AATATTTACAATGTACGATGATGGCGAA
Found at i:48575739 original size:60 final size:60
Alignment explanation
Indices: 48575666--48575843 Score: 313
Period size: 60 Copynumber: 3.0 Consensus size: 60
48575656 TGTTTTCACC
* *
48575666 GAAAAATGGATGAATGTATGT-GACAATATTTACAATGTACGATGATGGCGAAAATATGTT
1 GAAAAACGGATGAATGTATGTAG-CAATATTTACCATGTACGATGATGGCGAAAATATGTT
*
48575726 GAAAAACGGATGAATGTATGTAGCAATATTTACCATGTACGATGATGGCGAAAATATTTT
1 GAAAAACGGATGAATGTATGTAGCAATATTTACCATGTACGATGATGGCGAAAATATGTT
48575786 GAAAAACGGATGAATGTATGTAGCAATATTTACCATGTACGATGATGGCGAAAATATG
1 GAAAAACGGATGAATGTATGTAGCAATATTTACCATGTACGATGATGGCGAAAATATG
48575844 ATATTAACAA
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
60 112 0.99
61 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (60 bp):
GAAAAACGGATGAATGTATGTAGCAATATTTACCATGTACGATGATGGCGAAAATATGTT
Found at i:48575770 original size:32 final size:32
Alignment explanation
Indices: 48575734--48575830 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 32
48575724 TTGAAAAACG
48575734 GATGAATGTATGTAGCAATATTTACCATGTAC
1 GATGAATGTATGTAGCAATATTTACCATGTAC
** * ** ***
48575766 GATG-ATG-GCG-A-AAATATTT-TGAAAAAC
1 GATGAATGTATGTAGCAATATTTACCATGTAC
48575793 GGATGAATGTATGTAGCAATATTTACCATGTAC
1 -GATGAATGTATGTAGCAATATTTACCATGTAC
48575826 GATGA
1 GATGA
48575831 TGGCGAAAAT
Statistics
Matches: 43, Mismatches: 16, Indels: 12
0.61 0.23 0.17
Matches are distributed among these distances:
27 3 0.07
28 11 0.26
29 4 0.09
30 2 0.05
31 4 0.09
32 16 0.37
33 3 0.07
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (32 bp):
GATGAATGTATGTAGCAATATTTACCATGTAC
Found at i:48583582 original size:21 final size:21
Alignment explanation
Indices: 48583510--48583583 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
48583500 CCTGATCAGT
* *
48583510 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCT-A
*
48583531 A-ACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTA
48583551 ATACGACACACGAGGTGCCTAA
1 ATACGACACACGAGGTGCCT-A
48583573 TATACGACACA
1 -ATACGACACA
48583584 TAAAGTGTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.20
21 26 0.58
23 10 0.22
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTA
Found at i:48583583 original size:23 final size:21
Alignment explanation
Indices: 48583510--48583570 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
48583500 CCTGATCAGT
* *
48583510 ATACGACACA-TAAGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
48583530 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
48583551 ATACGACACACGAGGTGCCT
1 ATACGACACACGAGGTGCCT
48583571 AATATACGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 9 0.25
21 27 0.75
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:48584509 original size:16 final size:15
Alignment explanation
Indices: 48584480--48584522 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
48584470 CTCCTTTTCT
* *
48584480 TTTCTATCTATTTTG
1 TTTCTTTCTTTTTTG
48584495 TTTCTTTTCTTTTTTG
1 TTTC-TTTCTTTTTTG
48584511 TTTCTTTCTTTT
1 TTTCTTTCTTTT
48584523 ACTTTATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTCTTTCTTTTTTG
Found at i:48584545 original size:3 final size:3
Alignment explanation
Indices: 48584537--48584565 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48584527 TATTCCTAGT
48584537 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48584566 TATTTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Done.