Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 119 of 255
Found at i:38119758 original size:13 final size:13
Alignment explanation
Indices: 38119742--38119777 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
38119732 ATGATTTCGT
38119742 GAAAATTTCGTTC
1 GAAAATTTCGTTC
*
38119755 GAAAATTTTGTTC
1 GAAAATTTCGTTC
38119768 GAAAATTTCG
1 GAAAATTTCG
38119778 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (13 bp):
GAAAATTTCGTTC
Found at i:38121112 original size:48 final size:47
Alignment explanation
Indices: 38121037--38121280 Score: 191
Period size: 38 Copynumber: 5.6 Consensus size: 47
38121027 AGAAAGAAAA
38121037 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * * * * *
38121084 GTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 -AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* *
38121132 AAACGTGGTGCTAAGTGGATATACCACGATTA-A-ACA-T--T---T
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * *
38121171 -AACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG-----T
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * * *
38121209 -AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
* * *
38121255 TAACATGGAGCTAAGTGGATATACCA
1 AAACGTGGTGCTAAGTGGATATACCA
38121281 CGGTTAAACA
Statistics
Matches: 167, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
38 65 0.39
39 2 0.01
40 2 0.01
41 2 0.01
42 1 0.01
44 1 0.01
45 2 0.01
46 2 0.01
47 49 0.29
48 41 0.25
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (47 bp):
AAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
Found at i:38121184 original size:38 final size:38
Alignment explanation
Indices: 38121133--38121314 Score: 220
Period size: 38 Copynumber: 4.6 Consensus size: 38
38121123 TTGATTCATA
* *
38121133 AACGTGGTGCTAAGTGGATATACCACGATTAAACATTT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
38121171 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
* * *
38121209 AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------T
* *
38121256 AACATGGAGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
38121294 AACGTGGTGCTAAGTGGATAT
1 AACGTGGTGCTAAGTGGATAT
38121315 GCCATGTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
38 85 0.69
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.23
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
Found at i:38121330 original size:123 final size:123
Alignment explanation
Indices: 38121078--38121331 Score: 418
Period size: 123 Copynumber: 2.1 Consensus size: 123
38121068 ACACATATTG
* *
38121078 ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACGTGGTGC
1 ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACATGGAGC
*
38121143 TAAGTGGATATACCACGATTAAACATTTAACGTGGTGCTAAGTGGATATACCACGGTT
66 TAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTT
* * *
38121201 AAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACATGGAGC
1 ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACATGGAGC
* * * *
38121266 TAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGTTT
66 TAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTT
38121324 ATACATGT
1 ATACATGT
38121332 TAATTTGAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (123 bp):
ATACATGTAACGTGGTACTAAGTGGATATGCCATGGTTACATATATTGATTCATAAACATGGAGC
TAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTT
Found at i:38128550 original size:38 final size:38
Alignment explanation
Indices: 38128507--38128580 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
38128497 CATCCTTTTA
38128507 CATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAATT
1 CATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAATT
38128545 CATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 CATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
38128581 GGAGTTCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (38 bp):
CATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAATT
Found at i:38129861 original size:40 final size:40
Alignment explanation
Indices: 38129767--38129911 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
38129757 TACTCGAATG
*
38129767 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38129808 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38129848 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
38129888 ATATCCGGGTTAAGACTCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38129912 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38136605 original size:37 final size:38
Alignment explanation
Indices: 38136549--38136620 Score: 137
Period size: 37 Copynumber: 1.9 Consensus size: 38
38136539 TTCATCCCTT
38136549 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
38136587 TTCATTTC-TTTGGCCGAAAATTCTAAGGAAGGAG
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
38136621 TTCTTGCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 26 0.76
38 8 0.24
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:38137889 original size:40 final size:40
Alignment explanation
Indices: 38137795--38137939 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
38137785 TACTCGAATG
*
38137795 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38137836 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38137876 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
38137916 ATATCCGGGTTAAGACTCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38137940 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38152709 original size:38 final size:38
Alignment explanation
Indices: 38152666--38152738 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
38152656 GTTCATCCTT
38152666 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
38152704 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
38152739 TTCTTGCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:38154013 original size:40 final size:40
Alignment explanation
Indices: 38153919--38154063 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
38153909 TACTCGAATG
*
38153919 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38153960 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38154000 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
38154040 ATATCCGGGTTAAGACTCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38154064 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38156204 original size:3 final size:3
Alignment explanation
Indices: 38156198--38156244 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
38156188 TGTGACGATG
*
38156198 ATA ATA ATA ATA ATG ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38156245 GGAATGACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:38156227 original size:23 final size:23
Alignment explanation
Indices: 38156201--38156244 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
38156191 GACGATGATA
*
38156201 ATAATAATAATGATAATAATAAT
1 ATAATAATAATAATAATAATAAT
38156224 ATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATA
38156245 GGAATGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:38157652 original size:37 final size:37
Alignment explanation
Indices: 38157602--38157680 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38157592 TTATTACGAA
* * *
38157602 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38157639 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38157676 GTCTT
1 GTCTT
38157681 TAGAACTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38157868 original size:47 final size:47
Alignment explanation
Indices: 38157799--38158397 Score: 883
Period size: 47 Copynumber: 12.4 Consensus size: 47
38157789 CCTTCCGGGA
** *
38157799 CTTATCACATTTATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
38157846 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
38157893 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
38157940 CTTATTACATATATACACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATAT----ACACTTTCACATTCATCACATCGGCTATTAGGC
*
38157991 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
38158038 CTTATCACACATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
38158085 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGC
*
38158136 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
38158183 CTTATCACACAGATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
38158230 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGC
* *
38158281 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
38158332 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
38158379 CTTATCACACATATACACT
1 CTTATCACACATATACACT
38158398 CTCTTGGCTG
Statistics
Matches: 507, Mismatches: 29, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
47 331 0.65
49 4 0.01
51 164 0.32
53 4 0.01
55 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:38158003 original size:98 final size:94
Alignment explanation
Indices: 38157799--38158397 Score: 883
Period size: 98 Copynumber: 6.2 Consensus size: 94
38157789 CCTTCCGGGA
** *
38157799 CTTATCACATTTATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
*
38157864 TTTCACATTCATCACGTCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
38157893 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT----
38157958 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCTATTAGGC
*
38157991 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
*
38158056 TTTCACATTCATCACATCAGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
38158085 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
1 CTTATCACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
*
38158150 ACACTTTCACATTCATCACGTCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
38158183 CTTATCACACAGATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC--
*
38158248 ATACTTTCACATTCATCACATCGGCCATTAGGC
64 --ACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
38158281 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATAT
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
38158346 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCTATTAGGC
38158379 CTTATCACACATATACACT
1 CTTATCACACATATACACT
38158398 CTCTTGGCTG
Statistics
Matches: 462, Mismatches: 27, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
94 154 0.33
96 3 0.01
98 253 0.55
100 2 0.00
102 50 0.11
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:38158079 original size:145 final size:145
Alignment explanation
Indices: 38157814--38158396 Score: 1004
Period size: 145 Copynumber: 4.0 Consensus size: 145
38157804 CACATTTATG
38157814 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
38157879 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
38157944 TTACATATATACACA
131 TTACATATATACACA
38157959 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
*
38158024 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTA
66 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
38158089 TTACATATATACATA
131 TTACATATATACACA
*
38158104 TACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
*
38158169 GTCGGCTATTAGGCCTTATCACACAGATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
38158234 TTACATATATACATA
131 TTACATATATACACA
* * *
38158249 TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACATTCA
1 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACAT--ATACACTTTCACATTCA
* * * *
38158314 TCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
62 TCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
38158379 CTTATCACACATATACAC
127 CTTATTACATATATACAC
38158397 TCTCTTGGCT
Statistics
Matches: 419, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
145 324 0.77
147 3 0.01
149 92 0.22
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (145 bp):
CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
TTACATATATACACA
Found at i:38162692 original size:51 final size:50
Alignment explanation
Indices: 38162512--38162693 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 50
38162502 TGCTATCTTC
* *
38162512 AATCTGCTCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTC
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAAC-TTTAGCTTT
* * * * *
38162564 AATCTGCTCC-ACTGTAACTTTAGGGAGATAAGA-TCT-GC--TATCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
** * * *
38162609 AGGCTACTCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTGTAGCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAACTT-TAGCTTT
38162661 AATCTGCTCC-ACTGCAACTTCAGAGGA-ATGAGA
1 AATCTGCTCCTACTGCAACTTCAG-GGAGATGAGA
38162694 TTCACTATCT
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
45 12 0.12
46 20 0.19
47 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 37 0.36
52 26 0.25
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
Found at i:38162702 original size:97 final size:96
Alignment explanation
Indices: 38162457--38162748 Score: 318
Period size: 97 Copynumber: 3.0 Consensus size: 96
38162447 AATTTGTATT
*** * * * *
38162457 TTGTAGCTTTAATCAATTCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGCTCC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGG-AATGAGATTCGCTATCTTCAGTCTACTCC
* *
38162522 TACTGCAACTTCAGGGAGATTAGACTCATAAC
65 TACTGCAACTTCAGGGAGATAAGACTCGTAAC
* * * * * *
38162554 TTTTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGA-TCTGCTATCTTTAGGCTACTC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGA-ATGAGATTC-GCTATCTTCAGTCTACTC
* * *
38162618 CTACTGTAACTTCAAGGAGATGAGACTCGTAAC
64 CTACTGCAACTTCAGGGAGATAAGACTCGTAAC
* * *
38162651 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAG-GGAATGAGATTCGCTATCTTCAGTCTACTCC
* * *
38162716 -ACTACATCTTCAGGGAGATAAGACTCGTGAC
65 TACTGCAACTTCAGGGAGATAAGACTCGTAAC
38162747 TT
1 TT
38162749 CAATCTGTTC
Statistics
Matches: 159, Mismatches: 32, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
96 29 0.18
97 125 0.79
98 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (96 bp):
TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAATGAGATTCGCTATCTTCAGTCTACTCCT
ACTGCAACTTCAGGGAGATAAGACTCGTAAC
Found at i:38162859 original size:45 final size:45
Alignment explanation
Indices: 38162474--38162904 Score: 194
Period size: 44 Copynumber: 9.3 Consensus size: 45
38162464 TTTAATCAAT
* * *
38162474 TCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * ** *
38162519 TCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTCAATCTGC
1 TCC-ACTGCAACTTCAGGGAAATAAGA-T--T---TGCTATCTTCAATCTGC
* * * * * ** *
38162571 TCCACTGTAACTTTAGGGAGATAAGATCTGCTATCTTTAGGCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * *
38162616 TCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTG-TAGCTTTAATCTGC
1 TCC-ACTGCAACTTCAGGGAAAT-A-A---G--ATTTGCTATCTTCAATCTGC
* ** * *
38162668 TCCACTGCAACTTCAGAGG-AATGAGATTCACTATCTTCAGTCTAC
1 TCCACTGCAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
38162713 TTCACTACATCTTCAGGGAGATAAGACTCG-TGA-CTTCAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCT-ATCTTCAATCTGC
* * * * *
38162757 TCCACTAG-AACTTCAAGAAAATAAGA-TTGAC-AGCTTTAATCTGT
1 TCCACT-GCAACTTCAGGGAAATAAGATTTG-CTATCTTCAATCTGC
* *
38162801 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCCGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
38162846 TCCACTGTAACTTCAGGGAGATAGGACTCG-TAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
*
38162890 CCCACTGCAACTTCA
1 TCCACTGCAACTTCA
38162905 AGGGGATAAG
Statistics
Matches: 287, Mismatches: 73, Indels: 53
0.69 0.18 0.13
Matches are distributed among these distances:
43 3 0.01
44 89 0.31
45 83 0.29
46 37 0.13
47 2 0.01
48 1 0.00
49 2 0.01
50 1 0.00
51 34 0.12
52 32 0.11
53 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
Found at i:38162914 original size:133 final size:133
Alignment explanation
Indices: 38162655--38162906 Score: 319
Period size: 133 Copynumber: 1.9 Consensus size: 133
38162645 CGTAACTTGT
* * * * *
38162655 AGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTCACTA
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
* * * **
38162720 CATCTTCAGGGAGATAAGACTCGTGACTTCAATCTGTTCCACTAGAACTTCAAGAAAATAAGATT
66 CAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAGAACTTCAAGAAAATAAGATT
38162785 GAC
131 GAC
* ** *
38162788 AGCTTTAATCTGTTCCACTACAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCCGCTCCACT
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGG-AATAAGATTCACTATCTTCAATCCACTCCACT
** *
38162852 GTAACTTCAGGGAGATAGGACTCGTAACTTCAACCTGCCCCACT-GCAACTTCAAG
65 ACAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAG-AACTTCAAG
38162907 GGGATAAGGT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 3 0.03
133 97 0.97
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (133 bp):
AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
CAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAGAACTTCAAGAAAATAAGATT
GAC
Found at i:38163218 original size:111 final size:111
Alignment explanation
Indices: 38163024--38163250 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
38163014 ATCTAAATGA
38163024 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
38163089 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
*
38163135 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATGCAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
*
38163200 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTGCTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
38163246 ATCAA
1 ATCAA
38163251 GTTTCTATTG
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (111 bp):
ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
Found at i:38173975 original size:19 final size:19
Alignment explanation
Indices: 38173951--38173992 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
38173941 AATAAAATAC
38173951 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
38173970 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
38173989 CACA
1 CACA
38173993 ACCCTCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (19 bp):
CACATCCAGTACGTTAGGA
Found at i:38174626 original size:3 final size:3
Alignment explanation
Indices: 38174571--38174608 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
38174561 TGTGGCGATG
**
38174571 ATA ATA ATA ATA ATA ATA ATA ATA ACC AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38174609 GGAATGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:38175906 original size:14 final size:13
Alignment explanation
Indices: 38175884--38175915 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
38175874 TAATAGATTC
38175884 AAAAAGAAAAATA
1 AAAAAGAAAAATA
38175897 AAAAAGGAAAAATA
1 AAAAA-GAAAAATA
38175911 AAAAA
1 AAAAA
38175916 ATTCACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAATA
Found at i:38190771 original size:30 final size:29
Alignment explanation
Indices: 38190725--38190781 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
38190715 TTTACGAGCC
38190725 TAGGGGAAAAAGTGTAATTTTGACAAAATT
1 TAGGGGAAAAAGTGTAATTTTG-CAAAATT
38190755 TAGGGGCAAAAA-TGTAATTTTGCAAAA
1 TAGGGG-AAAAAGTGTAATTTTGCAAAA
38190782 ACACGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 5 0.19
30 16 0.62
31 5 0.19
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTTTGCAAAATT
Found at i:38196251 original size:16 final size:15
Alignment explanation
Indices: 38196227--38196256 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38196217 AACTATTTTA
38196227 TTACAAATTTCACTC
1 TTACAAATTTCACTC
38196242 TTACATAATTTCACT
1 TTACA-AATTTCACT
38196257 TACTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:38196577 original size:50 final size:50
Alignment explanation
Indices: 38196468--38196748 Score: 276
Period size: 50 Copynumber: 5.6 Consensus size: 50
38196458 CTGGTATGCA
* * *
38196468 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * *
38196517 TAGTAGCCTGCAATTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * * * *** * * *
38196567 TAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTGTCGGGTACCCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGGTACACG
** *
38196618 TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * * *** *
38196668 TACTAGCCTGCACTTAGTACTACACATGTAAACTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGGTACACG
* *
38196720 TGGTAGCCTGCACATAGTACTACACATGT
1 TAGTAGCCTGCACTTAGTACTACACATGT
38196749 TTTCTCACAA
Statistics
Matches: 189, Mismatches: 39, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 30 0.16
50 85 0.45
51 37 0.20
52 37 0.20
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
Found at i:38201238 original size:47 final size:47
Alignment explanation
Indices: 38201173--38202081 Score: 1440
Period size: 47 Copynumber: 19.1 Consensus size: 47
38201163 GAAATGATAG
* *
38201173 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38201220 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** *
38201267 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38201314 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38201363 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38201410 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
38201459 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38201506 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
38201555 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38201602 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38201649 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38201696 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38201743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
38201792 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38201839 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38201886 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38201935 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
38201984 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
38202031 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38202078 TAAG
1 TAAG
38202082 TCCCGAAGGG
Statistics
Matches: 816, Mismatches: 36, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
47 543 0.67
49 273 0.33
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38201382 original size:96 final size:96
Alignment explanation
Indices: 38201173--38202081 Score: 1469
Period size: 96 Copynumber: 9.5 Consensus size: 96
38201163 GAAATGATAG
* *
38201173 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
38201238 GTGATGAACGTGAAAGTGTATATATA--TGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
** *
38201267 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38201332 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
38201363 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38201428 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
38201459 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
38201524 GTGATGAATGTGAAAGTGTATACATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
38201555 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38201620 GTGATGAATGTGAAA--GTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
38201649 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
38201714 GTGATGAATGTGAAAGTG--TATATACGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
38201743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
38201808 ATGTGATGAATGTGAAA--GTATATATACGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
38201839 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38201904 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
38201935 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
38202000 ATGTGATGAATGTGAAA--GTATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
38202031 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38202082 TCCCGAAGGG
Statistics
Matches: 772, Mismatches: 31, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
94 282 0.37
96 448 0.58
98 42 0.05
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:38201429 original size:143 final size:143
Alignment explanation
Indices: 38201173--38202081 Score: 1465
Period size: 143 Copynumber: 6.4 Consensus size: 143
38201163 GAAATGATAG
*
38201173 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* ** **
38201236 ATGTGATGAACGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAACATGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38201301 TGTATATATATGA
131 TGTATATATGTGA
38201314 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
38201379 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38201444 TGTATATATATGTGA
131 TG--TATATATGTGA
* *
38201459 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
38201522 ATGTGATGAATGTGAAAGTGTATACATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTGTAT--ATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38201587 AGTGTATATATGTGA
129 AGTGTATATATGTGA
38201602 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
38201665 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38201730 TGTATATACGTGA
131 TGTATATATGTGA
*
38201743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
38201808 ATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38201873 TGTATATACGTGA
131 TGTATATATGTGA
*
38201886 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
38201951 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38202016 AGTATATATATGTGA
129 AGTGTATATATGTGA
* * * * * * *
38202031 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
38202082 TCCCGAAGGG
Statistics
Matches: 723, Mismatches: 33, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
141 129 0.18
143 420 0.58
144 1 0.00
145 173 0.24
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:38202256 original size:37 final size:37
Alignment explanation
Indices: 38202200--38202278 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38202190 CCGAGCTCTA
* * *
38202200 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38202237 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38202274 AAGAC
1 AAGAC
38202279 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38210423 original size:21 final size:20
Alignment explanation
Indices: 38210394--38210432 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
38210384 ACACCTACGA
38210394 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
38210414 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
38210433 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:38213112 original size:14 final size:14
Alignment explanation
Indices: 38213093--38213121 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38213083 CATATTTACC
38213093 TTCGATCAATATTA
1 TTCGATCAATATTA
38213107 TTCGATCAATATTA
1 TTCGATCAATATTA
38213121 T
1 T
38213122 CTTTATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTCGATCAATATTA
Found at i:38213231 original size:21 final size:20
Alignment explanation
Indices: 38213199--38213237 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
38213189 ACTCCTACGA
*
38213199 AAAGATCGCTTGGATTTAAG
1 AAAGATCACTTGGATTTAAG
38213219 AAAGAGTCACTTGGATTTA
1 AAAGA-TCACTTGGATTTA
38213238 TCCATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAGATCACTTGGATTTAAG
Found at i:38213376 original size:20 final size:20
Alignment explanation
Indices: 38213351--38213389 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38213341 AGGATTTGGT
*
38213351 TTGTTTATTTTATTATTATA
1 TTGTTTATTTTAGTATTATA
38213371 TTGTTTATTTTAGTATTAT
1 TTGTTTATTTTAGTATTAT
38213390 TTATCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
TTGTTTATTTTAGTATTATA
Found at i:38213432 original size:16 final size:15
Alignment explanation
Indices: 38213401--38213467 Score: 54
Period size: 16 Copynumber: 4.6 Consensus size: 15
38213391 TATCATTTCA
38213401 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
38213416 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
38213432 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
38213445 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
38213460 A-ATATAAT
1 ATATATAAT
38213468 AATACAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.05
13 5 0.12
14 11 0.26
15 10 0.24
16 13 0.31
17 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:38213444 original size:11 final size:11
Alignment explanation
Indices: 38213428--38213471 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
38213418 ATATAAATTT
38213428 TAATATATTAA
1 TAATATATTAA
*
38213439 TAATATATAAA
1 TAATATATTAA
38213450 T-A-ATATTAA
1 TAATATATTAA
*
38213459 TAATATAATAA
1 TAATATATTAA
38213470 TA
1 TA
38213472 CAGAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 19 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATATATTAA
Found at i:38213471 original size:20 final size:19
Alignment explanation
Indices: 38213428--38213471 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
38213418 ATATAAATTT
38213428 TAAT-ATATTAATAATATA
1 TAATAATATTAATAATATA
38213446 TAAATAATATTAATAATATAA
1 T-AATAATATTAATAATAT-A
38213467 TAATA
1 TAATA
38213472 CAGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 3 0.13
20 17 0.74
21 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAATATTAATAATATA
Found at i:38217224 original size:8 final size:8
Alignment explanation
Indices: 38217211--38217354 Score: 69
Period size: 8 Copynumber: 18.2 Consensus size: 8
38217201 TTAATAATAT
38217211 TTATATTA
1 TTATATTA
38217219 TTATATTA
1 TTATATTA
38217227 --ATATTA
1 TTATATTA
*
38217233 ATATATTTCGA
1 TTATA-TT--A
*
38217244 TT-TATAAA
1 TTATAT-TA
38217252 TCTATATT-
1 T-TATATTA
38217260 TCTATATTA
1 T-TATATTA
38217269 TT-TATT-
1 TTATATTA
*
38217275 TTATTATTC
1 TTA-TATTA
*
38217284 TATCTATTA
1 T-TATATTA
38217293 TTATATTA
1 TTATATTA
*
38217301 -TCTATTA
1 TTATATTA
38217308 TTATATTA
1 TTATATTA
38217316 TCTAT-TTA
1 T-TATATTA
38217324 -TATATTA
1 TTATATTA
38217331 TT-T-TTA
1 TTATATTA
38217337 -TATATTA
1 TTATATTA
38217344 TTATATATA
1 TTATAT-TA
38217353 TT
1 TT
38217355 TTTATTTCTA
Statistics
Matches: 107, Mismatches: 8, Indels: 41
0.69 0.05 0.26
Matches are distributed among these distances:
5 1 0.01
6 15 0.14
7 17 0.16
8 48 0.45
9 18 0.17
10 6 0.06
11 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:38217279 original size:20 final size:20
Alignment explanation
Indices: 38217256--38217374 Score: 56
Period size: 20 Copynumber: 6.0 Consensus size: 20
38217246 TATAAATCTA
38217256 TATTTCTATATTATTTATTT
1 TATTTCTATATTATTTATTT
* *
38217276 TATTATTCTAT-CTA-TTATTA
1 TA-T-TTCTATATTATTTATTT
*
38217296 TATTATCTATTATTATATTA-TC
1 TATT-TCTA-TATTAT-TTATTT
*
38217318 TATTTATATATTATTT-TTAT
1 TATTTCTATATTATTTATT-T
*
38217338 ATATTAT-TATA-TATAT-TTT
1 -TATT-TCTATATTATTTATTT
*
38217357 TATTTCTAT-TTAGTTATT
1 TATTTCTATATTATTTATT
38217375 ATTTAGTTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
17 1 0.01
18 11 0.14
19 11 0.14
20 22 0.29
21 16 0.21
22 12 0.16
23 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (20 bp):
TATTTCTATATTATTTATTT
Found at i:38217281 original size:12 final size:12
Alignment explanation
Indices: 38217264--38217396 Score: 52
Period size: 12 Copynumber: 11.2 Consensus size: 12
38217254 TATATTTCTA
38217264 TATTATTTATTT
1 TATTATTTATTT
38217276 TATTATTCTATCTAT
1 TATTATT-TAT-T-T
*
38217291 TATTATATTA-TC
1 TATTAT-TTATTT
*
38217303 TATTA-TTATAT
1 TATTATTTATTT
38217314 TATCTATTTATATAT
1 TAT-TATTTAT-T-T
*
38217329 TATT-TTTA-TA
1 TATTATTTATTT
*
38217339 TATTA-TTATATA
1 TATTATTTAT-TT
38217351 TATT-TTTA-TT
1 TATTATTTATTT
* *
38217361 T-CTATTTA-GT
1 TATTATTTATTT
*
38217371 TATTATTTA-GT
1 TATTATTTATTT
38217382 TATTATTTATATT
1 TATTATTTAT-TT
38217395 TA
1 TA
38217397 GTATATTTAG
Statistics
Matches: 94, Mismatches: 10, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
9 1 0.01
10 18 0.19
11 21 0.22
12 23 0.24
13 15 0.16
14 2 0.02
15 13 0.14
16 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:38217282 original size:15 final size:15
Alignment explanation
Indices: 38217264--38217427 Score: 64
Period size: 15 Copynumber: 10.9 Consensus size: 15
38217254 TATATTTCTA
38217264 TATTATTTATTTTAT
1 TATTATTTATTTTAT
*
38217279 TATTCTATCTATTATTA-
1 TA-T-TATTTATT-TTAT
*
38217296 TATTATCTATTATTA-
1 TATTATTTATT-TTAT
*
38217311 TATTATCTA-TTTAT
1 TATTATTTATTTTAT
*
38217325 ATATTATTT-TTATA-
1 -TATTATTTATTTTAT
*
38217339 TATTA-TTA-TATA-
1 TATTATTTATTTTAT
38217351 TATT-TTTATTTCTATT
1 TATTATTTATTT-TA-T
38217367 TAGTTA-TTA-TTTAGT
1 TA-TTATTTATTTTA-T
*
38217382 TATTATTTATATTTAG
1 TATTATTTAT-TTTAT
*
38217398 TA-TATTTAGAATTTAT
1 TATTATTT--ATTTTAT
*
38217414 TATTATTTAATTTA
1 TATTATTTATTTTA
38217428 AGTTAAATAG
Statistics
Matches: 121, Mismatches: 8, Indels: 40
0.72 0.05 0.24
Matches are distributed among these distances:
12 13 0.11
13 9 0.07
14 6 0.05
15 52 0.43
16 14 0.12
17 24 0.20
18 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:38217379 original size:11 final size:11
Alignment explanation
Indices: 38217363--38217390 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
38217353 TTTTTATTTC
38217363 TATTTAGTTAT
1 TATTTAGTTAT
38217374 TATTTAGTTAT
1 TATTTAGTTAT
38217385 TATTTA
1 TATTTA
38217391 TATTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:38217395 original size:28 final size:26
Alignment explanation
Indices: 38217254--38217405 Score: 100
Period size: 28 Copynumber: 5.7 Consensus size: 26
38217244 TTTATAAATC
*
38217254 TATATTTCTATATTATTTATT-TTATTAT
1 TATATTTAT-TATTATTTATTATTA-T-T
* *
38217282 TCTATCTATTATTATATTATCTATTA-T
1 TATATTTATTATTAT-TTAT-TATTATT
*
38217309 TATA-TTATCTATTTATATATTATT-TT
1 TATATTTAT-TA-TTATTTATTATTATT
* *
38217335 TATATATTATTA-TATATATTTTTATT
1 TATAT-TTATTATTATTTATTATTATT
*
38217361 TCTATTTAGTTATTATTTAGTTATTATT
1 TATATTTA-TTATTATTTA-TTATTATT
*
38217389 TATATTTAGTA-TATTTA
1 TATATTTATTATTATTTA
38217406 GAATTTATTA
Statistics
Matches: 100, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
25 13 0.13
26 27 0.27
27 24 0.24
28 32 0.32
29 1 0.01
30 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TATATTTATTATTATTTATTATTATT
Found at i:38217404 original size:43 final size:39
Alignment explanation
Indices: 38217264--38217422 Score: 139
Period size: 39 Copynumber: 4.0 Consensus size: 39
38217254 TATATTTCTA
*
38217264 TATTATTTAT-TTTATTA-TTCTATCTATTATTATATTAT
1 TATTATTTATATTTATTATTTCTATTTATTATTAT-TTAT
* * *
38217302 CTATTA-TTATA-TTATCTATTTATATATTATTTTTATATAT
1 -TATTATTTATATTTAT-TATTTCTAT-TTATTATTATTTAT
*
38217342 TATTATATATATTT-TTATTTCTATTTAGTTATTATTTAGT
1 TATTATTTATATTTATTATTTCTATTTA-TTATTATTTA-T
**
38217382 TATTATTTATATTTAGTATATTTAGAATTTATTATTATTTA
1 TATTATTTATATTTA-T-TATTT-CTATTTATTATTATTTA
38217423 ATTTAAGTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
38 11 0.11
39 28 0.29
40 27 0.28
41 10 0.10
42 1 0.01
43 15 0.15
44 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (39 bp):
TATTATTTATATTTATTATTTCTATTTATTATTATTTAT
Found at i:38217413 original size:26 final size:27
Alignment explanation
Indices: 38217355--38217422 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
38217345 TATATATATT
* *
38217355 TTTATTTCTATTTAGTTATTATTTAGT
1 TTTATTTATATTTAGTTATTATTTAGA
38217382 TATTATTTATATTTAG-TA-TATTTAGAA
1 T-TTATTTATATTTAGTTATTATTTAG-A
38217409 TTTA-TTATTATTTA
1 TTTATTTA-TATTTA
38217423 ATTTAAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 3 0.08
26 16 0.44
27 4 0.11
28 13 0.36
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (27 bp):
TTTATTTATATTTAGTTATTATTTAGA
Found at i:38217439 original size:31 final size:32
Alignment explanation
Indices: 38217381--38217488 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 32
38217371 TATTATTTAG
* **
38217381 TTATTATTTATATTT-AGTATATTTAGAATTTA
1 TTATTATTTA-ATTTAAGTATAATTAGAATAAA
*
38217413 TTATTATTTAATTTAAGT-TAAATAGAA-AAA
1 TTATTATTTAATTTAAGTATAATTAGAATAAA
* *
38217443 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TT-ATTATTTAATTTAAGTATAATTAGAATAAA
38217476 TTATTAATTTAAT
1 TTATT-ATTTAAT
38217489 AATTTAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
30 3 0.05
31 26 0.41
32 22 0.35
33 12 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (32 bp):
TTATTATTTAATTTAAGTATAATTAGAATAAA
Found at i:38218464 original size:17 final size:17
Alignment explanation
Indices: 38218435--38218472 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
38218425 TATTACTGAA
*
38218435 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
38218452 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
38218469 TTTA
1 TTTA
38218473 CATCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Found at i:38218562 original size:31 final size:31
Alignment explanation
Indices: 38218527--38218586 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
38218517 CGATCGATTT
38218527 AATAGATTTAATATAGATTAAATTTATTTTG
1 AATAGATTTAATATAGATTAAATTTATTTTG
38218558 AATAGATTTAATATAGATTAAATTTATTT
1 AATAGATTTAATATAGATTAAATTTATTT
38218587 CTATTTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (31 bp):
AATAGATTTAATATAGATTAAATTTATTTTG
Found at i:38218663 original size:15 final size:17
Alignment explanation
Indices: 38218633--38218664 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
38218623 GTCAAAATCT
38218633 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
38218650 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
38218665 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:38218792 original size:27 final size:28
Alignment explanation
Indices: 38218762--38218818 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
38218752 AAATGAATGG
*
38218762 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
38218789 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
38218817 AA
1 AA
38218819 AAAAAGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:38219241 original size:17 final size:17
Alignment explanation
Indices: 38219212--38219249 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
38219202 CGTAGAAAAA
*
38219212 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
38219229 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
38219246 TTTA
1 TTTA
38219250 CATCTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Found at i:38228226 original size:168 final size:167
Alignment explanation
Indices: 38227949--38228284 Score: 618
Period size: 168 Copynumber: 2.0 Consensus size: 167
38227939 GTTCTGTGGA
*
38227949 TTCTTTTGACTGTAATAGTAGTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATATA
1 TTCTTTTGACTGTAATAATAGTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATATA
* *
38228014 ATATTATAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCTA
66 ATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCTA
*
38228079 CTTGTTCTTCACAAATGTTTGCACACCTATCCCGCTT
131 CTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
*
38228116 TTCTTTTGACTGTAATAATAGGTTGGGTATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
1 TTCTTTTGACTGTAATAATA-GTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
38228181 AATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCT
65 AATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCT
38228246 ACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
130 ACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
38228284 T
1 T
38228285 CAGCATAAAG
Statistics
Matches: 163, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
167 19 0.12
168 144 0.88
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (167 bp):
TTCTTTTGACTGTAATAATAGTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATATA
ATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCTA
CTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
Found at i:38229935 original size:39 final size:39
Alignment explanation
Indices: 38229885--38229966 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
38229875 ATTTTTACAA
* *
38229885 AGTATTTGGTTACAAAGTTGTGTTTCCAATAGGAATTTT
1 AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
*
38229924 AGTATTTGGTTACAAAATTGGGTTTCCGATAGGAATTTT
1 AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
38229963 AGTA
1 AGTA
38229967 ATAGTTATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (39 bp):
AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
Found at i:38241721 original size:30 final size:30
Alignment explanation
Indices: 38241687--38241748 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
38241677 TATTTATTAC
38241687 ATGACATAAAATCTAGTATTTCAACATATA
1 ATGACATAAAATCTAGTATTTCAACATATA
38241717 ATGACATAAAATCTAGTATTTCAACATATA
1 ATGACATAAAATCTAGTATTTCAACATATA
38241747 AT
1 AT
38241749 AACCACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (30 bp):
ATGACATAAAATCTAGTATTTCAACATATA
Found at i:38245384 original size:49 final size:48
Alignment explanation
Indices: 38245311--38245454 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
38245301 AGCCGAAGCT
38245311 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
* * * * *
38245359 AGTCTGGTACACGTATTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAC
**
38245410 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
38245455 TCACAATAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.02
49 39 0.48
50 37 0.45
51 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (48 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
Found at i:38245441 original size:50 final size:51
Alignment explanation
Indices: 38245317--38245458 Score: 200
Period size: 50 Copynumber: 2.8 Consensus size: 51
38245307 AGCTATCTGG
* **
38245317 TACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAA
* * * *
38245366 TACACGTATTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAA
38245416 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
38245459 AATAGATCAT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 33 0.41
50 43 0.54
51 4 0.05
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAA
Found at i:38255593 original size:31 final size:31
Alignment explanation
Indices: 38255555--38255624 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
38255545 AATAAAAATA
**
38255555 TTCATTTTAGGCA-TCATGATCAAAAACTATT
1 TTCATTTTAGGCACT-ACCATCAAAAACTATT
*
38255586 TTCATTTTAGGCACTACCATTAAAAACTATT
1 TTCATTTTAGGCACTACCATCAAAAACTATT
*
38255617 CTCATTTT
1 TTCATTTT
38255625 GGTCACCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (31 bp):
TTCATTTTAGGCACTACCATCAAAAACTATT
Found at i:38256234 original size:31 final size:31
Alignment explanation
Indices: 38256169--38256235 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
38256159 ATAAGTGATC
* * *
38256169 AAAATAAAAATATTTTTTAACGACAGTGCAT
1 AAAATAAAAATAGTTTTTAACAACAATGCAT
* *
38256200 AAAATAAAAATAGTTTTTAACAATAATGCTT
1 AAAATAAAAATAGTTTTTAACAACAATGCAT
38256231 AAAAT
1 AAAAT
38256236 GAAATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (31 bp):
AAAATAAAAATAGTTTTTAACAACAATGCAT
Found at i:38258904 original size:16 final size:17
Alignment explanation
Indices: 38258874--38258925 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
38258864 GGCCCCTAAA
38258874 ATAATTTTTT-T-ATTT
1 ATAATTTTTTATAATTT
38258889 A-AATTTTTTATAATTT
1 ATAATTTTTTATAATTT
* *
38258905 ATAATATTTTA-AATTA
1 ATAATTTTTTATAATTT
38258921 ATAAT
1 ATAAT
38258926 GATAAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 14 0.44
17 8 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTTTATAATTT
Found at i:38259907 original size:24 final size:24
Alignment explanation
Indices: 38259880--38259931 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38259870 TTAGTAAGTC
*
38259880 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
38259904 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
38259928 AAAT
1 AAAT
38259932 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:38261869 original size:24 final size:24
Alignment explanation
Indices: 38261842--38261893 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38261832 TTAGTAAGTC
*
38261842 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
38261866 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
38261890 AAAT
1 AAAT
38261894 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:38262858 original size:19 final size:19
Alignment explanation
Indices: 38262836--38262879 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
38262826 AAATTACAAA
* *
38262836 AAAAATTAAAATAATTTTT
1 AAAAATTAAAAAAATTTAT
38262855 AAAAA-TAAAAAAATTTAT
1 AAAAATTAAAAAAATTTAT
38262873 AAAAATT
1 AAAAATT
38262880 TCATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTAAAAAAATTTAT
Found at i:38264726 original size:27 final size:27
Alignment explanation
Indices: 38264696--38264771 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
38264686 CTATATACAT
* *
38264696 TATTGT-TTTTATATTATTTTATGTAAA
1 TATTGTCTTTTAAATT-TATTATGTAAA
*
38264723 TATTTTCTTTTAAATTTATTATGTATATA
1 TATTGTCTTTTAAATTTATTATGTA-A-A
* *
38264752 TATTCTCTTTAAAATTTATT
1 TATTGTCTTTTAAATTTATT
38264772 TATGCATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 13 0.32
28 9 0.22
29 19 0.46
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTGTCTTTTAAATTTATTATGTAAA
Found at i:38264733 original size:28 final size:27
Alignment explanation
Indices: 38264714--38264771 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
38264704 TTATATTATT
*
38264714 TTATGTAAATATTTTCTTTTAAATTTA
1 TTATGTAAATATATTCTTTTAAATTTA
*
38264741 TTATGTATATATATTCTCTTTAAAATTTA
1 TTATGTAAATATATTCT-TTT-AAATTTA
38264770 TT
1 TT
38264772 TATGCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 15 0.56
28 3 0.11
29 9 0.33
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATGTAAATATATTCTTTTAAATTTA
Found at i:38264741 original size:29 final size:31
Alignment explanation
Indices: 38264709--38264772 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
38264699 TGTTTTTATA
* *
38264709 TTATTTTATGTA-A-ATATTTTCTTTTAAAT
1 TTATTTTATGTATATATATTCTCTTTAAAAT
38264738 TTA--TTATGTATATATATTCTCTTTAAAAT
1 TTATTTTATGTATATATATTCTCTTTAAAAT
38264767 TTATTT
1 TTATTT
38264773 ATGCATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 7 0.24
28 1 0.03
29 20 0.69
31 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (31 bp):
TTATTTTATGTATATATATTCTCTTTAAAAT
Found at i:38265550 original size:127 final size:129
Alignment explanation
Indices: 38265398--38265633 Score: 368
Period size: 130 Copynumber: 1.8 Consensus size: 129
38265388 ATTTTCATCT
* * *
38265398 CGTGTTTTGGAAATCATGAGGTGATCTC-A-GTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
1 CGTGTTTTGGAAATCATGAAGTGATCTCAATGTTTTTGGAAGCTTAAAATATCGTATCCTAACGT
* * *
38265461 GCTGGATGTGGTATTTTATTCCTTTGGGACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 GCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
* * *
38265525 CGTGTTTTGGAAATCATGAAGTGATCTCAATTTTTTTTGGAAGTTTAAAATATCGTATCCTAATG
1 CGTGTTTTGGAAATCATGAAGTGATCTCAA-TGTTTTTGGAAGCTTAAAATATCGTATCCTAACG
38265590 TGCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
65 TGCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
38265634 CAAACTCGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
127 27 0.28
128 1 0.01
130 69 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (129 bp):
CGTGTTTTGGAAATCATGAAGTGATCTCAATGTTTTTGGAAGCTTAAAATATCGTATCCTAACGT
GCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
Found at i:38276216 original size:40 final size:40
Alignment explanation
Indices: 38276141--38276392 Score: 294
Period size: 40 Copynumber: 6.3 Consensus size: 40
38276131 TCTTCAGAAT
* * * *
38276141 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
* * * *
38276180 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
* * *
38276220 TTAGCCCGGAAAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGG-ATATATCAACTAGCACAAATGCCTTCGGGTC
* * * *
38276260 TTAACCCGGGTATAGCAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
*
38276300 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
* * *
38276340 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTAGCACAAATGCCTTCGGGTC
38276380 TTAGCCCGGATAT
1 TTAGCCCGGATAT
38276393 CATTCAAATG
Statistics
Matches: 179, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 7 0.04
40 165 0.92
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
Found at i:38276374 original size:120 final size:120
Alignment explanation
Indices: 38276161--38276388 Score: 375
Period size: 120 Copynumber: 1.9 Consensus size: 120
38276151 ATAACCACAA
* *
38276161 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
38276226 CGGAAAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTT
66 CGGAAAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTT
* *
38276281 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
38276346 CGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
66 CGGAAAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGG
38276389 ATATCATTCA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGAAAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTT
Found at i:38276390 original size:80 final size:79
Alignment explanation
Indices: 38276141--38276392 Score: 328
Period size: 80 Copynumber: 3.2 Consensus size: 79
38276131 TCTTCAGAAT
* * *
38276141 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAT-ATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCAC
38276205 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
38276220 TTAGCCCGGAAAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTTGCAC
1 TTAGCCCGG-ATATATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCAC
38276285 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * * * *
38276300 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCA
1 TTAGCCCGGATATATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTAGCA
* *
38276364 TAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGTC
38276380 TTAGCCCGGATAT
1 TTAGCCCGGATAT
38276393 CATTCAAATG
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.06
80 139 0.91
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCACA
AATGCCTTCGGGTC
Found at i:38280739 original size:132 final size:132
Alignment explanation
Indices: 38280522--38280812 Score: 456
Period size: 132 Copynumber: 2.2 Consensus size: 132
38280512 AAATGGCAAG
* * * * *
38280522 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
* * *
38280587 AGGGAGCAAGTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACA
66 AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
38280652 GA
131 GA
* * *
38280654 TCTTATCTACATGTATCGATTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
* * *
38280719 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGACTGAAAATTATA
66 AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
38280784 GA
131 GA
38280786 TCTTATCTCCATGTATCGACTATGGAG
1 TCTTATCTCCATGTATCGACTATGGAG
38280813 TAGATCAAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 143 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
GA
Found at i:38281088 original size:177 final size:176
Alignment explanation
Indices: 38280654--38281060 Score: 589
Period size: 177 Copynumber: 2.3 Consensus size: 176
38280644 AAGTTACAGA
* ** *
38280654 TCTTATCTACATGTATCGATTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
** *
38280719 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGACTGAAAATTATA
65 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * *
38280784 GATCTTATCTCCATGTATCGACTATGGAGTAGATCAAAAATGGCGAG
130 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* * * *
38280831 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCATCCTTATCACTGTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* * *
38280896 AGAGAGCGGGTTGAAGGTACAGGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
65 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* **
38280961 GATCTTATCTCCATGTGTCGGTTATGGAGCAAATAAAAAATGGCGAG
130 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* *
38281008 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCATCAACCTTATCTC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTT-AGCCACCAACCTTATCTC
38281061 CCTAAAGTTG
Statistics
Matches: 203, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 3 0.01
177 200 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (176 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCCACCAACCTTATCTCTCTGAGGTAGCAA
GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAG
ATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
Found at i:38281105 original size:177 final size:174
Alignment explanation
Indices: 38280654--38281115 Score: 575
Period size: 177 Copynumber: 2.6 Consensus size: 174
38280644 AAGTTACAGA
* ** *
38280654 TCTTATCTACATGTATCGATTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
** *
38280719 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGACTGAAAATTATA
65 AGAGAGCAGGTTGAAG-TACAA-TCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * *
38280784 GATCTTATCTCCATGTATCGACTATGGAGTAGATCAAAAATGGCGAG
128 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* * * *
38280831 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCATCCTTATCACTGTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* *
38280896 AGAGAGCGGGTTGAAGGTACAGGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
65 AGAGAGCAGGTTGAA-GTACA-ATCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* **
38280961 GATCTTATCTCCATGTGTCGGTTATGGAGCAAATAAAAAATGGCGAG
128 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* * * * * *
38281008 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCATCAACCTTATCTCCCTAAAGTTGC-
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTT-AGCCACCAACCTTATCTCTCTGAGGTAGCA
* * *
38281072 AGTGGAGCAGGTTGAAGTCACAAACAGTATCTTCCTAAAGTTGC
65 AG-AGAGCAGGTTGAAGT-ACAATC-TTATCTTCCTAAAGTTGC
38281116 TGAAAGACTA
Statistics
Matches: 244, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
176 8 0.03
177 235 0.96
178 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (174 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCCACCAACCTTATCTCTCTGAGGTAGCAA
GAGAGCAGGTTGAAGTACAATCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
CTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
Found at i:38282592 original size:27 final size:30
Alignment explanation
Indices: 38282561--38282627 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
38282551 TTCATATTAT
* *
38282561 TTTATGTA-A-ATATTTTCTTTTAAATTTA
1 TTTATGTATATATATTCTCTTTAAAATTTA
38282589 -TTATGTATATATATTCTCTTTAAAATTTA
1 TTTATGTATATATATTCTCTTTAAAATTTA
38282618 TTTATGTATA
1 TTTATGTATA
38282628 ATTTGGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 17 0.50
30 9 0.26
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TTTATGTATATATATTCTCTTTAAAATTTA
Found at i:38283394 original size:126 final size:127
Alignment explanation
Indices: 38283247--38283481 Score: 355
Period size: 130 Copynumber: 1.8 Consensus size: 127
38283237 ATTTTTGTCT
* * *
38283247 CGTGTTTTTGAAATCATGAGGTGATCTCA-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTGC
1 CGTGTTTTGGAAATCATGAGGTGATCTCATTTTTTAGAAGCTTAAAATATCGTGTCCTAACGTGC
* * * *
38283311 TGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 TGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
* *
38283373 CGTGTTTTGGAAATCGTGAGGTGATCTCAGTTTTTTTTAGAAGTTTAAAATATCGTGTCCTAACG
1 CGTGTTTTGGAAATCATGAGGTGATCTCA---TTTTTTAGAAGCTTAAAATATCGTGTCCTAACG
38283438 TGCTGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAA
63 TGCTGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAA
38283482 CAAACTCGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 27 0.28
130 69 0.72
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (127 bp):
CGTGTTTTGGAAATCATGAGGTGATCTCATTTTTTAGAAGCTTAAAATATCGTGTCCTAACGTGC
TGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
Found at i:38284478 original size:6 final size:6
Alignment explanation
Indices: 38284463--38284505 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
38284453 ATGTTACTTT
* * * *
38284463 TATATG TATATA TATACA TATATA TATACA TATACA TATATA T
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA T
38284506 CATTAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:38284484 original size:12 final size:12
Alignment explanation
Indices: 38284469--38284502 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
38284459 CTTTTATATG
38284469 TATATATATACA
1 TATATATATACA
38284481 TATATATATACA
1 TATATATATACA
*
38284493 TATACATATA
1 TATATATATA
38284503 TATCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATATATACA
Found at i:38284490 original size:18 final size:18
Alignment explanation
Indices: 38284463--38284505 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
38284453 ATGTTACTTT
* *
38284463 TATATGTATATATATACA
1 TATATATATACATATACA
38284481 TATATATATACATATACA
1 TATATATATACATATACA
38284499 TATATAT
1 TATATAT
38284506 CATTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
TATATATATACATATACA
Found at i:38284759 original size:13 final size:13
Alignment explanation
Indices: 38284743--38284768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38284733 CTATTAAACT
38284743 ACCCCACTAAATC
1 ACCCCACTAAATC
38284756 ACCCCACTAAATC
1 ACCCCACTAAATC
38284769 CATCATCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCCCACTAAATC
Found at i:38284935 original size:28 final size:28
Alignment explanation
Indices: 38284895--38284951 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38284885 AAATAAAGAC
38284895 TTTCAATACAAGAAATACACGAGATTAA
1 TTTCAATACAAGAAATACACGAGATTAA
38284923 TTTCAATACAAGAAATACACGAGATTAA
1 TTTCAATACAAGAAATACACGAGATTAA
38284951 T
1 T
38284952 AAAAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (28 bp):
TTTCAATACAAGAAATACACGAGATTAA
Found at i:38285094 original size:3 final size:3
Alignment explanation
Indices: 38285086--38285432 Score: 72
Period size: 3 Copynumber: 112.3 Consensus size: 3
38285076 GGGGAAAGTG
* *
38285086 TTA TTA TTA TTA TTA TT- TTA TTA TTA CTT- TTA CCTTT TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA --TTA TTA TTA TTA
* * * ** * *
38285132 TTA TTA TTT TTA TTA ATA -TA ATA TTA TT- TCC TT- TTT TTA TATG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* ** * * *
38285175 TTG TTA TTA TTA TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA TCA TTG
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
* * *
38285222 TTA TTT TCTA TT- TTA GTA TTA CTT- TTA TTA TTA TTG TT- TCTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA
* * *
38285267 TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TCA TTT TCTA TTA
1 TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * *
38285313 TCA TTA ATA TGTCA TGTG TTCA TTA TTA TTA TT- TTT TTA ATA CTA TTA
1 TTA TTA TTA T-T-A T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
38285361 TCA TCA TTA TATA TTTA CTT- TTT TTA ATA TTA TTA CCA TTA TATA TT-
1 TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * *
38285408 TTT TTA TTA CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
38285433 CTGTCCTACT
Statistics
Matches: 256, Mismatches: 54, Indels: 68
0.68 0.14 0.18
Matches are distributed among these distances:
2 24 0.09
3 187 0.73
4 34 0.13
5 10 0.04
6 1 0.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:38285392 original size:32 final size:34
Alignment explanation
Indices: 38285332--38285412 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 34
38285322 TGTCATGTGT
38285332 TCATTAT-TA-TTATTTTTTTAATACTATTATCA
1 TCATTATATATTTATTTTTTTAATACTATTATCA
*
38285364 TCATTATATATTTACTTTTTTTAATATTATTA-C-
1 TCATTATATATTTA-TTTTTTTAATACTATTATCA
38285397 -CATTATATATTT-TTTT
1 TCATTATATATTTATTTT
38285413 ATTACTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
30 4 0.09
32 19 0.42
33 2 0.04
34 4 0.09
35 16 0.36
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (34 bp):
TCATTATATATTTATTTTTTTAATACTATTATCA
Found at i:38290970 original size:44 final size:44
Alignment explanation
Indices: 38290922--38291372 Score: 176
Period size: 44 Copynumber: 10.2 Consensus size: 44
38290912 ATAGTGGCAA
* * *
38290922 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGTAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
38290966 TGGAGCAGCTTTAAGATACAAGTCTTATCTCCCTAAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * ** * * ** *
38291010 TGGAGTAGACTGAAAATTGC-AGATCTTATCTTCCT-AAGCAGTAG
1 TGGAGCAGATTTAAGA-CACAAG-CCTTATCTCCCTAAAGTTGCAG
** ** * ** ** *
38291054 TGGAGCAGATCGAAGACGGA-AAATCTTATCTCCATGTAGCGGCAA
1 TGGAGCAGATTTAAGAC--ACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
38291099 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * * ** * *
38291143 CGGAACAGGTTCAAGATACAATTCTTATCACCCTGAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * * * ** *
38291187 TGGAGCAGACTAAAAATTAC-AGATCTTATCTTCCT-AAGCAGTAG
1 TGGAGCAGATTTAAGA-CACAAG-CCTTATCTCCCTAAAGTTGCAG
** ** * * ** * *
38291231 TGGAGCAGATCGAAGACGGA-AAATCTTACCTCCATGTAGTGGCAA
1 TGGAGCAGATTTAAGAC--ACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
38291276 TAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * * * *
38291320 CGGAGCAGGTTCAAGATACAAGTCTTATCACCCTGAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
38291364 TGGAGCAGA
1 TGGAGCAGA
38291373 CTGAAAATTG
Statistics
Matches: 292, Mismatches: 101, Indels: 28
0.69 0.24 0.07
Matches are distributed among these distances:
43 2 0.01
44 225 0.77
45 65 0.22
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
Found at i:38291161 original size:177 final size:177
Alignment explanation
Indices: 38290852--38291484 Score: 960
Period size: 177 Copynumber: 3.6 Consensus size: 177
38290842 GGTGAATTTA
* * * * * * * *
38290852 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCAAAGACAGCAAATCTTATTTCTATATAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
* * * *
38290917 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGTAGTGGAGCAGCTTTAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
* *
38290982 TACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAAATTG
131 TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
*
38291029 CAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
* *
38291094 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAACAGGTTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
* * * *
38291159 TACAATTCTTATCACCCTGAAGTTGCAGTGGAGCAGACTAAAAATTA
131 TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
* * *
38291206 CAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTACCTCCATGTAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
*
38291271 GGCAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
*
38291336 TACAAGTCTTATCACCCTGAAGTTGCAGTGGAGCAGACTGAAAATTG
131 TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
* * * * *
38291383 CAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATTTCCATGTAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
* * *
38291448 GACAATGGAGCAGACTTAAGCCACCATCCTTATCTCC
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCC
38291485 TTGAGTAGTA
Statistics
Matches: 415, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 415 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (177 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
Found at i:38291410 original size:44 final size:44
Alignment explanation
Indices: 38291342--38291544 Score: 114
Period size: 44 Copynumber: 4.6 Consensus size: 44
38291332 AAGATACAAG
* * *
38291342 TCTTATCACCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGA
1 TCTTATCTCCCT-AAGTAGTAGTGGAGCAGACTGAAAATTGCAGA
* * * *
38291387 TCTTATCTCCCTAAGTAGTAGTGGAGTAGA-TCGAAGATGGCAAA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGACT-GAAAATTGCAGA
* * * * * *
38291431 TCTTAT-TTCC-ATGTAGCGACAATGGAGCAGACT--TAA--GCCACCA
1 TCTTATCTCCCTAAGTA--G-TAGTGGAGCAGACTGAAAATTG-CA-GA
* * * * *
38291474 TCCTTATCTCCTTGAGTAGTAGTGGAGCAGGCTGAAGATTACAGA
1 T-CTTATCTCCCTAAGTAGTAGTGGAGCAGACTGAAAATTGCAGA
*
38291519 TCTTATCTCCCTAAGAAGTAGTGGAG
1 TCTTATCTCCCTAAGTAGTAGTGGAG
38291545 TAGATCGAAG
Statistics
Matches: 115, Mismatches: 29, Indels: 29
0.66 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 6 0.05
43 18 0.16
44 59 0.51
45 25 0.22
46 6 0.05
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGACTGAAAATTGCAGA
Found at i:38291523 original size:132 final size:131
Alignment explanation
Indices: 38291360--38291946 Score: 652
Period size: 132 Copynumber: 4.5 Consensus size: 131
38291350 CCCTGAAGTT
* * * * *
38291360 GCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGAT
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * * *
38291425 GGCAAATCTTAT-TTCCATGTAGCG-ACAATGG-AGCAGACTTAAGCCACCATCCTTATCTC-CT
66 GGCGAATCTTATCTTCC-CG-AG-GTA-AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTC-
*
38291486 TGAGTA
126 TGAGCA
* *
38291492 GTAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGAC
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * * * * *
38291557 GGTGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTTTCTAAG
66 GGCGAATCTTATCTTCCCGAGGTA-AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAG
38291622 CA
130 CA
* * ** * *
38291624 GCAGT-GAGTAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAATAGTGGAGTAGATCGAAGAC
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * * *
38291688 GGCGAATCTTCTCTTCCCGAGGTAGTAA-GGAAGCAGATTTAAGCCATCAACGTTATCTCTATGA
66 GGCGAATCTTATCTTCCCGAGGTA--AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGA
38291752 GCA
129 GCA
* *
38291755 GCAGTGGAGCAGGCTGAAGATTACAAATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * *
38291820 GGTGAATCTTATTTTCCC-AGGTAGTAGGGAAG-AGATTTAAGCCACTAGCCTTATCTCTCTGAG
66 GGCGAATCTTATCTTCCCGAGGTA-AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAG
38291883 CA
130 CA
* ** * *
38291885 GCAGT-GAGCAGGCCGAAGATTTTAGATCTTATCTCCCTAAGCATTAGCGGAGTAGATCGAAG
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAG
38291947 CTACAAATCT
Statistics
Matches: 382, Mismatches: 66, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
129 50 0.13
130 35 0.09
131 125 0.33
132 167 0.44
133 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (131 bp):
GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
GGCGAATCTTATCTTCCCGAGGTAAAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGC
A
Found at i:38292022 original size:261 final size:263
Alignment explanation
Indices: 38291494--38291996 Score: 678
Period size: 261 Copynumber: 1.9 Consensus size: 263
38291484 CTTGAGTAGT
*
38291494 AGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
1 AGTGGAGCAGGCTGAAGATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
*
38291559 TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTTTCTAAGCA
66 TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCTCTAAGCA
* * * * *
38291624 GCAGTGAGTAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAATAGTGGAGTAGATCGAAGACG
131 GCAGTGAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCGGAGTAGATCGAAGACG
* * * ** ** ** * * *
38291689 GCGAATCTTCTCTTCCCGAGGTAGTAAGGAAGCAGATTTAAGCCATCAACGTTATCTCTATGAGC
196 ACAAATCTTCTCTTCCCAAAATAACAAGGAAGCAGATCAAAGCCACCAACGCTAACTCTATGAGC
38291754 AGC
261 AGC
* *
38291757 AGTGGAGCAGGCTGAAGATTACAAATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGG
1 AGTGGAGCAGGCTGAAGATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
* * *
38291822 TGAATCTTATTTTCCC-AGGTAGTAGGGAAG-AGATTTAAGCCACTAGCCTTATCTCTCTGAGCA
66 TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCTCTAAGCA
* * *
38291885 GCAGTGAGCAGGCCGAAGATTTTAGATCTTATCTCCCTAAGCATTAGCGGAGTAGATCGAAG-CT
131 GCAGTGAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCGGAGTAGATCGAAGACG
*
38291949 ACAAATC-TCT-TCTCCCTAAAATAACATTGG-AGCAGATCAAAG-CACCAA
196 ACAAATCTTCTCT-TCCC-AAAATAACA-AGGAAGCAGATCAAAGCCACCAA
38291997 TTCCTACACT
Statistics
Matches: 211, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
258 1 0.00
259 12 0.06
260 20 0.09
261 88 0.42
262 14 0.07
263 76 0.36
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (263 bp):
AGTGGAGCAGGCTGAAGATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCTCTAAGCA
GCAGTGAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCGGAGTAGATCGAAGACG
ACAAATCTTCTCTTCCCAAAATAACAAGGAAGCAGATCAAAGCCACCAACGCTAACTCTATGAGC
AGC
Found at i:38292253 original size:25 final size:26
Alignment explanation
Indices: 38292223--38292271 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
38292213 GCCCAATTAA
38292223 CACCCCACTAAACCAAC-TACTAAAC
1 CACCCCACTAAACCAACTTACTAAAC
*
38292248 CACCCCACTAAACCACCTTACTAA
1 CACCCCACTAAACCAACTTACTAA
38292272 CTCCATCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (26 bp):
CACCCCACTAAACCAACTTACTAAAC
Found at i:38292259 original size:13 final size:13
Alignment explanation
Indices: 38292223--38292264 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
38292213 GCCCAATTAA
38292223 CACCCCACTAAAC
1 CACCCCACTAAAC
* *
38292236 CA-ACTACTAAAC
1 CACCCCACTAAAC
38292248 CACCCCACTAAAC
1 CACCCCACTAAAC
38292261 CACC
1 CACC
38292265 TTACTAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:38292270 original size:13 final size:12
Alignment explanation
Indices: 38292229--38292271 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
38292219 TTAACACCCC
*
38292229 ACTAAACCAACT
1 ACTAAACCACCT
*
38292241 ACTAAACCACCCC
1 ACTAAACCA-CCT
38292254 ACTAAACCACCTT
1 ACTAAACCACC-T
38292267 ACTAA
1 ACTAA
38292272 CTCCATCACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (12 bp):
ACTAAACCACCT
Found at i:38292570 original size:3 final size:3
Alignment explanation
Indices: 38292562--38292605 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
38292552 GGGGAGAGTG
*
38292562 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTT- TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
38292606 CTATATACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:38292914 original size:25 final size:25
Alignment explanation
Indices: 38292876--38292923 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38292866 TATATTTACC
38292876 TTTTTTAATATTATTACCATTATAG
1 TTTTTTAATATTATTACCATTATAG
* * *
38292901 TTTTTTATTTTTATTACTATTAT
1 TTTTTTAATATTATTACCATTAT
38292924 TTTTATTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTTAATATTATTACCATTATAG
Found at i:38293324 original size:125 final size:125
Alignment explanation
Indices: 38293100--38293325 Score: 276
Period size: 125 Copynumber: 1.8 Consensus size: 125
38293090 CAAGTAAATG
* * *
38293100 CAATATTCGGTATTTGGAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCAGTTTTTCGTTT
1 CAATATTCGGTATTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAGTTTTCCGTTT
* *** **
38293165 GATCTAAGTAACCAATTATCCTTTTAAATTAAAATACATGAGTTTTAAATAAAACAAAGA
66 GATCTAAATAACCAATTATCCCACTAAAGGAAAATACATGAGTTTTAAATAAAACAAAGA
* * * *
38293225 CAATATTCTGTATTTAGAAATTCGAGTAGTCGTGCCCTAACGTACTGGGTTT-TGATTTTCCGTT
1 CAATATTCGGTATTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAG-TTTTCCGTT
* * *
38293289 TGATCTAAATATCCGAA-TGTCCCACTACAGGAAAATA
65 TGATCTAAATAACC-AATTATCCCACTAAAGGAAAATA
38293326 GGGCTTTAGC
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
124 1 0.01
125 80 0.96
126 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (125 bp):
CAATATTCGGTATTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAGTTTTCCGTTT
GATCTAAATAACCAATTATCCCACTAAAGGAAAATACATGAGTTTTAAATAAAACAAAGA
Found at i:38293451 original size:41 final size:41
Alignment explanation
Indices: 38293376--38293494 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
38293366 ATCAAACACG
* * *
38293376 GAGCAATAGCGGCGTTTTACCA-AAAAC-CCTGCTAAAAACCA
1 GAGCATTAGCGGCGCTTT-CGATAAAACGCC-GCTAAAAACCA
* * *
38293417 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAAACCA
1 GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
38293458 GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
38293495 GTCATATAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 65 0.97
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
Found at i:38293579 original size:15 final size:16
Alignment explanation
Indices: 38293549--38293582 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38293539 ACTAATCTAT
38293549 AACCCCTAAAACACTA
1 AACCCCTAAAACACTA
*
38293565 AACCCTTAAAA-ACTA
1 AACCCCTAAAACACTA
38293580 AAC
1 AAC
38293583 TATAACCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (16 bp):
AACCCCTAAAACACTA
Found at i:38293586 original size:37 final size:37
Alignment explanation
Indices: 38293534--38293604 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
38293524 CAAAAAATAA
* *
38293534 TAAACACTAATCTATAACCCCTAAAACACTAAACCCT
1 TAAAAACTAAACTATAACCCCTAAAACACTAAACCCT
*
38293571 TAAAAACTAAACTATAACCCCTAAAACCCTAAAC
1 TAAAAACTAAACTATAACCCCTAAAACACTAAAC
38293605 TCCAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (37 bp):
TAAAAACTAAACTATAACCCCTAAAACACTAAACCCT
Found at i:38293613 original size:37 final size:37
Alignment explanation
Indices: 38293539--38293613 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
38293529 AATAATAAAC
* *
38293539 ACTAATCTATAACCCCTAAAACACTAAACCCTTAAAA
1 ACTAAACTATAACCCCTAAAACACTAAACCCTAAAAA
*
38293576 ACTAAACTATAACCCCTAAAACCCTAAACTCC-AAAAA
1 ACTAAACTATAACCCCTAAAACACTAAAC-CCTAAAAA
38293613 A
1 A
38293614 TATCATATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.19
Consensus pattern (37 bp):
ACTAAACTATAACCCCTAAAACACTAAACCCTAAAAA
Found at i:38294090 original size:17 final size:18
Alignment explanation
Indices: 38294065--38294100 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38294055 CCTAAACTCT
*
38294065 TAAACCCCTAAAC-CTAA
1 TAAAACCCTAAACACTAA
38294082 TAAAACCCTAAACACTAA
1 TAAAACCCTAAACACTAA
38294100 T
1 T
38294101 CTATAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAACCCTAAACACTAA
Found at i:38294746 original size:19 final size:20
Alignment explanation
Indices: 38294711--38294755 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
38294701 TTAGATTTAA
*
38294711 AAAAACATTGATAAATAAAT
1 AAAAATATTGATAAATAAAT
38294731 AAAAATATTGAT-AATAAAT
1 AAAAATATTGATAAATAAAT
38294750 AAAAAT
1 AAAAAT
38294756 GAAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAATATTGATAAATAAAT
Found at i:38297237 original size:22 final size:23
Alignment explanation
Indices: 38297186--38297238 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
38297176 AGAAAACCAT
38297186 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
*
38297208 TTTA-GGTGTTAAATGCTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
38297229 TTTATGGTGT
1 TTTATGGTGT
38297239 CTGAAAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:38299053 original size:43 final size:42
Alignment explanation
Indices: 38298989--38299218 Score: 248
Period size: 43 Copynumber: 5.4 Consensus size: 42
38298979 TTTTTGAAGT
*
38298989 TCATGATTTTTAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAAG
1 TCATG-TTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
* * * * *
38299032 TCATGTTCTTTAGTGGAGTTTGTGGGAAAAGTGTCGCTAAAAG
1 TCATGTT-TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
*
38299075 TCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG
1 TCATG-TTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
* * *
38299118 T-ATGATCTTTAGCGGCGTTTTTG-GAAAAGCGCCGCTAAAGG
1 TCATG-TTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
* * * * *
38299159 TCATGGTTTTTAGCGGCGTTTATAAAAAAAGCGTCGTTAAAAG
1 TCAT-GTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
*
38299202 TCATGGTCTTTAGCGGC
1 TCAT-GTTTTTAGCGGC
38299219 ATTTTTTTAA
Statistics
Matches: 162, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
41 18 0.11
42 39 0.24
43 103 0.64
44 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (42 bp):
TCATGTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
Found at i:38299176 original size:84 final size:85
Alignment explanation
Indices: 38298989--38299224 Score: 303
Period size: 84 Copynumber: 2.8 Consensus size: 85
38298979 TTTTTGAAGT
* * * *
38298989 TCATGATTTTTAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGTGGAGTTTG
1 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTT-
* * *
38299054 TGGGAAAAGTGTCGCTAAAAG
65 TTGGAAAAGCGCCGCTAAAAG
*
38299075 TCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGT-ATGATCTTTAGCGGCGTTTT
1 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTT
*
38299139 TGGAAAAGCGCCGCTAAAGG
66 TGGAAAAGCGCCGCTAAAAG
* * * * * * * *
38299159 TCATGGTTTTTAGCGGCGTTTATAAAAAAAGCGTCGTTAAAAGTCATGGTCTTTAGCGGCATTTT
1 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTT
38299224 T
66 T
38299225 TTAAATAAAC
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 54 0.41
85 35 0.27
86 42 0.32
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (85 bp):
TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTT
TGGAAAAGCGCCGCTAAAAG
Found at i:38301314 original size:12 final size:10
Alignment explanation
Indices: 38301290--38301323 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
38301280 AAGCATTATA
38301290 TTTCTTTTTT
1 TTTCTTTTTT
*
38301300 TTCCTTTTCTT
1 TTTCTTTT-TT
38301311 TTTCTTTTTT
1 TTTCTTTTTT
38301321 TTT
1 TTT
38301324 GCCATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:38306563 original size:18 final size:19
Alignment explanation
Indices: 38306540--38306577 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
38306530 TTGAAAAGTA
38306540 TATTATGTGA-TGTGATGT
1 TATTATGTGATTGTGATGT
*
38306558 TATTATTTGATTGTGATGT
1 TATTATGTGATTGTGATGT
38306577 T
1 T
38306578 TGTGCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (19 bp):
TATTATGTGATTGTGATGT
Found at i:38306844 original size:22 final size:22
Alignment explanation
Indices: 38306816--38306867 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
38306806 AGGATGAAGA
*
38306816 TATGTGG-CAGTTTATCTACAAT
1 TATGTGGTC-GTTTATCGACAAT
*
38306838 TATGTGGTCGTTTATCGATAAT
1 TATGTGGTCGTTTATCGACAAT
38306860 TATGTGGT
1 TATGTGGT
38306868 GGCTTGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (22 bp):
TATGTGGTCGTTTATCGACAAT
Found at i:38321797 original size:21 final size:21
Alignment explanation
Indices: 38321733--38321797 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
38321723 CAGAAGCAGT
*
38321733 ATACGACACATAAAGTGCCTG
1 ATACGACACATATAGTGCCTG
* * ** *
38321754 AAATGACACACGTGGTGCCTG
1 ATACGACACATATAGTGCCTG
38321775 ATACGACACATATAGTGCCTG
1 ATACGACACATATAGTGCCTG
38321796 AT
1 AT
38321798 CAGCAAAGCC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTG
Found at i:38322666 original size:12 final size:12
Alignment explanation
Indices: 38322649--38322682 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
38322639 AAAACCTTAG
38322649 TTTTTCCTTTTC
1 TTTTTCCTTTTC
38322661 TTTTT-CTTTTC
1 TTTTTCCTTTTC
38322672 TTCTTTCCTTT
1 TT-TTTCCTTT
38322683 CCCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:38322804 original size:13 final size:13
Alignment explanation
Indices: 38322764--38322804 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
38322754 ATGTATTAGT
38322764 TAATAATAATAATA
1 TAAT-ATAATAATA
* *
38322778 CATTATAATAATA
1 TAATATAATAATA
38322791 TAATATAATAATA
1 TAATATAATAATA
38322804 T
1 T
38322805 TTAATTCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 21 0.91
14 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:38322994 original size:24 final size:23
Alignment explanation
Indices: 38322943--38322996 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
38322933 AATAATAATA
38322943 ATTTAATAATTTAATATAAAGCT
1 ATTTAATAATTTAATATAAAGCT
*
38322966 A--TAATAATTATAATA-AATATCT
1 ATTTAATAATT-TAATATAA-AGCT
38322988 ATTTAATAA
1 ATTTAATAA
38322997 CAAATACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.38
22 9 0.35
23 1 0.04
24 6 0.23
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTAATAATTTAATATAAAGCT
Found at i:38325202 original size:45 final size:45
Alignment explanation
Indices: 38325137--38325227 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
38325127 CCAAAACATG
38325137 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
** * *
38325182 TGTCACATATATCATTAACTCATACCACAACTCAATGAGTTTAGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
38325227 T
1 T
38325228 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:38337497 original size:45 final size:45
Alignment explanation
Indices: 38337447--38337537 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
38337437 CCAAAACATG
* * *
38337447 TGTCACATACATCTTGAACTCAGACCACAACTCAGTGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
*
38337492 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
38337537 T
1 T
38337538 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:38343473 original size:26 final size:26
Alignment explanation
Indices: 38343437--38343495 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
38343427 AACATGTCAG
*
38343437 GAAATGAAAGCCTTTGTACCGTATCT
1 GAAATGAAAGCCTTCGTACCGTATCT
* ***
38343463 GAAATGGAAGCCTTCGTGGTGTATCT
1 GAAATGAAAGCCTTCGTACCGTATCT
38343489 GAAATGA
1 GAAATGA
38343496 GAGCTTTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (26 bp):
GAAATGAAAGCCTTCGTACCGTATCT
Found at i:38346180 original size:34 final size:38
Alignment explanation
Indices: 38346107--38346190 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 38
38346097 TAAAAGTTAC
*
38346107 ATTAATAGTTATAAAATATATTACTATGTTATATCTAT
1 ATTAATAGTTATAAAATATATTACTATGTTATATATAT
**
38346145 ATTAATAGTTAT-AGTTATA-TA-TATG-TATATATAT
1 ATTAATAGTTATAAAATATATTACTATGTTATATATAT
*
38346179 ATTAACAGTTAT
1 ATTAATAGTTAT
38346191 GTTGTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 19 0.45
35 4 0.10
36 2 0.05
37 5 0.12
38 12 0.29
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.48
Consensus pattern (38 bp):
ATTAATAGTTATAAAATATATTACTATGTTATATATAT
Found at i:38348325 original size:22 final size:21
Alignment explanation
Indices: 38348295--38348336 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
38348285 CTAAGGTCCC
38348295 TTCCCTTCTCATTTTCCTTTCT
1 TTCCCTTCTC-TTTTCCTTTCT
*
38348317 TTCCTTTCTCTTTTCCTTTC
1 TTCCCTTCTCTTTTCCTTTC
38348337 CAAAAACTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (21 bp):
TTCCCTTCTCTTTTCCTTTCT
Found at i:38354128 original size:12 final size:12
Alignment explanation
Indices: 38354111--38354152 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
38354101 GGGACATGCC
38354111 CGTGTTGGAGGT
1 CGTGTTGGAGGT
* **
38354123 CGTGTTCGAGCC
1 CGTGTTGGAGGT
38354135 CGTGTTGGAGGT
1 CGTGTTGGAGGT
38354147 CGTGTT
1 CGTGTT
38354153 CGACCCCGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.07, C:0.17, G:0.43, T:0.33
Consensus pattern (12 bp):
CGTGTTGGAGGT
Found at i:38354140 original size:24 final size:24
Alignment explanation
Indices: 38354108--38354163 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
38354098 CTTGGGACAT
38354108 GCCCGTGTTGGAGGTCGTGTTCGA
1 GCCCGTGTTGGAGGTCGTGTTCGA
38354132 GCCCGTGTTGGAGGTCGTGTTCGA
1 GCCCGTGTTGGAGGTCGTGTTCGA
*
38354156 CCCCGTGT
1 GCCCGTGT
38354164 AACTCTCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.25, G:0.39, T:0.29
Consensus pattern (24 bp):
GCCCGTGTTGGAGGTCGTGTTCGA
Found at i:38354435 original size:41 final size:43
Alignment explanation
Indices: 38354389--38354512 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 43
38354379 CATACGGCCT
* * * **
38354389 AACCACGTGCCCATGTTACCAGG-TTTATGTCATACATTG-TC
1 AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGTTC
* * *
38354430 AACCACAAGCCCATG-TACCAGGCTGTGTGTCACACACGGTTT
1 AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGTTC
** *
38354472 AACCACATGCCCATGTTACCAGGCCATGTGTCACACACGGT
1 AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGT
38354513 CTAGATACAT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 7 0.10
41 24 0.35
42 15 0.22
43 23 0.33
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGTTC
Found at i:38354485 original size:42 final size:43
Alignment explanation
Indices: 38354430--38354512 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
38354420 ATACATTGTC
**
38354430 AACCACAAGCCCATG-TACCAGGCTGTGTGTCACACACGGTTT
1 AACCACAAGCCCATGTTACCAGGCCATGTGTCACACACGGTTT
*
38354472 AACCACATGCCCATGTTACCAGGCCATGTGTCACACACGGT
1 AACCACAAGCCCATGTTACCAGGCCATGTGTCACACACGGT
38354513 CTAGATACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 14 0.38
43 23 0.62
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
AACCACAAGCCCATGTTACCAGGCCATGTGTCACACACGGTTT
Found at i:38355247 original size:19 final size:20
Alignment explanation
Indices: 38355215--38355252 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
38355205 TCATATCATC
38355215 TCAAGACTTCCATG-CCATG
1 TCAAGACTTCCATGTCCATG
* *
38355234 TCAAGAGTTTCATGTCCAT
1 TCAAGACTTCCATGTCCAT
38355253 TGAATCATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
TCAAGACTTCCATGTCCATG
Found at i:38356117 original size:20 final size:20
Alignment explanation
Indices: 38356076--38356120 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
38356066 AGCACATGTA
* *
38356076 TTCATAAATTTTCAGAATTT
1 TTCATAAATTTTCACAACTT
38356096 TTCATCAAATTTT-ACAACTT
1 TTCAT-AAATTTTCACAACTT
38356116 TTCAT
1 TTCAT
38356121 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAATTTTCACAACTT
Done.