Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 26 of 253
Found at i:7195277 original size:218 final size:219
Alignment explanation
Indices: 7194835--7195242 Score: 525
Period size: 219 Copynumber: 1.9 Consensus size: 219
7194825 AGTGTCGGTT
* * *
7194835 ATTGACAAGCCAGCA-ACAAAAAAATTTGAATTTTTTTTAATACTGGTGCCGGCCATTGACAGGC
1 ATTGACAAGCCAGCACACAAAAAAAATTAAATTTTTTTTAATACTGGTGCCGACCATTGACAGGC
* * * * * *
7194899 CAGTACCGAATTTTTTTAAAAAAACTCGTATTTTGGTGCCGTCCATTGACAGGCAAGCACCAAAA
66 CAGCACCAAATTTTTTTAAAAAAACTCGTATTCTGGTGCAGGCAATTGACAGGCAAGCACCAAAA
** * ****
7194964 AAATTTGATTTTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAGTACCAAATTTTTTTAAAAA
131 AAATTTGATTTTTTTTAATACTTGGTGCCGGCCATTAACAGGCCAGCACCAAAAAAATTTAAAAA
** **
7195029 AAAACTCGTATTGTGGTGCCAACC
196 AAAACTCAAATACTGGTGCCAACC
* * *
7195053 ATTGACAGGCCAGCACA-AAAAAAAATTAAATTTTTTTTAATACTGGTGTCGACCATTGACTGGC
1 ATTGACAAGCCAGCACACAAAAAAAATTAAATTTTTTTTAATACTGGTGCCGACCATTGACAGGC
* * * *
7195117 TAGCACCAAATTTTTTTTTAAAAAACTCGTATTCTGGTGCAGGCAATTGACAGGCCAGCATCAAA
66 CAGCACCAAA-TTTTTTTAAAAAAACTCGTATTCTGGTGCAGGCAATTGACAGGCAAGCACCAAA
*
7195182 AAATTTTGAATTTTTTTTAATAC-TGGTGCCGGCCATTAACAGGCCAGCACCAAAAAAATTT
130 AAAATTTG-ATTTTTTTTAATACTTGGTGCCGGCCATTAACAGGCCAGCACCAAAAAAATTT
7195243 GAATTTTTTT
Statistics
Matches: 163, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
218 63 0.39
219 88 0.54
220 12 0.07
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (219 bp):
ATTGACAAGCCAGCACACAAAAAAAATTAAATTTTTTTTAATACTGGTGCCGACCATTGACAGGC
CAGCACCAAATTTTTTTAAAAAAACTCGTATTCTGGTGCAGGCAATTGACAGGCAAGCACCAAAA
AAATTTGATTTTTTTTAATACTTGGTGCCGGCCATTAACAGGCCAGCACCAAAAAAATTTAAAAA
AAAACTCAAATACTGGTGCCAACC
Found at i:7195764 original size:17 final size:21
Alignment explanation
Indices: 7195730--7195776 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
7195720 AATTGATCAA
7195730 ATTTAATTATTAATATTATT-
1 ATTTAATTATTAATATTATTC
7195750 ATTTAATTA-T-A-ATTATTC
1 ATTTAATTATTAATATTATTC
*
7195768 ATTAAATTA
1 ATTTAATTA
7195777 ATTCTACATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 1 0.04
20 9 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAATTATTAATATTATTC
Found at i:7195766 original size:20 final size:21
Alignment explanation
Indices: 7195730--7195771 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
7195720 AATTGATCAA
7195730 ATTTAATTATTAATATT-ATT
1 ATTTAATTATTAATATTCATT
7195750 ATTTAATTA-TAATTATTCATT
1 ATTTAATTATTAA-TATTCATT
7195771 A
1 A
7195772 AATTAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 13 0.65
21 4 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTAATTATTAATATTCATT
Found at i:7198193 original size:19 final size:18
Alignment explanation
Indices: 7198150--7198196 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
7198140 TCATATGAAA
7198150 ATATAATCTT-CAATGAT
1 ATATAATCTTACAATGAT
** *
7198167 ATGCAATCTTATATATGAT
1 ATATAATCTTACA-ATGAT
7198186 ATATAATCTTA
1 ATATAATCTTA
7198197 GAAGATATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 8 0.35
18 1 0.04
19 14 0.61
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (18 bp):
ATATAATCTTACAATGAT
Found at i:7204896 original size:13 final size:12
Alignment explanation
Indices: 7204865--7204929 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 12
7204855 TGTGACCTTC
7204865 AAAGAAAAAATG-
1 AAAGAAAAAA-GA
7204877 AAA-AAAAAAGA
1 AAAGAAAAAAGA
7204888 AAGAGAAAAATA-A
1 AA-AGAAAAA-AGA
*
7204901 AAAGAAAAAGGAA
1 AAAGAAAAAAG-A
7204914 AAAGAAAAAAGGA
1 AAAGAAAAAA-GA
7204927 AAA
1 AAA
7204930 AAGAAAATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
10 1 0.02
11 8 0.18
12 11 0.25
13 22 0.50
14 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:7204902 original size:6 final size:6
Alignment explanation
Indices: 7204877--7204936 Score: 59
Period size: 6 Copynumber: 9.5 Consensus size: 6
7204867 AGAAAAAATG
* *
7204877 AAAA-A AAAAGA AAGAGA AAAATA AAAAGA AAAAGGA AAAAGAA AAAAGGAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA-GA AAAAG-A AAAA-G-A
7204928 AAAAGA AAA
1 AAAAGA AAA
7204937 TGGAGAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 4 0.09
6 24 0.51
7 12 0.26
8 7 0.15
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:7204902 original size:18 final size:18
Alignment explanation
Indices: 7204877--7204936 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
7204867 AGAAAAAATG
*
7204877 AAAAAAAAAGAAAGA-GA
1 AAAAAAAAAGAAAAAGGA
7204894 AAAATAAAAAGAAAAAGGAA
1 AAAA-AAAAAGAAAAAGG-A
*
7204914 AAAGAAAAAAGGAAAAAAGA
1 AAA-AAAAAA-GAAAAAGGA
7204934 AAA
1 AAA
7204937 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.11
18 10 0.28
19 1 0.03
20 13 0.36
21 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAGGA
Found at i:7204909 original size:7 final size:7
Alignment explanation
Indices: 7204865--7204936 Score: 69
Period size: 7 Copynumber: 10.1 Consensus size: 7
7204855 TGTGACCTTC
7204865 AAAGAAA
1 AAAGAAA
7204872 AAATGAAA
1 AAA-GAAA
7204880 AAA-AAA
1 AAAGAAA
7204886 GAAAGAGAA
1 -AAAGA-AA
*
7204895 AAA-TAA
1 AAAGAAA
7204901 AAAG-AA
1 AAAGAAA
*
7204907 AAAGGAA
1 AAAGAAA
7204914 AAAGAAA
1 AAAGAAA
7204921 AAAGGAAA
1 AAA-GAAA
7204929 AAAGAAA
1 AAAGAAA
7204936 A
1 A
7204937 TGGAGAGGCC
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
6 14 0.25
7 22 0.39
8 18 0.32
9 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:7206156 original size:44 final size:43
Alignment explanation
Indices: 7206108--7206337 Score: 144
Period size: 43 Copynumber: 5.3 Consensus size: 43
7206098 ATCTTGACTT
*
7206108 CCTGAGTTTGCAGTGAAGTAGATCAAAAATTTCAGCATGGCGTC
1 CCTGAGTTTGCAG-GAAGCAGATCAAAAATTTCAGCATGGCGTC
* ** *
7206152 CCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGCGTC
1 CCTGAGTTTGCAGGAAGCAGATCAAAAATTTCAGCATGGCGTC
* * * * * * *
7206195 CTTGAGTTTGCAAGG-AGCAGGTTGAAGAAA--GCAGATCTTGAC-TT
1 CCTGAGTTTGC-AGGAAGCA-GATCAA-AAATTTCAG--CATGGCGTC
** * * * * * *
7206239 CCTGAGTTCACAGTAAAGCAAATCGAAGATATCAGCATGGCGTT
1 CCTGAGTTTGCAG-GAAGCAGATCAAAAATTTCAGCATGGCGTC
* ** *
7206283 CCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGCGTC
1 CCTGAGTTTGCAGGAAGCAGATCAAAAATTTCAGCATGGCGTC
*
7206326 CTTGAGTTTGCA
1 CCTGAGTTTGCA
7206338 AGGGGCAGGT
Statistics
Matches: 141, Mismatches: 35, Indels: 21
0.72 0.18 0.11
Matches are distributed among these distances:
43 85 0.60
44 43 0.30
45 13 0.09
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
CCTGAGTTTGCAGGAAGCAGATCAAAAATTTCAGCATGGCGTC
Found at i:7206571 original size:88 final size:87
Alignment explanation
Indices: 7206412--7206572 Score: 198
Period size: 88 Copynumber: 1.8 Consensus size: 87
7206402 TAGCATGGCG
* * * * * * * * *
7206412 TTCCTGAGTTTGCAGGGAGCAGGTTAAAGATTTCATCATGGCGTCCTTGAGTTTGCAAGGAGCAG
1 TTCCTGAGTTTGCAGGAAGCAGATTAAAGATTTCAGCATGGCATCCCTGAGCTTACAAGGAACAC
7206477 GGTGAAGAATGCAGATCTTGAC
66 GGTGAAGAATGCAGATCTTGAC
*
7206499 TTCCTGAGTTTGCAGTGAAGCAGATTGAAA-ATTTCAGCATGGCATCCCTGTGCTTACAAGGAAC
1 TTCCTGAGTTTGCAG-GAAGCAGATT-AAAGATTTCAGCATGGCATCCCTGAGCTTACAAGGAAC
*
7206563 ACGTTGAAGA
64 ACGGTGAAGA
7206573 TAACAGATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
87 15 0.25
88 43 0.70
89 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (87 bp):
TTCCTGAGTTTGCAGGAAGCAGATTAAAGATTTCAGCATGGCATCCCTGAGCTTACAAGGAACAC
GGTGAAGAATGCAGATCTTGAC
Found at i:7206573 original size:131 final size:131
Alignment explanation
Indices: 7205865--7206548 Score: 1003
Period size: 131 Copynumber: 5.2 Consensus size: 131
7205855 GGGACAATGT
*
7205865 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAACATGGC
1 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* * * *
7205930 GTCCTTGAGTTTGCAAGGAGCAGGTCGAAGAAAGCAGATCTTGACTTTCTGAGTTCGTAGTAAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
7205995 C
131 C
* * * * * * *
7205996 AGATC-AAAGATATCAGCATGACATTTCTGAATTTACAAGAAGCAGGTTGAAGATATCAGCATGG
1 AGATCGAAA-ATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGG
* *
7206060 CATCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTTGCAGTGAA
65 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
*
7206125 GT
130 GC
* * *
7206127 AGATCAAAAATTTCAGCATGGCGTCCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* *
7206192 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCACAGTAAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
7206257 C
131 C
* * * *
7206258 AAATCGAAGATATCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* *
7206323 GTCCTTGAGTTTGCAAGGGGCAGGTTGAAGAAAGCAGATTTTGACTTCCTGAGTTCGCAGTGAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
7206388 C
131 C
* * * * * *
7206389 AGGTCGAAGATATT-AGCATGGCGTTCCTGAGTTTGCAGGGAGCAGGTTAAAGATTTCATCATGG
1 AGATCGAAAAT-TTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGG
* * *
7206453 CGTCCTTGAGTTTGCAAGGAGCAGGGTGAAGAATGCAGATCTTGACTTCCTGAGTTTGCAGTGAA
65 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
7206518 GC
130 GC
* *
7206520 AGATTGAAAATTTCAGCATGGCATCCCTG
1 AGATCGAAAATTTCAGCATGGCATTCCTG
7206549 TGCTTACAAG
Statistics
Matches: 495, Mismatches: 54, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
130 5 0.01
131 486 0.98
132 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (131 bp):
AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
C
Found at i:7207144 original size:18 final size:19
Alignment explanation
Indices: 7207077--7207204 Score: 201
Period size: 19 Copynumber: 6.9 Consensus size: 19
7207067 ATAATCTTCA
7207077 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
7207096 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7207115 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7207134 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7207152 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7207169 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
**
7207187 ATGATATATAATCTTAGA
1 ATGATATGCAATCTTAGA
7207205 AGATATGATT
Statistics
Matches: 101, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.16
18 34 0.34
19 51 0.50
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:7207169 original size:35 final size:36
Alignment explanation
Indices: 7207077--7207192 Score: 189
Period size: 35 Copynumber: 3.2 Consensus size: 36
7207067 ATAATCTTCA
*
7207077 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGAT-TGCAATCTTAGAT
7207115 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATTGCAATCTTAGAT
7207152 ATGATA-CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATTGCAATCTTAGAT
7207187 ATGATA
1 ATGATA
7207193 TATAATCTTA
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 35 0.45
37 19 0.25
38 23 0.30
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (36 bp):
ATGATAGCAATCTTAGATATGATTGCAATCTTAGAT
Found at i:7211231 original size:17 final size:18
Alignment explanation
Indices: 7211211--7211244 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7211201 CATTTTATAT
*
7211211 TATTT-ATTTTATTGAAA
1 TATTTAATTATATTGAAA
7211228 TATTTAATTATATTGAA
1 TATTTAATTATATTGAA
7211245 TCTTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTAATTATATTGAAA
Found at i:7211243 original size:18 final size:17
Alignment explanation
Indices: 7211211--7211253 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7211201 CATTTTATAT
*
7211211 TATTTATTTTATTGAAA
1 TATTTATTATATTGAAA
7211228 TATTTAATTATATTG-AA
1 TATTT-ATTATATTGAAA
*
7211245 TCTTTATTA
1 TATTTATTA
7211254 ATTTCAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTATTATATTGAAA
Found at i:7217952 original size:41 final size:41
Alignment explanation
Indices: 7217902--7218159 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
7217892 AATTCATCAT
* *
7217902 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7217943 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7217984 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7218025 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7218066 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
7218107 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
7218148 ATTCATATCACC
1 ATTCAGATCACC
7218160 AATTCCAAAC
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:7218045 original size:82 final size:82
Alignment explanation
Indices: 7217908--7218159 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
7217898 TCATATTCGG
7217908 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
7217973 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
7217990 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
7218055 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
7218072 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
7218137 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
7218154 ATCACC
1 ATCACC
7218160 AATTCCAAAC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:7218395 original size:19 final size:19
Alignment explanation
Indices: 7218371--7218407 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7218361 TTGTTCGATC
*
7218371 CACACATATATATATATTA
1 CACACATATACATATATTA
7218390 CACACATATACATATATT
1 CACACATATACATATATT
7218408 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:7219716 original size:21 final size:21
Alignment explanation
Indices: 7219676--7219717 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7219666 TTATTTTCAA
*
7219676 ATATATATTTTATATGCATTT
1 ATATATATTATATATGCATTT
7219697 ATATATATTATATTAT-CATTT
1 ATATATATTATA-TATGCATTT
7219718 CATGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATATTATATATGCATTT
Found at i:7223331 original size:17 final size:18
Alignment explanation
Indices: 7223311--7223344 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7223301 CATTTTATAT
*
7223311 TATTT-ATTTTATTGAAA
1 TATTTAATTATATTGAAA
7223328 TATTTAATTATATTGAA
1 TATTTAATTATATTGAA
7223345 TCTTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTAATTATATTGAAA
Found at i:7223343 original size:18 final size:17
Alignment explanation
Indices: 7223311--7223353 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7223301 CATTTTATAT
*
7223311 TATTTATTTTATTGAAA
1 TATTTATTATATTGAAA
7223328 TATTTAATTATATTG-AA
1 TATTT-ATTATATTGAAA
*
7223345 TCTTTATTA
1 TATTTATTA
7223354 ATTTCAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTATTATATTGAAA
Found at i:7230053 original size:41 final size:41
Alignment explanation
Indices: 7230003--7230260 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
7229993 AATTCATCAT
* *
7230003 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7230044 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7230085 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7230126 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
7230167 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
7230208 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
7230249 ATTCATATCACC
1 ATTCAGATCACC
7230261 AATTCCAAAC
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:7230146 original size:82 final size:82
Alignment explanation
Indices: 7230009--7230260 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
7229999 TCATATTCGG
7230009 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
7230074 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
7230091 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
7230156 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
7230173 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
7230238 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
7230255 ATCACC
1 ATCACC
7230261 AATTCCAAAC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:7230496 original size:19 final size:19
Alignment explanation
Indices: 7230472--7230508 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7230462 TTGTTCGATC
*
7230472 CACACATATATATATATTA
1 CACACATATACATATATTA
7230491 CACACATATACATATATT
1 CACACATATACATATATT
7230509 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:7231818 original size:21 final size:21
Alignment explanation
Indices: 7231778--7231819 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7231768 TTATTTTCAA
*
7231778 ATATATATTTTATATGCATTT
1 ATATATATTATATATGCATTT
7231799 ATATATATTATATTAT-CATTT
1 ATATATATTATA-TATGCATTT
7231820 CATGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATATTATATATGCATTT
Found at i:7235434 original size:17 final size:18
Alignment explanation
Indices: 7235414--7235447 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7235404 CATTTTATAT
*
7235414 TATTT-ATTTTATTGAAA
1 TATTTAATTATATTGAAA
7235431 TATTTAATTATATTGAA
1 TATTTAATTATATTGAA
7235448 TCTTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTAATTATATTGAAA
Found at i:7235446 original size:18 final size:17
Alignment explanation
Indices: 7235414--7235456 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7235404 CATTTTATAT
*
7235414 TATTTATTTTATTGAAA
1 TATTTATTATATTGAAA
7235431 TATTTAATTATATTG-AA
1 TATTT-ATTATATTGAAA
*
7235448 TCTTTATTA
1 TATTTATTA
7235457 ATTTCAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTATTATATTGAAA
Found at i:7248826 original size:15 final size:15
Alignment explanation
Indices: 7248806--7248840 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7248796 ATTTTTTTTT
7248806 TGAAAACATTGGTGA
1 TGAAAACATTGGTGA
7248821 TGAAAACATTGGTGA
1 TGAAAACATTGGTGA
*
7248836 CGAAA
1 TGAAA
7248841 TTGTGACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (15 bp):
TGAAAACATTGGTGA
Found at i:7249801 original size:26 final size:28
Alignment explanation
Indices: 7249763--7249815 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
7249753 GGTAATTTTC
7249763 TTTCATTTCCTTCATTCATGAC-ATGCT
1 TTTCATTTCCTTCATTCATGACTATGCT
*
7249790 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTCCTTCATTCATGACTATGC
7249816 AATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.17, C:0.25, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTCATTTCCTTCATTCATGACTATGCT
Found at i:7263859 original size:15 final size:15
Alignment explanation
Indices: 7263839--7263868 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7263829 ATTAAAAACA
*
7263839 AAAAAAAAGTAAAGT
1 AAAAAAAACTAAAGT
7263854 AAAAAAAACTAAAGT
1 AAAAAAAACTAAAGT
7263869 TACCTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAAAAAACTAAAGT
Found at i:7273498 original size:85 final size:87
Alignment explanation
Indices: 7273327--7273487 Score: 193
Period size: 87 Copynumber: 1.9 Consensus size: 87
7273317 AACGTCACAC
* * * *
7273327 CTATACTTTTTTTTTATTTAAATAAAAATTCTATCACATGCGTATGAAAGATCATAGCTAGAGGT
1 CTATACTTTTTTTATATTTAAATAAAAATTCTATCACACGCATATGAAAGA-CATAGCTAGAGGC
*
7273392 TAGTAAAGGTCCCGAGTCCCTAG
65 TAGCAAAGGTCCCGAGTCCCTAG
* * * *
7273415 CTATA-TTTTTTTATGTTTAACTAAAAATTTTATCACACGCATATGTAAG-CATAGCTCA-AGGC
1 CTATACTTTTTTTATATTTAAATAAAAATTCTATCACACGCATATGAAAGACATAGCT-AGAGGC
*
7273477 TGGCAAAGGTC
65 TAGCAAAGGTC
7273488 TCGGATCCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 19 0.31
86 1 0.02
87 37 0.60
88 5 0.08
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (87 bp):
CTATACTTTTTTTATATTTAAATAAAAATTCTATCACACGCATATGAAAGACATAGCTAGAGGCT
AGCAAAGGTCCCGAGTCCCTAG
Found at i:7274418 original size:12 final size:12
Alignment explanation
Indices: 7274401--7274425 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7274391 TATTAGTAGT
7274401 AAGTATATGTAC
1 AAGTATATGTAC
7274413 AAGTATATGTAC
1 AAGTATATGTAC
7274425 A
1 A
7274426 TAAATTTGCT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AAGTATATGTAC
Found at i:7275399 original size:23 final size:24
Alignment explanation
Indices: 7275342--7275391 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7275332 CATTTTGAAC
7275342 ATTT-AGAATTTAATTTTTTATTT
1 ATTTAAGAATTTAATTTTTTATTT
*
7275365 TTTTAAGAATTTAATTTTTT-TTT
1 ATTTAAGAATTTAATTTTTTATTT
7275388 ATTT
1 ATTT
7275392 CTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (24 bp):
ATTTAAGAATTTAATTTTTTATTT
Found at i:7279445 original size:105 final size:105
Alignment explanation
Indices: 7279290--7279498 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
7279280 TATTGTCACG
* * *
7279290 TATAATATATTGATCGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCT-ATAGAGATCGTTG
1 TATAATATATTGATCGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGA-AGAGATCATTG
7279354 ACACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTACA
65 ACACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTACA
* * * * * * * * *
7279395 TATAGTATATTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCATTGA
1 TATAATATATTGATCGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGAAGAGATCATTGA
* * * *
7279460 CGCAATGATAAAGCGAGGCATTGAGCCTAATGTTGTTAC
66 CACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTAC
7279499 CCATAATGCA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 86 0.99
106 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (105 bp):
TATAATATATTGATCGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGAAGAGATCATTGA
CACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTACA
Found at i:7282011 original size:46 final size:46
Alignment explanation
Indices: 7281951--7282261 Score: 426
Period size: 46 Copynumber: 6.7 Consensus size: 46
7281941 TTCCATAGTG
* * * *
7281951 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTA
* * *** *
7281997 TCTTTTAACCATGGTCTTATTCATTTTCCCGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTA
* * * * *
7282044 TCTTTCAACCATGGTTTTATTCATTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7282090 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7282136 TCTTTCAACCATGGTTTTACTCATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7282182 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7282228 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAG
7282262 AGAGTACACT
Statistics
Matches: 243, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 207 0.85
47 36 0.15
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
Found at i:7290351 original size:22 final size:22
Alignment explanation
Indices: 7290326--7290368 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7290316 ACAATAACAA
*
7290326 TAAAATAGTAGCAATATAATAG
1 TAAAATAGTAGCAAAATAATAG
* *
7290348 TAAAATGGTAGTAAAATAATA
1 TAAAATAGTAGCAAAATAATA
7290369 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.14, T:0.28
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAATAG
Found at i:7290605 original size:43 final size:43
Alignment explanation
Indices: 7290552--7290643 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
7290542 GGATAGGTCT
*
7290552 ATCTTGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
1 ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
7290595 ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
1 ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
7290638 ATCTAG
1 ATCTAG
7290644 TTATGGCCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (43 bp):
ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
Found at i:7291779 original size:23 final size:25
Alignment explanation
Indices: 7291752--7291805 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
7291742 TAAGGTTGCC
7291752 AATATTTTTTA-AAATTTTTAAAT-
1 AATATTTTTTATAAATTTTTAAATA
* * *
7291775 AATA-TGTTTATATATTTTTAATTA
1 AATATTTTTTATAAATTTTTAAATA
7291799 AATATTT
1 AATATTT
7291806 AATAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 4 0.17
25 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AATATTTTTTATAAATTTTTAAATA
Found at i:7291806 original size:22 final size:22
Alignment explanation
Indices: 7291759--7291815 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
7291749 GCCAATATTT
* *
7291759 TTTAAAATTTTTAAATAATATG
1 TTTAATATTTTTAAATAATATA
*
7291781 TTTATATATTTTTAATTAA-ATA
1 TTTA-ATATTTTTAAATAATATA
*
7291803 TTTAATAATTTTA
1 TTTAATATTTTTA
7291816 TATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 10 0.33
23 12 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAATATTTTTAAATAATATA
Found at i:7291965 original size:18 final size:18
Alignment explanation
Indices: 7291930--7291965 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7291920 GCTATAAGGT
*
7291930 ACATAATATATAAGATTA
1 ACATAATATAAAAGATTA
*
7291948 ACATAATATAAAATATTA
1 ACATAATATAAAAGATTA
7291966 TGAACATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
ACATAATATAAAAGATTA
Found at i:7294312 original size:14 final size:14
Alignment explanation
Indices: 7294293--7294320 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7294283 AACACTTAAA
7294293 ATCATTCTTATAAT
1 ATCATTCTTATAAT
7294307 ATCATTCTTATAAT
1 ATCATTCTTATAAT
7294321 TTAAAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATCATTCTTATAAT
Found at i:7294720 original size:2 final size:2
Alignment explanation
Indices: 7294715--7294750 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7294705 TTTGGGTGTG
* *
7294715 TA TA TA TA TA TA TT TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7294751 AGTAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7297861 original size:15 final size:15
Alignment explanation
Indices: 7297841--7297893 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
7297831 GGGCATGGTA
7297841 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
7297856 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
7297871 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
7297886 ATTGGGTT
1 ATTGGGTT
7297894 CCTTTGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:7297869 original size:8 final size:8
Alignment explanation
Indices: 7297843--7297885 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
7297833 GCATGGTAAT
7297843 TGGGTTTG
1 TGGGTTTG
*
7297851 TGGGTAT-
1 TGGGTTTG
7297858 TGGGTTTG
1 TGGGTTTG
*
7297866 TGGGTAT-
1 TGGGTTTG
7297873 TGGGTTTG
1 TGGGTTTG
7297881 TGGGT
1 TGGGT
7297886 ATTGGGTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.47
Consensus pattern (8 bp):
TGGGTTTG
Found at i:7299109 original size:29 final size:30
Alignment explanation
Indices: 7299044--7299102 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
7299034 TTAACAACCT
*
7299044 AATGAATTAAATAAAAACTTTTGAATAGTTC
1 AATGACTTAAATAAAAAC-TTTGAATAGTTC
*
7299075 AATGACTTAAATGAAAAC-TTGAATAGTT
1 AATGACTTAAATAAAAACTTTGAATAGTT
7299103 TAGTGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
31 16 0.62
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (30 bp):
AATGACTTAAATAAAAACTTTGAATAGTTC
Found at i:7304016 original size:21 final size:21
Alignment explanation
Indices: 7303983--7304022 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7303973 ATTAGACAAA
*
7303983 CAAAAATGGAAAAAAAAAACC
1 CAAAAATAGAAAAAAAAAACC
* *
7304004 CAAAAATATAAAATAAAAA
1 CAAAAATAGAAAAAAAAAA
7304023 TTGGAAAGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.10, G:0.05, T:0.10
Consensus pattern (21 bp):
CAAAAATAGAAAAAAAAAACC
Found at i:7306094 original size:16 final size:17
Alignment explanation
Indices: 7306073--7306115 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
7306063 TTACCAAAAA
7306073 AAATAATATAATTT-TT
1 AAATAATATAATTTATT
7306089 AAATAATATAATTTATT
1 AAATAATATAATTTATT
*
7306106 CAA-AATATAA
1 AAATAATATAA
7306116 AATTAACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATAATATAATTTATT
Found at i:7310244 original size:12 final size:12
Alignment explanation
Indices: 7310227--7310253 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7310217 GAAAATAGGG
7310227 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7310239 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7310251 TTT
1 TTT
7310254 ATCAAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:7310414 original size:41 final size:40
Alignment explanation
Indices: 7310281--7310474 Score: 270
Period size: 40 Copynumber: 4.8 Consensus size: 40
7310271 AATTATACAT
7310281 TAGCGGCG--TTTGGCCAAAAACGCCGCTAAAAACAGAGCAA
1 TAGCGGCGTTTTTGGCC--AAACGCCGCTAAAAACAGAGCAA
7310321 TAGCGGCGTTTTTGGCCAAACGCCGCTAAAAACAGAGCAA
1 TAGCGGCGTTTTTGGCCAAACGCCGCTAAAAACAGAGCAA
* *
7310361 TAGCGGCGTTTTTGGCCAAATGCCGCTAAAAGACAGGGCAA
1 TAGCGGCGTTTTTGGCCAAACGCCGCTAAAA-ACAGAGCAA
* *
7310402 TAGCGGCGTTTTTAGCCAAACGCCGCTAAAAAACTGAGCAA
1 TAGCGGCGTTTTTGGCCAAACGCCGCT-AAAAACAGAGCAA
7310443 TAGCGGCGTTTTT-GCTCAAAACGCCGC-AAAAA
1 TAGCGGCGTTTTTGGC-C-AAACGCCGCTAAAAA
7310475 GTCATATAAC
Statistics
Matches: 142, Mismatches: 6, Indels: 12
0.89 0.04 0.08
Matches are distributed among these distances:
40 68 0.48
41 54 0.38
42 20 0.14
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (40 bp):
TAGCGGCGTTTTTGGCCAAACGCCGCTAAAAACAGAGCAA
Found at i:7310424 original size:81 final size:82
Alignment explanation
Indices: 7310281--7310474 Score: 283
Period size: 81 Copynumber: 2.4 Consensus size: 82
7310271 AATTATACAT
*
7310281 TAGCGGCG--TTTGGCCAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCCAAACGC
1 TAGCGGCGTTTTTGGCC-AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTAGCCAAACGC
7310344 CGCT-AAAAACAGAGCAA
65 CGCTAAAAAACAGAGCAA
* *
7310361 TAGCGGCGTTTTTGGCC-AAATGCCGCTAAAAGACAGGGCAATAGCGGCGTTTTTAGCCAAACGC
1 TAGCGGCGTTTTTGGCCAAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGTTTTTAGCCAAACGC
*
7310425 CGCTAAAAAACTGAGCAA
65 CGCTAAAAAACAGAGCAA
7310443 TAGCGGCGTTTTT-GCTCAAAACGCCGC-AAAAA
1 TAGCGGCGTTTTTGGC-CAAAACGCCGCTAAAAA
7310475 GTCATATAAC
Statistics
Matches: 103, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
80 21 0.20
81 37 0.36
82 37 0.36
83 8 0.08
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (82 bp):
TAGCGGCGTTTTTGGCCAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTAGCCAAACGCC
GCTAAAAAACAGAGCAA
Found at i:7310567 original size:47 final size:46
Alignment explanation
Indices: 7310478--7310605 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 46
7310468 GCAAAAAGTC
*
7310478 ATATAACCCCTAAAATCCTAAACCCAGAAAATTCATAAACACTAAT
1 ATATAACCCCTAAAATCCTAAACCCAGAAAATACATAAACACTAAT
* * **
7310524 CTATAACCCCTAAAATCCCTAACCCCTTAAAA-ACACTAAACACTAAT
1 ATATAACCCCTAAAAT-CCTAAACCCAGAAAATACA-TAAACACTAAT
*** * *
7310571 ATATAACTTTTAAAACCCTAAACCCCAAAAAATAC
1 ATATAACCCCTAAAATCCTAAA-CCCAGAAAATAC
7310606 CATATGGATG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
46 22 0.34
47 41 0.63
48 2 0.03
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (46 bp):
ATATAACCCCTAAAATCCTAAACCCAGAAAATACATAAACACTAAT
Found at i:7310761 original size:15 final size:15
Alignment explanation
Indices: 7310741--7310775 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7310731 GATTAAGGTC
*
7310741 TATGGTTTAGGGTTT
1 TATGGTTTAAGGTTT
7310756 TATGGTTTAAGGTTT
1 TATGGTTTAAGGTTT
*
7310771 AATGG
1 TATGG
7310776 CCATGGGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
TATGGTTTAAGGTTT
Found at i:7310917 original size:37 final size:37
Alignment explanation
Indices: 7310867--7310960 Score: 152
Period size: 37 Copynumber: 2.5 Consensus size: 37
7310857 TTTTTGTTTG
7310867 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
* * *
7310904 TCGCCTTTGCCCCGTGCGTCGCAACCCATCTCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
*
7310941 TCGCCTTCGCCCTGTGCATC
1 TCGCCTTCGCCCCGTGCATC
7310961 TGCTGCATAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.11, C:0.50, G:0.16, T:0.23
Consensus pattern (37 bp):
TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
Found at i:7311291 original size:6 final size:7
Alignment explanation
Indices: 7311274--7311310 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
7311264 AATCTTCAAA
7311274 AAAAATT
1 AAAAATT
7311281 AAAAATT
1 AAAAATT
7311288 AAAAATT
1 AAAAATT
7311295 AAAAAACTT
1 -AAAAA-TT
7311304 AAAAATT
1 AAAAATT
7311311 TAATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.57
8 10 0.36
9 2 0.07
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:7314372 original size:12 final size:12
Alignment explanation
Indices: 7314355--7314379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7314345 TCAGTTCAAA
7314355 TTAGTGTTAAAT
1 TTAGTGTTAAAT
7314367 TTAGTGTTAAAT
1 TTAGTGTTAAAT
7314379 T
1 T
7314380 GTTATTTTTA
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTAGTGTTAAAT
Found at i:7315656 original size:15 final size:15
Alignment explanation
Indices: 7315636--7315664 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7315626 AATTCAATTT
7315636 ATAATTTGTTGCTAC
1 ATAATTTGTTGCTAC
7315651 ATAATTTGTTGCTA
1 ATAATTTGTTGCTA
7315665 ATATTCTTTT
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:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (15 bp):
ATAATTTGTTGCTAC
Found at i:7316412 original size:31 final size:32
Alignment explanation
Indices: 7316374--7316445 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
7316364 GACTTGTATT
7316374 TTATTTATATTTA-TATTT-AATCTA-ATTTTTA
1 TTATTTAT-TTTAGT-TTTGAATCTATATTTTTA
*
7316405 TTATTTATTTTAGTTTTGATTCTATATTTTTA
1 TTATTTATTTTAGTTTTGAATCTATATTTTTA
7316437 TT-TTTATTT
1 TTATTTATTT
7316446 AATAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 7 0.19
31 21 0.57
32 9 0.24
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (32 bp):
TTATTTATTTTAGTTTTGAATCTATATTTTTA
Found at i:7316421 original size:19 final size:19
Alignment explanation
Indices: 7316398--7316444 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
7316388 ATTTAATCTA
*
7316398 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
7316416 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
7316436 ATTTTTATT
1 ATTTTTATT
7316445 TAATAATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:7316584 original size:17 final size:18
Alignment explanation
Indices: 7316554--7316587 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7316544 CTTTATAATA
7316554 TTTTTATAATATTTTATT
1 TTTTTATAATATTTTATT
*
7316572 TTTTTTTAA-ATTTTAT
1 TTTTTATAATATTTTAT
7316588 GACCTTTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATAATATTTTATT
Found at i:7316590 original size:46 final size:48
Alignment explanation
Indices: 7316502--7316595 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 48
7316492 TATTCTTCTC
*
7316502 AATATTTTGATAATGAATTTTAATTTTTTATATTTTTCATGA-CTTTAT
1 AATATTTTGATAAT-AATTTTAATTTTTTATAATTTTCATGACCTTTAT
* * *
7316550 AATATTTTTATAAT-ATTTTATTTTTTTTTAAATTTT-ATGACCTTTA
1 AATATTTTGATAATAATTTTAATTTTTTAT-AATTTTCATGACCTTTA
7316596 GCGGCGTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 17 0.43
47 10 0.25
48 13 0.32
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (48 bp):
AATATTTTGATAATAATTTTAATTTTTTATAATTTTCATGACCTTTAT
Found at i:7322419 original size:3 final size:3
Alignment explanation
Indices: 7322413--7322443 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7322403 AATATAAGCT
7322413 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7322444 AGAAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7323033 original size:2 final size:2
Alignment explanation
Indices: 7323026--7323057 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7323016 TCCCACATTA
7323026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7323058 GATTTCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7323420 original size:19 final size:19
Alignment explanation
Indices: 7323393--7323436 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7323383 AAAACATTGA
*
7323393 TTTTAATAT-TTTTAGTATT
1 TTTTAATATATTATA-TATT
*
7323412 TTTTGATATATTATATATT
1 TTTTAATATATTATATATT
7323431 TTTTAA
1 TTTTAA
7323437 AAATTTATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTAATATATTATATATT
Found at i:7325069 original size:210 final size:210
Alignment explanation
Indices: 7324768--7325189 Score: 601
Period size: 210 Copynumber: 2.0 Consensus size: 210
7324758 TGTTGTCAGG
* * * ** * *
7324768 TATAATACACTGGTTGATGCGCTTTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGGTTTTGTTGA
1 TATAATACACTGGTTGATGCACATTGCAAGCAAGGGATGGTCTCTGAAGCCAAGGATATTGTTGA
* * *
7324833 CGCAATGATAAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATT
66 CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
*
7324898 GCTTGCAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
131 GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
*
7324963 CCTGATATAGTTACT
196 CCTAATATAGTTACT
* * *
7324978 TATAATATATTGGTTGATGCACATTGCAAGCAAGGGATGGTCTTTGAAGCCAAGGATATTGTTGA
1 TATAATACACTGGTTGATGCACATTGCAAGCAAGGGATGGTCTCTGAAGCCAAGGATATTGTTGA
* * * ** * * * *
7325043 CTCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCTATAGTGTGTTAGTTAATGGTCACT
66 CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
* * *
7325108 GCTTACAGAATGAAATGGATAAAGCTAGAAGGGTTTTCAGCTTGATGATTGAGAAGGGTTGTGCA
131 GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
7325173 CCTAATATAGTTACT
196 CCTAATATAGTTACT
7325188 TA
1 TA
7325190 CAACACCATG
Statistics
Matches: 185, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
210 185 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (210 bp):
TATAATACACTGGTTGATGCACATTGCAAGCAAGGGATGGTCTCTGAAGCCAAGGATATTGTTGA
CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
CCTAATATAGTTACT
Found at i:7335762 original size:15 final size:15
Alignment explanation
Indices: 7335742--7335772 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7335732 CATTTTAATA
7335742 GTTAATGGATGATGG
1 GTTAATGGATGATGG
7335757 GTTAATGGATGATGG
1 GTTAATGGATGATGG
7335772 G
1 G
7335773 CATTAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (15 bp):
GTTAATGGATGATGG
Found at i:7337322 original size:26 final size:26
Alignment explanation
Indices: 7337293--7337345 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7337283 TTTACAGTTT
7337293 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
7337319 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
7337345 T
1 T
7337346 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:7339589 original size:20 final size:20
Alignment explanation
Indices: 7339566--7339608 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7339556 TTTTTATAAA
**
7339566 ATTTAATTTCTATTAAAATT
1 ATTTAATTTAAATTAAAATT
*
7339586 ATTTAATTTAAATTAAATTT
1 ATTTAATTTAAATTAAAATT
7339606 ATT
1 ATT
7339609 CAATATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAATTTAAATTAAAATT
Found at i:7339915 original size:17 final size:16
Alignment explanation
Indices: 7339893--7339924 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7339883 AACACTTTTG
7339893 TAGAATATTTATAAAAA
1 TAGAATATTT-TAAAAA
7339910 TAGAATATTTTAAAA
1 TAGAATATTTTAAAA
7339925 TTTTAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
TAGAATATTTTAAAAA
Found at i:7344113 original size:13 final size:13
Alignment explanation
Indices: 7344095--7344126 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7344085 CAGAGTTAAG
7344095 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
*
7344108 AAAAAGAGAAGAA
1 AAAAAGAAAAGAA
7344121 AAAAAG
1 AAAAAG
7344127 GGACAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:7344235 original size:13 final size:13
Alignment explanation
Indices: 7344201--7344253 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
7344191 GGTATGTCCA
7344201 TTTCTTCTTCTTCT
1 TTTCTTCTT-TTCT
*
7344215 TCTCTTCTCTTT-T
1 TTTCTTCT-TTTCT
*
7344228 TTTTTTCTTTTCT
1 TTTCTTCTTTTCT
7344241 TTTCTTCTTTTCT
1 TTTCTTCTTTTCT
7344254 ACTGCCCAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 3 0.09
13 20 0.61
14 9 0.27
15 1 0.03
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTCTTCTTTTCT
Found at i:7344235 original size:21 final size:21
Alignment explanation
Indices: 7344202--7344251 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
7344192 GTATGTCCAT
*
7344202 TTCTTCTTCTTCTTCTCTTCTC
1 TTCTT-TTTTTCTTCTCTTCTC
* * *
7344224 TTTTTTTTTTCTTTTCTTTTC
1 TTCTTTTTTTCTTCTCTTCTC
7344245 TTCTTTT
1 TTCTTTT
7344252 CTACTGCCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCTTTTTTTCTTCTCTTCTC
Found at i:7344240 original size:18 final size:18
Alignment explanation
Indices: 7344205--7344253 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7344195 TGTCCATTTC
7344205 TTCTTCTTCTTCTCTTCTCT
1 TTCTTCTT-TTCTCTTCT-T
* *
7344225 TT-TTTTTTTCTTTTCTT
1 TTCTTCTTTTCTCTTCTT
7344242 TTCTTCTTTTCT
1 TTCTTCTTTTCT
7344254 ACTGCCCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 4 0.16
20 2 0.08
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTCTTTTCTCTTCTT
Found at i:7347027 original size:21 final size:21
Alignment explanation
Indices: 7347001--7347054 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
7346991 TCAAATCTAA
7347001 ATTAAAATACTGAAATTCAGG
1 ATTAAAATACTGAAATTCAGG
* *
7347022 ATT-AAATCCTAAAATTCAGG
1 ATTAAAATACTGAAATTCAGG
*
7347042 ATAAAAATACTGA
1 ATTAAAATACTGA
7347055 TATGGCATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (21 bp):
ATTAAAATACTGAAATTCAGG
Found at i:7351806 original size:11 final size:11
Alignment explanation
Indices: 7351792--7351832 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
7351782 TGAAATTTTC
*
7351792 TCAAAACTCTA
1 TCAAAATTCTA
*
7351803 TCAAATTTCTA
1 TCAAAATTCTA
7351814 TCAAAATTCTA
1 TCAAAATTCTA
7351825 TCAAAATT
1 TCAAAATT
7351833 ATTTGTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:7351819 original size:22 final size:21
Alignment explanation
Indices: 7351784--7351829 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7351774 AATTTCATTG
*
7351784 AAATTTTCTCAAAACTCTATC
1 AAATTTTATCAAAACTCTATC
*
7351805 AAATTTCTATCAAAATTCTATC
1 AAATTT-TATCAAAACTCTATC
7351827 AAA
1 AAA
7351830 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTTATCAAAACTCTATC
Found at i:7352028 original size:48 final size:47
Alignment explanation
Indices: 7351969--7352100 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 47
7351959 TGATAATTTT
7351969 AAATTTTCAATACTATTTGATATTTTTTTCATTTATGCAAATT-TAAT-
1 AAATTTTCAATA-TATTTGATATTTTTTTCATTTATGC-AATTATAATC
* *
7352016 TAATTTTGCAATATTATTTTATA-TTTTTTCATTTATGCAATTATAATC
1 AAATTTT-CAATA-TATTTGATATTTTTTTCATTTATGCAATTATAATC
*
7352064 AAATTTTCAAT-TATGCTTGATTTTTTTTTCATTTATG
1 AAATTTTCAATATAT--TTGATATTTTTTTCATTTATG
7352101 ATGTTTGCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
45 3 0.04
46 4 0.05
47 33 0.45
48 33 0.45
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.56
Consensus pattern (47 bp):
AAATTTTCAATATATTTGATATTTTTTTCATTTATGCAATTATAATC
Found at i:7354205 original size:93 final size:93
Alignment explanation
Indices: 7354090--7354260 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
7354080 GCCCATAAGT
* *
7354090 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7354155 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
7354183 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
7354248 TGAGTTCGGATGC
66 CGAGTTCGGATGC
7354261 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7354257 original size:46 final size:46
Alignment explanation
Indices: 7354082--7354257 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
7354072 TGTAACCCGC
* * *
7354082 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7354128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
7354178 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7354221 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
7354258 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7356762 original size:3 final size:3
Alignment explanation
Indices: 7356754--7356804 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7356744 TAAAAGGAAG
7356754 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7356802 AAT
1 AAT
7356805 TGAATATTGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7359227 original size:19 final size:18
Alignment explanation
Indices: 7359198--7359235 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7359188 ACATTTTCCG
7359198 ATAATTGATTTTTGGAAA
1 ATAATTGATTTTTGGAAA
*
7359216 ATAATATGATTTTTTGAAA
1 ATAAT-TGATTTTTGGAAA
7359235 A
1 A
7359236 ATGTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
ATAATTGATTTTTGGAAA
Found at i:7359231 original size:20 final size:18
Alignment explanation
Indices: 7359198--7359237 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
7359188 ACATTTTCCG
*
7359198 ATAATTGATTTTTGGAAA
1 ATAATTGATTTTTGAAAA
7359216 ATAATATGATTTTTTGAAAA
1 ATAAT-TGA-TTTTTGAAAA
7359236 AT
1 AT
7359238 GTAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
ATAATTGATTTTTGAAAA
Found at i:7373315 original size:34 final size:35
Alignment explanation
Indices: 7373272--7373338 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7373262 CAGTAAAATA
* * *
7373272 TTTTCTGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGACTTACAGGAAAATATTTTAC
7373306 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
7373339 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCTGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:7373325 original size:20 final size:20
Alignment explanation
Indices: 7373287--7373325 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7373277 TGTAAAATGA
**
7373287 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
7373307 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
7373326 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:7374711 original size:27 final size:27
Alignment explanation
Indices: 7374681--7374750 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
7374671 AATAATCAAT
*
7374681 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
7374708 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
7374736 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
7374751 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:7377631 original size:8 final size:8
Alignment explanation
Indices: 7377618--7377642 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7377608 CCATTACCAG
7377618 GAACAACA
1 GAACAACA
7377626 GAACAACA
1 GAACAACA
7377634 GAACAACA
1 GAACAACA
7377642 G
1 G
7377643 GAACGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.24, G:0.16, T:0.00
Consensus pattern (8 bp):
GAACAACA
Found at i:7378332 original size:17 final size:18
Alignment explanation
Indices: 7378310--7378346 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7378300 TGGAATAAAC
7378310 TTAGTTAA-TTAAATAAG
1 TTAGTTAATTTAAATAAG
*
7378327 TTAGTTAATTTAATTAAG
1 TTAGTTAATTTAAATAAG
7378345 TT
1 TT
7378347 CAGCTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TTAGTTAATTTAAATAAG
Found at i:7380267 original size:24 final size:24
Alignment explanation
Indices: 7380240--7380312 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
7380230 TGCAATCGAT
*
7380240 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
7380264 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
7380288 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
7380312 A
1 A
7380313 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:7382191 original size:25 final size:26
Alignment explanation
Indices: 7382145--7382222 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 26
7382135 ATATTTAATC
** *
7382145 ATATAATAAGTTATTAAT-ATAATTT
1 ATATAATATTTTAATAATAATAATTT
7382170 ATATAAT-TTATTAA-AATAATAATTT
1 ATATAATATT-TTAATAATAATAATTT
*
7382195 ATTTAATATTTTAATAATAA-ATATTT
1 ATATAATATTTTAATAATAATA-ATTT
7382221 AT
1 AT
7382223 TACAATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
24 3 0.07
25 28 0.64
26 13 0.30
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
ATATAATATTTTAATAATAATAATTT
Found at i:7382217 original size:15 final size:15
Alignment explanation
Indices: 7382199--7382255 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7382189 TAATTTATTT
7382199 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7382214 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
7382233 AATATATTAATAACA
1 AATATTTTAATAATA
7382248 AATATTTT
1 AATATTTT
7382256 TTTAGTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7382720 original size:20 final size:20
Alignment explanation
Indices: 7382697--7382738 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
7382687 ATGTTTTGTC
7382697 TTTTATTTTTATTCATT-TTA
1 TTTTA-TTTTATTCATTATTA
*
7382717 TTTTATTTTATTTATTATTA
1 TTTTATTTTATTCATTATTA
7382737 TT
1 TT
7382739 AACTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTCATTATTA
Found at i:7382769 original size:22 final size:22
Alignment explanation
Indices: 7382742--7382813 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
7382732 TATTATTAAC
*
7382742 TTTAAAAAATTTGAAATATATA
1 TTTAAAAAATTTTAAATATATA
*
7382764 TTTAAAATATTTTATTAATATATA
1 TTTAAAAAATTTTA--AATATATA
***
7382788 TATTTTTAAATTTTAAATATATA
1 T-TTAAAAAATTTTAAATATATA
7382811 TTT
1 TTT
7382814 TGAAATTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 14 0.34
23 9 0.22
24 9 0.22
25 9 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TTTAAAAAATTTTAAATATATA
Found at i:7382809 original size:21 final size:22
Alignment explanation
Indices: 7382778--7382820 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
7382768 AAATATTTTA
*
7382778 TTAATATATATATTTTTAAATT
1 TTAATATATATATTTTGAAATT
7382800 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
7382821 ACTGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:7382834 original size:21 final size:19
Alignment explanation
Indices: 7382810--7382889 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 19
7382800 TTAAATATAT
7382810 ATTTTGAAATTACTGTTTT-AA
1 ATTTT-AAATTA-T-TTTTAAA
7382831 ATTTTAAATATTATTTTTAAA
1 ATTTT-AA-ATTATTTTTAAA
7382852 ATTTTAAATATTATTTTCT-AA
1 ATTTT-AA-ATTATTTT-TAAA
*
7382873 ATATTAAATATATTTTT
1 ATTTTAAAT-TATTTTT
7382890 TGATACTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.06
20 12 0.23
21 33 0.62
22 5 0.09
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTTAAATTATTTTTAAA
Found at i:7383032 original size:24 final size:24
Alignment explanation
Indices: 7383003--7383062 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
7382993 GAAATGCATA
7383003 TTTAAAATATTTTATAATATAT-TT
1 TTTAAAATATTTTA-AATATATATT
7383027 TTT-AAA-ATTTTAAATATATAATT
1 TTTAAAATATTTTAAATATAT-ATT
*
7383050 TTTAAATTATTTT
1 TTTAAAATATTTT
7383063 TCTAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.23
22 6 0.19
23 8 0.26
24 5 0.16
25 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAAAATATTTTAAATATATATT
Found at i:7383062 original size:35 final size:35
Alignment explanation
Indices: 7383012--7383111 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
7383002 ATTTAAAATA
7383012 TTTTATAATATATTTTTTAAAATTTTAAATATATAAT
1 TTTTA-AAT-TATTTTTTAAAATTTTAAATATATAAT
*
7383049 TTTTAAATTATTTTTCT-AAATTTTAAAT-TATTAT
1 TTTTAAATTATTTTT-TAAAATTTTAAATATATAAT
* *
7383083 TTTTTAA-TATTTTTTAAAATATTAAATAT
1 TTTTAAATTATTTTTTAAAATTTTAAATAT
7383112 TAAATATATT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
32 1 0.02
33 17 0.30
34 12 0.21
35 18 0.32
36 4 0.07
37 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTTAAATTATTTTTTAAAATTTTAAATATATAAT
Found at i:7383154 original size:234 final size:237
Alignment explanation
Indices: 7382719--7383220 Score: 709
Period size: 234 Copynumber: 2.1 Consensus size: 237
7382709 TCATTTTATT
* * * * *
7382719 TTATTTTATTTATTATTATTA-ACTTTAAAAAATTTGAAATATATATTTAAAATATTTTATTAAT
1 TTATTTAATTTATT-TTATAATATTTTAAAAAACTTGAAATACATATTTAAAATATTTTATTAAT
*
7382783 ATATATATTTTTAAATTTTAAATATATATTTTGAAATTACTGTTTTAAATTTTAAATATTATTTT
65 ATATATATTTTAAAATTTTAAATATATATTTTGAAATTACTGTTTTAAATTTTAAATATTATTTT
* *
7382848 TAAAATTTTAAATATTATTTTCTAAATATTAAATATATTTTTTGATACTATAAAATATTTAAATA
130 TAAAATTTTAAATATTA--TTCTAAATATTAAATATATTTTTTAATAATATAAAATATTTAAATA
7382913 TTTTAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
193 TTTTAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
* *
7382958 TTATTTAATTTGTTTTATAATATTTTAAAAAACTTGAAATGCATATTTAAAATATTTTA-TAATA
1 TTATTTAATTTATTTTATAATATTTTAAAAAACTTGAAATACATATTTAAAATATTTTATTAATA
* *
7383022 TAT-T-TTTTAAAATTTTAAATATATAATTTTTAAATTA-TTTTTCTAAATTTTAAATTATTATT
66 TATATATTTTAAAATTTTAAATATAT-ATTTTGAAATTACTGTTT-TAAATTTTAAA-TATTA-T
*
7383084 TTTTAATATTTTTTAAA-A-TA-T-TAAATATTAAATATA-TTTTTAATAATATAAAATATTTAA
127 TTTTAA-A-ATTTTAAATATTATTCTAAATATTAAATATATTTTTTAATAATATAAAATATTTAA
* * *
7383144 GTATTTTAAACTTTCAAATTTGTTATTAGTTTTATAATATTTTAGATA
190 ATATTTTAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
7383192 TTATTTAATTTATTTTATAATATTTTAAA
1 TTATTTAATTTATTTTATAATATTTTAAA
7383221 TTATGAATTT
Statistics
Matches: 239, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
234 95 0.40
235 15 0.06
236 24 0.10
237 23 0.10
238 18 0.08
239 55 0.23
240 2 0.01
241 7 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (237 bp):
TTATTTAATTTATTTTATAATATTTTAAAAAACTTGAAATACATATTTAAAATATTTTATTAATA
TATATATTTTAAAATTTTAAATATATATTTTGAAATTACTGTTTTAAATTTTAAATATTATTTTT
AAAATTTTAAATATTATTCTAAATATTAAATATATTTTTTAATAATATAAAATATTTAAATATTT
TAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
Found at i:7383208 original size:31 final size:28
Alignment explanation
Indices: 7383173--7383234 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 28
7383163 TTGTTATTAG
*
7383173 TTTTATAATATTTTAGATATTATTTAATTTA
1 TTTTATAATATTTTA-A-ATTA-TGAATTTA
7383204 TTTTATAATATTTTAAATTATGAATTTA
1 TTTTATAATATTTTAAATTATGAATTTA
7383232 TTT
1 TTT
7383235 AAAAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.33
29 4 0.13
30 1 0.03
31 15 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTATAATATTTTAAATTATGAATTTA
Found at i:7383222 original size:21 final size:21
Alignment explanation
Indices: 7383181--7383222 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7383171 AGTTTTATAA
* *
7383181 TATTTTAGATATTATTTAATT
1 TATTTTAAATATTATTAAATT
7383202 TATTTTATAATATT-TTAAATT
1 TATTTTA-AATATTATTAAATT
7383223 ATGAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTTTAAATATTATTAAATT
Found at i:7383567 original size:15 final size:15
Alignment explanation
Indices: 7383547--7383577 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7383537 TAAGTAAACT
7383547 TAAGATACCCATGTC
1 TAAGATACCCATGTC
7383562 TAAGATACCCATGTC
1 TAAGATACCCATGTC
7383577 T
1 T
7383578 GTTAGAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (15 bp):
TAAGATACCCATGTC
Found at i:7389927 original size:105 final size:105
Alignment explanation
Indices: 7389736--7389949 Score: 259
Period size: 105 Copynumber: 2.0 Consensus size: 105
7389726 TCACTTGATA
* * *
7389736 TTGTCACATATAATATATTGATTGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCTGTAGAG
1 TTGTCACATATAATACATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAG
7389801 ATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
66 ATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
* * * * * * *
7389841 TTGTCACGTATAATACATTGGTTGATGCGCATTGCAAGGAAGGGATGGTCTCTGAAGCTG-AGGA
1 TTGTCACATATAATACATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTA-GA
* * * * * * *
7389905 TATTGTTGACGCAATTATAAAGCGAGGCATTGAGCCTAATG
65 GATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
7389946 TTGT
1 TTGT
7389950 TACCCATAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 1 0.01
105 90 0.99
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGTCACATATAATACATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAG
ATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
Found at i:7393090 original size:21 final size:20
Alignment explanation
Indices: 7393066--7393118 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
7393056 TGTAGGAGTC
7393066 ACACGCCCGTGTGGA-AAGGGG
1 ACACGCCCGTGT-GACAA-GGG
* *
7393087 ACACACCTGTGTGACTAAGGG
1 ACACGCCCGTGTGAC-AAGGG
7393108 ACACGCCCGTG
1 ACACGCCCGTG
7393119 CTACAAGCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.13
Consensus pattern (20 bp):
ACACGCCCGTGTGACAAGGG
Found at i:7394852 original size:3 final size:3
Alignment explanation
Indices: 7394708--7394841 Score: 87
Period size: 3 Copynumber: 45.3 Consensus size: 3
7394698 TAATTTAATG
* * * *
7394708 TAT TAT TAT TAT TAC TCT TAT T-T TCAT TAT TAT TAT TAT TAC TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * **
7394753 TAT T-T T-T TAT TAT CAT TGT TAT TAT TTT TAT TTT TAT TGC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
7394799 TTT TAT TAT TAA TAT TAC TAT TGT TA- TATT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
7394842 GCTTTTATTA
Statistics
Matches: 97, Mismatches: 29, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
2 8 0.08
3 85 0.88
4 4 0.04
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7397582 original size:25 final size:25
Alignment explanation
Indices: 7397548--7397634 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
7397538 GAGCGATAAA
7397548 CGGTAAGCTCATCCGAGCTGAATAT
1 CGGTAAGCTCATCCGAGCTGAATAT
** *
7397573 CGGTAAGCTCATATGAGCTGAGTAT
1 CGGTAAGCTCATCCGAGCTGAATAT
* *
7397598 CGGTAAGCTC-TCACGAGCT-ACAAAC
1 CGGTAAGCTCATC-CGAGCTGA-ATAT
7397623 CGGTAAGCTCAT
1 CGGTAAGCTCAT
7397635 AAGAGCTGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.04
25 48 0.94
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCATCCGAGCTGAATAT
Found at i:7397606 original size:50 final size:50
Alignment explanation
Indices: 7397548--7397642 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
7397538 GAGCGATAAA
* * *
7397548 CGGTAAGCTCATC-CGAGCTGA-ATATCGGTAAGCTCATATGAGCTGAGTAT
1 CGGTAAGCTC-TCACGAGCT-ACAAACCGGTAAGCTCATAAGAGCTGAGTAT
7397598 CGGTAAGCTCTCACGAGCTACAAACCGGTAAGCTCATAAGAGCTG
1 CGGTAAGCTCTCACGAGCTACAAACCGGTAAGCTCATAAGAGCTG
7397643 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (50 bp):
CGGTAAGCTCTCACGAGCTACAAACCGGTAAGCTCATAAGAGCTGAGTAT
Found at i:7399144 original size:2 final size:2
Alignment explanation
Indices: 7399139--7399172 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7399129 GCGCGCGTGC
*
7399139 GT GT GT GT GT GT GT GT GT GT GT GT GT AT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7399173 TTAATGAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:7400641 original size:25 final size:26
Alignment explanation
Indices: 7400599--7400647 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
7400589 ATTATTATTA
*
7400599 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
7400624 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
7400648 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:7402384 original size:21 final size:21
Alignment explanation
Indices: 7402349--7402444 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
7402339 AGGCACTTTA
7402349 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
7402372 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
7402393 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
7402414 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
7402435 TGTGTCGTAT
1 TGTGTCGTAT
7402445 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:7402419 original size:42 final size:42
Alignment explanation
Indices: 7402336--7402444 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
7402326 GGCTTTATCG
* *
7402336 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
7402380 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
7402422 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
7402445 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:7407820 original size:21 final size:22
Alignment explanation
Indices: 7407788--7407845 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
7407778 GAAAACCAAA
7407788 TGTT-AATT-CATATATAACAT
1 TGTTCAATTACATATATAACAT
*
7407808 T-TTCAATTACATACAT-ACAT
1 TGTTCAATTACATATATAACAT
*
7407828 TGTTGAATTATCA-ATATA
1 TGTTCAATTA-CATATATA
7407846 GGCTTATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 16 0.53
22 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TGTTCAATTACATATATAACAT
Found at i:7410586 original size:105 final size:105
Alignment explanation
Indices: 7410403--7410607 Score: 270
Period size: 105 Copynumber: 2.0 Consensus size: 105
7410393 TATTGTTACA
* * *
7410403 TATAATATATTGATTGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCTGTAGAGATTGTTGA
1 TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGATTGTTGA
7410468 CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
66 CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
* * * * *
7410508 TATAATAAATTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTG-AG-GATATCGTT
1 TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGAT-T-GTT
* * * *
7410571 GACGCAATGATAAAGCGAGGCATTGAGCCTAATGTTG
64 GACACAATGAGAAAGCAAGGCATTGAACCTAATGTTG
7410608 TTACCCATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 3 0.03
104 3 0.03
105 80 0.93
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (105 bp):
TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGATTGTTGA
CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
Found at i:7411147 original size:378 final size:378
Alignment explanation
Indices: 7410452--7411209 Score: 1329
Period size: 378 Copynumber: 2.0 Consensus size: 378
7410442 ATTTCTAAAG
**
7410452 CTGTAGAGATTGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
1 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
7410517 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
66 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
7410582 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
131 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
* *
7410647 ACGAAATGGATAAAGCTGGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
196 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
* * *
7410712 GTTACTTACAGCACCATGATCAATGGATATTACAAAGCGAAGAGGTTAGACGAAGCAATGGAACT
261 GTTACTTACAACACCATGATAAATGGATATTACAAAGCGAAAAGGTTAGACGAAGCAATGGAACT
*
7410777 CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAGCA
326 CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAACA
* * *
7410830 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGTCACGTATAGTACA
1 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
* *
7410895 TTGGTTGATGCGCATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGTCGCAATGAT
66 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
*
7410960 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCTTAATGCATTAATCAACGGCCATTGCTTGCAGA
131 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
* *
7411025 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACGTGATATA
196 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
*
7411090 GTTACTTACAACACCATGATAAATGGATATTGCAAAG-GTAAAAGGTTAGACGAAGCAATGGAAC
261 GTTACTTACAACACCATGATAAATGGATATTACAAAGCG-AAAAGGTTAGACGAAGCAATGGAAC
* *
7411154 TCTTTCATGAAATATCTCGAAAGGGACCAATCCCGGATACTGTCACATACAACA
325 TCTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAACA
7411208 CT
1 CT
7411210 CTTATGCAAG
Statistics
Matches: 360, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
377 1 0.00
378 359 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (378 bp):
CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
GTTACTTACAACACCATGATAAATGGATATTACAAAGCGAAAAGGTTAGACGAAGCAATGGAACT
CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAACA
Found at i:7413873 original size:21 final size:22
Alignment explanation
Indices: 7413841--7413898 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
7413831 GAAAACCAAA
7413841 TGTT-AATT-CATATATAACAT
1 TGTTCAATTACATATATAACAT
*
7413861 T-TTCAATTACATACAT-ACAT
1 TGTTCAATTACATATATAACAT
*
7413881 TGTTGAATTATCA-ATATA
1 TGTTCAATTA-CATATATA
7413899 GGCTTATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 16 0.53
22 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TGTTCAATTACATATATAACAT
Found at i:7415744 original size:16 final size:19
Alignment explanation
Indices: 7415723--7415768 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
7415713 TGAGCATGGA
7415723 ACAATAATAC-A-TGAAT-
1 ACAATAATACAAGTGAATG
7415739 ACAATATTATACAAGTGAATG
1 ACAATA--ATACAAGTGAATG
7415760 ACAATAATA
1 ACAATAATA
7415769 AGAAAATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.24
18 4 0.16
19 4 0.16
20 5 0.20
21 6 0.24
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (19 bp):
ACAATAATACAAGTGAATG
Found at i:7415954 original size:26 final size:25
Alignment explanation
Indices: 7415862--7416062 Score: 111
Period size: 23 Copynumber: 8.2 Consensus size: 25
7415852 CAAAAGAATG
* *
7415862 AAATAAATAACAT-CAAACAATTTA
1 AAATAAATAATATAAAAACAATTTA
* *
7415886 AAATAAAT-A-AT-GAGACAATTTTA
1 AAATAAATAATATAAAAACAA-TTTA
* *
7415909 AAATAATTAATACATAAAAAATAAGTTTA
1 AAATAAATAAT--AT-AAAAACAA-TTTA
*
7415938 AAATAAATATTATAAAAAGCAATTTA
1 AAATAAATAATATAAAAA-CAATTTA
* * * *
7415964 GAGTGAATAGTAT--AAACAATTTA
1 AAATAAATAATATAAAAACAATTTA
* *
7415987 AAATAATTAATATACAAAATAATTTA
1 AAATAAATAATATA-AAAACAATTTA
* *
7416013 AAAT--A-AA-AT-AACACAACTTA
1 AAATAAATAATATAAAAACAATTTA
*
7416033 AAATAAATAATAT-ATAACAATTTA
1 AAATAAATAATATAAAAACAATTTA
7416057 AAATAA
1 AAATAA
7416063 CATATAGAAA
Statistics
Matches: 135, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
20 12 0.09
22 10 0.07
23 31 0.23
24 28 0.21
26 31 0.23
27 6 0.04
29 17 0.13
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATAAATAATATAAAAACAATTTA
Found at i:7416044 original size:46 final size:43
Alignment explanation
Indices: 7415975--7416088 Score: 113
Period size: 46 Copynumber: 2.5 Consensus size: 43
7415965 AGTGAATAGT
* * *
7415975 ATAAACAATTTAAAATAATTAATATACAAAATAATTTAAAATAAA
1 ATAAACAACTTAAAATAAATAATAT--AAAACAATTTAAAATAAA
*
7416020 ATAACACAACTTAAAATAAATAATATATAACAATTTAAAATAACA
1 ATAA-ACAACTTAAAATAAATAATATAAAACAATTTAAAATAA-A
* *
7416065 TATAGA-AAGTCTAAAATAAATAAT
1 -ATAAACAACT-TAAAATAAATAAT
7416089 TTGTAAGAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
44 18 0.31
45 19 0.32
46 22 0.37
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (43 bp):
ATAAACAACTTAAAATAAATAATATAAAACAATTTAAAATAAA
Found at i:7416142 original size:35 final size:35
Alignment explanation
Indices: 7416102--7416189 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 35
7416092 TAAGAAGAAA
* *
7416102 TTTAAAATAAATAATATACATAAAATAAAAAATAG
1 TTTAAAATAAATAATATAAATAAAATAAAAAAGAG
* ** *
7416137 TTT-AAA-AAATAAAATAAATAATGTATAAAAGAG
1 TTTAAAATAAATAATATAAATAAAATAAAAAAGAG
* *
7416170 TTTAAGATAAACAATATAAA
1 TTTAAAATAAATAATATAAA
7416190 ATTTTGAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
33 24 0.57
34 5 0.12
35 13 0.31
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (35 bp):
TTTAAAATAAATAATATAAATAAAATAAAAAAGAG
Found at i:7416172 original size:33 final size:34
Alignment explanation
Indices: 7416076--7416189 Score: 86
Period size: 33 Copynumber: 3.3 Consensus size: 34
7416066 ATAGAAAGTC
* * *
7416076 TAAAATAAATAATTTGTAAGAAGAAATTTAAAATAAA
1 TAAAATAAATAATATATAA-AAG-AGTTT-AAATAAA
* * * * *
7416113 TAATATACATAAAATAAAAAATAGTTTAAA-AAA
1 TAAAATAAATAATATATAAAAGAGTTTAAATAAA
*
7416146 TAAAATAAATAATGTATAAAAGAGTTTAAGATAAA
1 TAAAATAAATAATATATAAAAGAGTTTAA-ATAAA
* *
7416181 CAATATAAA
1 TAAAATAAA
7416190 ATTTTGAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
33 26 0.44
34 4 0.07
35 14 0.24
36 2 0.03
37 13 0.22
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAAATAAATAATATATAAAAGAGTTTAAATAAA
Found at i:7416394 original size:26 final size:26
Alignment explanation
Indices: 7416365--7416420 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
7416355 ATCAGAACAG
*
7416365 TTTAAAATGAAT-ACTATATAAAGA-AA
1 TTTAAAACGAATAAC-ATATAAA-ATAA
7416391 TTTAAAACGAATAACATATAAAATAA
1 TTTAAAACGAATAACATATAAAATAA
7416417 TTTA
1 TTTA
7416421 TAAAAGCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 1 0.04
26 24 0.89
27 2 0.07
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (26 bp):
TTTAAAACGAATAACATATAAAATAA
Found at i:7420662 original size:46 final size:48
Alignment explanation
Indices: 7420595--7420691 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 48
7420585 ACAGGACAGA
* * *
7420595 AATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGAGACAAG
1 AATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAAG
* *
7420641 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAAG
7420689 AAT
1 AAT
7420692 AATTCATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 22 0.50
47 1 0.02
48 21 0.48
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (48 bp):
AATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAAG
Found at i:7425282 original size:26 final size:26
Alignment explanation
Indices: 7425241--7425290 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7425231 TTCAATCACT
**
7425241 TGTTGAAACCTGAAAACCTGAAAACC
1 TGTTGAAACCCAAAAACCTGAAAACC
7425267 TGTTGAAACCCAAAAACCTGAAAA
1 TGTTGAAACCCAAAAACCTGAAAA
7425291 TTACGAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (26 bp):
TGTTGAAACCCAAAAACCTGAAAACC
Done.