Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 134 of 378
Found at i:38079608 original size:19 final size:20
Alignment explanation
Indices: 38079584--38079634 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
38079574 TAATAAAGTT
38079584 AAAATAATAAAAT-GAAA-A
1 AAAATAATAAAATGGAAAGA
*
38079602 CAAAAT-AGAAAATGGAAAGA
1 -AAAATAATAAAATGGAAAGA
*
38079622 AAAATATTAAAAT
1 AAAATAATAAAAT
38079635 TGTGGATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 6 0.23
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.18
Consensus pattern (20 bp):
AAAATAATAAAATGGAAAGA
Found at i:38082924 original size:17 final size:17
Alignment explanation
Indices: 38082894--38082927 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38082884 AAACCTGATG
38082894 GGGCCCACGAGCCCATT
1 GGGCCCACGAGCCCATT
38082911 GGGCCACACG-GCCCATT
1 GGGCC-CACGAGCCCATT
38082928 TCAGCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (17 bp):
GGGCCCACGAGCCCATT
Found at i:38084091 original size:13 final size:13
Alignment explanation
Indices: 38084073--38084097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38084063 CAAAGGAATA
38084073 AAAACGAGAGAAG
1 AAAACGAGAGAAG
38084086 AAAACGAGAGAA
1 AAAACGAGAGAA
38084098 CCCTTCTAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAACGAGAGAAG
Found at i:38086155 original size:37 final size:37
Alignment explanation
Indices: 38086064--38086176 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 37
38086054 GTGTGTACCG
* *
38086064 ATATATTTTCTTCGATTTATCCGATGATGAACTATGT
1 ATATATTTTCTTCGATTTATCCGTTGATGCACTATGT
* *
38086101 ATGCTAGTATAGTTTCTTCAATTTATACGTTGATGCACTATGT
1 A---TA-TAT--TTTCTTCGATTTATCCGTTGATGCACTATGT
*
38086144 ATATATTTTCTTCGATTTATCCATTGATGCACT
1 ATATATTTTCTTCGATTTATCCGTTGATGCACT
38086177 GTATGTGCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
37 25 0.40
39 3 0.05
40 4 0.06
41 3 0.05
43 28 0.44
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (37 bp):
ATATATTTTCTTCGATTTATCCGTTGATGCACTATGT
Found at i:38086180 original size:35 final size:36
Alignment explanation
Indices: 38086108--38086180 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
38086098 TGTATGCTAG
*
38086108 TATAGTTTCTTCAATTTATACGTTGATGCACTATGTA
1 TATAGTTTCTTCAATTTATACATTGATGCAC-ATGTA
* * *
38086145 TATATTTTCTTCGATTTATCCATTGATGCAC-TGTA
1 TATAGTTTCTTCAATTTATACATTGATGCACATGTA
38086180 T
1 T
38086181 GTGCCAGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 5 0.16
37 27 0.84
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (36 bp):
TATAGTTTCTTCAATTTATACATTGATGCACATGTA
Found at i:38087858 original size:27 final size:27
Alignment explanation
Indices: 38087828--38087968 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
38087818 ATGACGAAGT
* *
38087828 CACCAGATATAGATATTGTGCCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
38087855 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
38087882 CACCAGAT-TAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
38087909 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
38087936 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
38087963 CACCAG
1 CACCAG
38087969 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.09
27 85 0.87
28 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:38087969 original size:54 final size:54
Alignment explanation
Indices: 38087828--38087971 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
38087818 ATGACGAAGT
* * *
38087828 CACCAGATATAGAT-ATTGTGCCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-TAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
38087882 CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
38087936 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATTAGATAATTGTGGCATAGCCACCAGGAC
38087972 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:38089105 original size:37 final size:37
Alignment explanation
Indices: 38089040--38089191 Score: 207
Period size: 37 Copynumber: 4.1 Consensus size: 37
38089030 ACCTTTAGCT
* * *
38089040 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
38089077 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
38089114 CGGACAAAATCTCCACACGTAGTCATTGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * * *
38089151 CGGACATACTTTCCACACGTAGTCATCGAGT-TTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT-ACC
38089188 CGGA
1 CGGA
38089192 ATATATTTCC
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 2 0.02
37 101 0.98
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:38089406 original size:47 final size:47
Alignment explanation
Indices: 38089354--38089915 Score: 854
Period size: 47 Copynumber: 12.0 Consensus size: 47
38089344 TTTCACACTA
* * * * *
38089354 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
38089401 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
38089448 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
38089495 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
38089542 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
38089589 GCCATTCGGCCTTATCATATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
38089636 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * *
38089683 GCCATTCGGCCTTACCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
38089730 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
38089777 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
38089824 GCCGTTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
38089871 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
38089916 AAAATCCTAA
Statistics
Matches: 466, Mismatches: 49, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 466 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:38089466 original size:22 final size:22
Alignment explanation
Indices: 38089439--38089514 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
38089429 GCTCACATTC
38089439 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
38089461 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
38089485 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
38089508 ATCACAT
1 ATCACAT
38089515 ATATGCATGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:38089587 original size:25 final size:25
Alignment explanation
Indices: 38089461--38089587 Score: 76
Period size: 25 Copynumber: 5.3 Consensus size: 25
38089451 ATTCGGCCTT
*
38089461 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
38089486 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATATG-CATGTTC-ACATTC
*
38089508 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
38089533 ATCACAT-T-GGCCA--TTCGGC-CTC
1 ATCACATATATG-CATGTTC-ACATTC
38089555 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
38089580 ATCACATA
1 ATCACATA
38089588 GGCCATTCGG
Statistics
Matches: 73, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
22 20 0.27
23 12 0.16
24 12 0.16
25 29 0.40
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:38096558 original size:40 final size:39
Alignment explanation
Indices: 38096377--38096528 Score: 259
Period size: 39 Copynumber: 3.9 Consensus size: 39
38096367 AATGTTCGAG
38096377 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
38096416 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38096455 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38096494 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
38096529 GGTTACCATA
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
39 91 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:38104439 original size:38 final size:39
Alignment explanation
Indices: 38104343--38104493 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
38104333 ATGTTCGAAG
38104343 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
38104382 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38104421 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38104459 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
38104494 GGTTACCATA
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:38104439 original size:77 final size:79
Alignment explanation
Indices: 38104343--38104493 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
38104333 ATGTTCGAAG
38104343 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
38104407 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* * *
38104421 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
*
38104485 ATTTGTGCG
66 AATTGTGCG
38104494 GGTTACCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 46 0.68
78 22 0.32
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:38104509 original size:40 final size:39
Alignment explanation
Indices: 38104343--38104523 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
38104333 ATGTTCGAAG
*
38104343 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
38104382 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38104421 TGAT-ACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * * *
38104459 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
** *
38104499 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
38104524 TGTTTGAACG
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 35 0.28
39 52 0.41
40 40 0.31
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:38116744 original size:46 final size:46
Alignment explanation
Indices: 38116694--38116866 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
38116684 TGGTTGAGCA
*
38116694 TCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38116740 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38116785 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38116833 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38116867 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38116850 original size:93 final size:93
Alignment explanation
Indices: 38116691--38116861 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38116681 GGATGGTTGA
* * * *
38116691 GCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38116756 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
38116784 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
38116849 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
38116862 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38124596 original size:40 final size:40
Alignment explanation
Indices: 38124541--38124828 Score: 418
Period size: 40 Copynumber: 7.2 Consensus size: 40
38124531 TGAATGATAC
* *
38124541 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
38124581 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
38124621 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
38124661 CCGAGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
38124701 CCGAGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
38124741 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * * *
38124781 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
38124821 CC-GGCTAA
1 CCGGGCTAA
38124829 ATTCCGAAGA
Statistics
Matches: 228, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 7 0.03
40 219 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:38130958 original size:16 final size:16
Alignment explanation
Indices: 38130937--38130969 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38130927 TAAAGTCGAT
38130937 GATTTTGAAAATTGAG
1 GATTTTGAAAATTGAG
38130953 GATTTTGAAAATTGAG
1 GATTTTGAAAATTGAG
38130969 G
1 G
38130970 TATCAGGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (16 bp):
GATTTTGAAAATTGAG
Found at i:38131373 original size:38 final size:38
Alignment explanation
Indices: 38131322--38131400 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
38131312 AAAGAAAGAT
38131322 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
1 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
38131360 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
1 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
38131398 ATT
1 ATT
38131401 TTTTTCATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (38 bp):
ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
Found at i:38134786 original size:41 final size:41
Alignment explanation
Indices: 38134733--38134882 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
38134723 CGCTAACTCA
* * *
38134733 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
38134774 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
38134814 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
38134855 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
38134883 TAAACCCCGA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:38139462 original size:9 final size:9
Alignment explanation
Indices: 38139448--38139475 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
38139438 AACCAGTTTC
38139448 TTATATTTT
1 TTATATTTT
38139457 TTATATTTT
1 TTATATTTT
38139466 TTATATTTT
1 TTATATTTT
38139475 T
1 T
38139476 AAGATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATATTTT
Found at i:38143835 original size:23 final size:24
Alignment explanation
Indices: 38143794--38143850 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
38143784 GAGCTGATGG
** *
38143794 ACAGTAAGCTCTATTGAGCT-GAA
1 ACAGTAAGCTCTAACGAGCTAAAA
*
38143817 ACGGTAAGCTCTAACGAGCTAAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
38143841 ACAGTAAGCT
1 ACAGTAAGCT
38143851 TTTATGAGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTAAAA
Found at i:38158254 original size:49 final size:48
Alignment explanation
Indices: 38158190--38158536 Score: 549
Period size: 49 Copynumber: 7.2 Consensus size: 48
38158180 ATGATAGTAT
38158190 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
38158238 CATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
38158287 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
38158336 CATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
38158385 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
38158433 ATGTGATACGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
38158480 ATGTGAT-AGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 ATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATA
38158527 ATGTGATAAG
1 ATGTGATAAG
38158537 TCCCGAAAGG
Statistics
Matches: 281, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
46 3 0.01
47 87 0.31
48 2 0.01
49 189 0.67
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:38160805 original size:8 final size:8
Alignment explanation
Indices: 38160792--38160828 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
38160782 TTTAATGAGA
38160792 TATTTTAT
1 TATTTTAT
38160800 TATTTTAT
1 TATTTTAT
38160808 TATTTTAT
1 TATTTTAT
38160816 TATTTTAT
1 TATTTTAT
38160824 TATTT
1 TATTT
38160829 ATTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:38162995 original size:46 final size:46
Alignment explanation
Indices: 38162928--38163194 Score: 328
Period size: 46 Copynumber: 5.8 Consensus size: 46
38162918 AAATGAAATG
*
38162928 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGGAATA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGGAATA
* * * *
38162974 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGGAATA
*
38163020 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT-GAA-A
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGGAATA
**
38163064 TGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGGAA-A
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGGAATA
*
38163111 TGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAGTGA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGGAA-T-A
* * * *
38163160 -GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATG
38163195 TCAAAGATAA
Statistics
Matches: 199, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 149 0.75
47 44 0.22
48 1 0.01
49 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGGAATA
Found at i:38163077 original size:92 final size:91
Alignment explanation
Indices: 38162915--38163189 Score: 374
Period size: 92 Copynumber: 3.0 Consensus size: 91
38162905 AGTGTGCTTT
*
38162915 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGGAATATG-TAA
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT-GAA-ATGATAA
38162979 GACCATGGTTGAAAGATACCATGGCAAC
64 GACCATGGTTGAAAGATACCATGGCAAC
* *
38163007 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATG-ATAAG
38163072 ACCATGGTTGAAAGATACCATGGCAAC
65 ACCATGGTTGAAAGATACCATGGCAAC
* *** **
38163099 ATGACGGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAGTGAGTA
1 CTGA-AATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA-TGA-TA
* * *
38163163 AGACCATAGTTGAAAGACACTATGGCA
63 AGACCATGGTTGAAAGATACCATGGCA
38163190 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
90 3 0.02
91 3 0.02
92 89 0.54
93 70 0.42
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (91 bp):
CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGATAAGA
CCATGGTTGAAAGATACCATGGCAAC
Found at i:38164493 original size:37 final size:38
Alignment explanation
Indices: 38164391--38164493 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 38
38164381 AATTCAAAGT
38164391 AGTAAATTGACACCCAGTGTCTCATCGAATAAATCTGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAATCTGA
*
38164429 AGTAGCAAATTGACACCCAGTGTCTCATC-AGTTAAA-CTGA
1 AGT---AAATTGACACCCAGTGTCTCATCGA-ATAAATCTGA
* * *
38164469 AGTAAATTGGCACCAAGTGCCTCAT
1 AGTAAATTGACACCCAGTGTCTCAT
38164494 TGACTCGAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
37 19 0.33
38 3 0.05
40 8 0.14
41 27 0.47
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (38 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAATCTGA
Found at i:38165394 original size:12 final size:13
Alignment explanation
Indices: 38165371--38165409 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
38165361 GCTGTGGCTT
38165371 TCTTTCTTCTTTC
1 TCTTTCTTCTTTC
*
38165384 TCTTT-TTCTTTT
1 TCTTTCTTCTTTC
38165396 TCTTTCTTTCTTTC
1 TCTTTC-TTCTTTC
38165410 CTGTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTCTTCTTTC
Found at i:38165421 original size:26 final size:26
Alignment explanation
Indices: 38165369--38165434 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
38165359 AGGCTGTGGC
*
38165369 TTTCTTTC-TTCTTTCTCTTTTTCTT
1 TTTCTTTCTTTCTTTCTCTTTTACTT
*
38165394 TTTCTTTCTTTCTTTC-CTGTTTAGTT
1 TTTCTTTCTTTCTTTCTCT-TTTACTT
*
38165420 TTTCTTTGTTTCTTT
1 TTTCTTTCTTTCTTT
38165435 TTTTTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.74
Consensus pattern (26 bp):
TTTCTTTCTTTCTTTCTCTTTTACTT
Found at i:38166320 original size:4 final size:4
Alignment explanation
Indices: 38166297--38166337 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
38166287 TTAATAGTTG
38166297 ATTT A-TT ATTCT ATTTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATT-T A-TTT ATTT ATTT ATTT ATTT ATTT ATTT
38166338 TTACTAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 25 0.74
5 4 0.12
6 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:38167158 original size:15 final size:17
Alignment explanation
Indices: 38167140--38167181 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
38167130 TAATCACTTT
38167140 AATATTAAATT-AA-TA
1 AATATTAAATTAAATTA
* *
38167155 AATATTATATTAAATTT
1 AATATTAAATTAAATTA
38167172 AATATTAAAT
1 AATATTAAAT
38167182 CTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:38167321 original size:17 final size:18
Alignment explanation
Indices: 38167282--38167322 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
38167272 TACTATTAAG
38167282 AAAAGTATTAAATTAGATT
1 AAAA-TATTAAATTAGATT
*
38167301 -AAATATTAAATT-TATT
1 AAAATATTAAATTAGATT
38167317 AAAATA
1 AAAATA
38167323 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 14 0.70
18 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
AAAATATTAAATTAGATT
Found at i:38195707 original size:50 final size:50
Alignment explanation
Indices: 38195568--38195756 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 50
38195558 GTTGTGAGAA
** *
38195568 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTG--TACCATGGTGTTAGGT
* * * * *
38195620 CACGTGTGTAGTACTAAGCGCAGACTACTACGTGTACCA-GGTGGTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCATGGT-GTTAGGT
* * * ***
38195670 CGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-TGATAGCTTCTAT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCATGGT-G-TTAGGT
* * *
38195721 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTA
38195757 AAAGATAACT
Statistics
Matches: 109, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
49 3 0.03
50 43 0.39
51 34 0.31
52 29 0.27
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCATGGTGTTAGGT
Found at i:38195735 original size:51 final size:51
Alignment explanation
Indices: 38195672--38195851 Score: 159
Period size: 51 Copynumber: 3.5 Consensus size: 51
38195662 GGTTAGGTCG
* * *** *
38195672 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGATAGCTTCT-ATCA
1 CATGTGTGGTACTATGTGCAGGCCACTATGCGTAAAAGATAACTT-TGATCA
* * *
38195723 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAACTTTGGTCA
1 CATGTGTGGTACTATGTGCAGGCCACTATGCGTAAAAGATAACTTTGATCA
* * * * * *
38195774 CAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA-CTA
1 CATGTGTGGTACTATGTGCAGGCCACTATGCGTAA-AAGATAACTTTGATC-A
* *
38195825 CAAGGGTGGTACTATGTGCAGGCCACT
1 CATGTGTGGTACTATGTGCAGGCCACT
38195852 GGGCATCTGT
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
50 4 0.04
51 104 0.96
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (51 bp):
CATGTGTGGTACTATGTGCAGGCCACTATGCGTAAAAGATAACTTTGATCA
Found at i:38198930 original size:34 final size:34
Alignment explanation
Indices: 38198864--38198938 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
38198854 CTGTACTGAA
* **
38198864 ATGGGCTAAGGCCCACACTGATACTATTACTGTT
1 ATGGGCTAAGGCCCACACTAATACTACGACTGTT
* *
38198898 TTGGGCTAAGGCCCACACTAATACTGCGACTGTT
1 ATGGGCTAAGGCCCACACTAATACTACGACTGTT
38198932 ATGGGCT
1 ATGGGCT
38198939 TAAGCCTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (34 bp):
ATGGGCTAAGGCCCACACTAATACTACGACTGTT
Found at i:38200226 original size:19 final size:18
Alignment explanation
Indices: 38200202--38200283 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 18
38200192 TTTTTCTTAG
*
38200202 TTTTATTTTAATTTTTCAT
1 TTTTATTTTAATCTTT-AT
* *
38200221 TTTTATCTCT-GTCTTTAAT
1 TTTTAT-TTTAATCTTT-AT
*
38200240 TTTAATTTTAATCTTTAT
1 TTTTATTTTAATCTTTAT
* *
38200258 TTTTAATTTTAAT-GTTAG
1 TTTT-ATTTTAATCTTTAT
38200276 TTTTATTT
1 TTTTATTT
38200284 ATTTTAATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
17 4 0.08
18 14 0.28
19 30 0.60
20 2 0.04
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTATTTTAATCTTTAT
Found at i:38200245 original size:6 final size:6
Alignment explanation
Indices: 38200234--38200291 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
38200224 TATCTCTGTC
* * *
38200234 TTTAAT TTTAAT TTTAAT CTTTATT TTTAAT TTTAAT GTTAGT TTT-A-
1 TTTAAT TTTAAT TTTAAT -TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
38200281 TTT-AT TTTAAT
1 TTTAAT TTTAAT
38200292 AAAGCCGGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 4 0.09
5 3 0.07
6 31 0.72
7 5 0.12
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:38200248 original size:25 final size:25
Alignment explanation
Indices: 38200208--38200270 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
38200198 TTAGTTTTAT
* * *
38200208 TTTAATTTTTCATTTTTATCTCTGTC
1 TTTAA-TTTTAATTTTAATCTCTATC
* *
38200234 TTTAATTTTAATTTTAATCTTTATT
1 TTTAATTTTAATTTTAATCTCTATC
38200259 TTTAATTTTAAT
1 TTTAATTTTAAT
38200271 GTTAGTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTAATTTTAATTTTAATCTCTATC
Found at i:38202264 original size:25 final size:25
Alignment explanation
Indices: 38202211--38202258 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
38202201 ATTTCTTATC
* *
38202211 TTTAGTTTTTATTTCTTTTTAGGTG
1 TTTAGTTTTTATTTCTTGTTAGATG
38202236 TTTA-TTTTTATTTCCTTGTTAGA
1 TTTAGTTTTTATTT-CTTGTTAGA
38202259 ATTTTAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (25 bp):
TTTAGTTTTTATTTCTTGTTAGATG
Found at i:38207777 original size:40 final size:39
Alignment explanation
Indices: 38207668--38208047 Score: 530
Period size: 40 Copynumber: 9.6 Consensus size: 39
38207658 TATTCGGATG
*
38207668 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACT
*
38207708 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
*
38207747 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACT
38207787 ATATA-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATA-ACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
** **
38207827 ATAACCGGAATAAGATCTAAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACT
*
38207867 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
*
38207907 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACT
*
38207947 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
* * *
38207986 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACT
* *
38208026 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGT-CCGAAGG
38208048 TACTTGGGTT
Statistics
Matches: 311, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
39 95 0.31
40 213 0.68
41 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACT
Found at i:38207856 original size:80 final size:80
Alignment explanation
Indices: 38207668--38208047 Score: 642
Period size: 80 Copynumber: 4.8 Consensus size: 80
38207658 TATTCGGATG
38207668 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
38207732 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
*
38207747 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATACGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
38207812 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
* **
38207827 ATAACCGGAATAAGATCTAAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
38207892 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
38207907 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
38207971 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
* * * * *
38207986 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGG
38208048 TACTTGGGTT
Statistics
Matches: 285, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
78 8 0.03
79 125 0.44
80 152 0.53
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTTACT
Found at i:38214728 original size:80 final size:80
Alignment explanation
Indices: 38214644--38214792 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38214634 TATGGTAACC
* * * *
38214644 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38214708 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38214724 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38214789 CCGG
66 CCGG
38214793 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38214734 original size:40 final size:38
Alignment explanation
Indices: 38214685--38214792 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38214675 ATCACGATTT
*
38214685 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38214725 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38214765 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38214793 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38222660 original size:80 final size:80
Alignment explanation
Indices: 38222576--38222724 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38222566 TATGGTAACC
* * * *
38222576 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38222640 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38222656 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38222721 CCGG
66 CCGG
38222725 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38222666 original size:40 final size:38
Alignment explanation
Indices: 38222617--38222724 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38222607 ATCACGATTT
*
38222617 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38222657 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38222697 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38222725 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38227623 original size:40 final size:40
Alignment explanation
Indices: 38227564--38227732 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
38227554 CGGGACTTTA
* * *
38227564 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
38227604 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
38227644 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
38227684 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
38227724 CCCGGATAT
1 CCCGGATAT
38227733 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:38229433 original size:29 final size:29
Alignment explanation
Indices: 38229401--38229495 Score: 154
Period size: 29 Copynumber: 3.3 Consensus size: 29
38229391 GGCTGTCACA
* * *
38229401 TAGTGTCATATTTTTCCAGCATGCACACT
1 TAGTGCCATATATTTCCAGCACGCACACT
*
38229430 TAGTGCCTTATATTTCCAGCACGCACACT
1 TAGTGCCATATATTTCCAGCACGCACACT
38229459 TAGTGCCATATATTTCCAGCACGCACACT
1 TAGTGCCATATATTTCCAGCACGCACACT
38229488 TAGTGCCA
1 TAGTGCCA
38229496 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
TAGTGCCATATATTTCCAGCACGCACACT
Found at i:38237198 original size:29 final size:29
Alignment explanation
Indices: 38237166--38237301 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
38237156 ATACCCTTCG
** * *
38237166 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
38237195 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
38237224 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
38237253 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
38237282 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
38237302 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:38237293 original size:58 final size:58
Alignment explanation
Indices: 38237141--38237300 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
38237131 AATTTAAGCC
* *** * * ** * *
38237141 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
38237199 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
38237257 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
38237301 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:38240771 original size:34 final size:34
Alignment explanation
Indices: 38240700--38240779 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
38240690 TTGCTTGCAT
* *
38240700 ACTG-TACTAAAATGGGTTAAGGCCCAGATTGTC
1 ACTGTTACTGAAATGGGCTAAGGCCCAGATTGTC
*
38240733 ACTGTTATTGAAATGGGCTAAGGCCCAG-TCTG-C
1 ACTGTTACTGAAATGGGCTAAGGCCCAGAT-TGTC
38240766 TACTGTTACTGAAA
1 -ACTGTTACTGAAA
38240780 AAGGAGCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 6 0.15
34 34 0.85
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGTTACTGAAATGGGCTAAGGCCCAGATTGTC
Found at i:38247435 original size:40 final size:40
Alignment explanation
Indices: 38247390--38247557 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
38247380 CGGAATATAA
*
38247390 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * * *
38247430 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** *
38247470 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * * *
38247510 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
38247550 CCGGATAT
1 CCGGATAT
38247558 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:38251803 original size:34 final size:34
Alignment explanation
Indices: 38251726--38251822 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 34
38251716 GACTCTTTGC
38251726 TTGCATACTG-TACTGAAATGGGCTAAGGCCCAGA
1 TTGC-TACTGTTACTGAAATGGGCTAAGGCCCAGA
* * * * *
38251760 CTG-TCACTGTTATTGAAATGGGTTGAGGCCCAGT
1 TTGCT-ACTGTTACTGAAATGGGCTAAGGCCCAGA
38251794 TTGCTACTGTTACTGAAAAATGGGCTAAG
1 TTGCTACTGTTACTG--AAATGGGCTAAG
38251823 ACTCCAACTG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
32 1 0.02
33 4 0.08
34 33 0.67
35 1 0.02
36 10 0.20
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (34 bp):
TTGCTACTGTTACTGAAATGGGCTAAGGCCCAGA
Found at i:38260296 original size:20 final size:20
Alignment explanation
Indices: 38260273--38260315 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
38260263 TAACACGGGC
* *
38260273 GTGTACCTGTATACACAGGT
1 GTGTACCGGTATACACAAGT
38260293 GTGTACCGGTATACACAAGT
1 GTGTACCGGTATACACAAGT
38260313 GTG
1 GTG
38260316 GGAAAAGCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
GTGTACCGGTATACACAAGT
Found at i:38262471 original size:13 final size:13
Alignment explanation
Indices: 38262453--38262479 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38262443 GGAGTAATCG
38262453 CACACGGGCGTGT
1 CACACGGGCGTGT
38262466 CACACGGGCGTGT
1 CACACGGGCGTGT
38262479 C
1 C
38262480 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:38273877 original size:15 final size:15
Alignment explanation
Indices: 38273857--38273890 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38273847 AGTGAATGAG
*
38273857 GAGAAAATAAAAAGA
1 GAGAAAAGAAAAAGA
*
38273872 GAGAAAAGAAAAAGG
1 GAGAAAAGAAAAAGA
38273887 GAGA
1 GAGA
38273891 TTAGAGAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAGAAAAGAAAAAGA
Found at i:38281782 original size:13 final size:13
Alignment explanation
Indices: 38281764--38281800 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
38281754 CTCAGCAGGG
38281764 ACATGCCCGTGGC
1 ACATGCCCGTGGC
38281777 ACATGCCCGTGGC
1 ACATGCCCGTGGC
*
38281790 ACACGCCCGTG
1 ACATGCCCGTG
38281801 TTCGATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.41, G:0.30, T:0.14
Consensus pattern (13 bp):
ACATGCCCGTGGC
Found at i:38285028 original size:20 final size:23
Alignment explanation
Indices: 38285003--38285052 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
38284993 AAAATAAAGG
*
38285003 TAAAATATG-GTTTT-A-GGTTA
1 TAAAATAAGTGTTTTAATGGTTA
38285023 TAAAATAAGTGTTTTAATGGTTA
1 TAAAATAAGTGTTTTAATGGTTA
*
38285046 AAAAATA
1 TAAAATA
38285053 GGTAAAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 5 0.20
22 1 0.04
23 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (23 bp):
TAAAATAAGTGTTTTAATGGTTA
Found at i:38286800 original size:28 final size:29
Alignment explanation
Indices: 38286749--38286804 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
38286739 ACAAGGGTTT
* *
38286749 TCACATGGCCAGGCACACGCCCGTGTCCC
1 TCACACGGCCACGCACACGCCCGTGTCCC
38286778 TCACACGGCCACG-ACACGCCCGTGTCC
1 TCACACGGCCACGCACACGCCCGTGTCC
38286805 TAGCCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.12
Consensus pattern (29 bp):
TCACACGGCCACGCACACGCCCGTGTCCC
Found at i:38287835 original size:46 final size:45
Alignment explanation
Indices: 38287753--38288111 Score: 316
Period size: 46 Copynumber: 7.7 Consensus size: 45
38287743 TGGGTAAAGT
*
38287753 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTAGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTAGTA
* * * *
38287801 GTCGACGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTAGTA
* *
38287846 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTCT-AGTA
* * *
38287893 GCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTATCATCTAGTA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTAGTA
* * * *
38287941 GTCGACGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTAGTA
* *
38287986 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTCT-AGTA
* * *
38288033 GCCAATGCAATGTCCTAGACATGGTCTTACACTGGC-TC-TCATAATGTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTTCGTC-T-A-GTA
* *
38288081 GCTGATGCATGTCCCAGACATATCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
38288112 AGCTCACAAA
Statistics
Matches: 254, Mismatches: 39, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
45 6 0.02
46 137 0.54
47 65 0.26
48 46 0.18
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTAGTA
Found at i:38288060 original size:94 final size:92
Alignment explanation
Indices: 38287752--38288116 Score: 344
Period size: 94 Copynumber: 3.9 Consensus size: 92
38287742 ATGGGTAAAG
* * * *
38287752 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTAGTA-GTCGACGCATGTCCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGCCGATGCATGTCCC
* * *
38287816 AAACATGTCTTACACTGGCT-TACGTCTCGA
63 AGACATGTCTTACACTAGCTCT-CGTCTCAA
* * * * * * *
38287846 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCAATGTCCTAG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGC-ATGTCCCAG
* * * *
38287911 ACATGGTCTTACACTGGCTATCATCT-AG
65 ACAT-GTCTTACACTAGCTCTCGTCTCAA
* * * *
38287939 TAGTCGACGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCGAGGCCGATGCATGTCCCA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATGCATGTCCCA
38288003 GACATGTCTTACACTAGCTCTCGTCTCAA
64 GACATGTCTTACACTAGCTCTCGTCTCAA
* * * * *
38288032 TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCC
1 TGCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATGCATGTCCC
*
38288096 AGACATATCTTACACTAGCTC
63 AGACATGTCTTACACTAGCTC
38288117 ACAAACAAAT
Statistics
Matches: 223, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
91 1 0.00
92 46 0.21
93 51 0.23
94 122 0.55
95 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCGTCTCAA
Found at i:38288111 original size:140 final size:140
Alignment explanation
Indices: 38287752--38288074 Score: 610
Period size: 140 Copynumber: 2.3 Consensus size: 140
38287742 ATGGGTAAAG
* * *
38287752 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTAGTAGTCGACGCATGTCCCA
1 TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTATCATCTAGTAGTCGACGCATGTCCCA
38287817 AACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
66 AACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
38287882 CTCGTCTCAA
131 CTCGTCTCAA
38287892 TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTATCATCTAGTAGTCGACGCATGTCCCA
1 TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTATCATCTAGTAGTCGACGCATGTCCCA
38287957 AACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
66 AACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
38288022 CTCGTCTCAA
131 CTCGTCTCAA
*
38288032 TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTCTCAT
1 TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTATCAT
38288075 AATGTGGCTG
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 179 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (140 bp):
TGCCAATGCAATGTCCTAGACATGGTCTTACACTGGCTATCATCTAGTAGTCGACGCATGTCCCA
AACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
CTCGTCTCAA
Found at i:38290284 original size:6 final size:6
Alignment explanation
Indices: 38290273--38290344 Score: 63
Period size: 6 Copynumber: 11.0 Consensus size: 6
38290263 AATTAATGAT
* * *
38290273 ATATAA ATATAA TTTATATA ATATGA ATATAA ATATAA ATATAA TTTATAA
1 ATATAA ATATAA -ATATA-A ATATAA ATATAA ATATAA ATATAA -ATATAA
38290324 ATATAA TTTATATAA ATATAA
1 ATATAA ---ATATAA ATATAA
38290345 TTAATGATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
6 35 0.65
7 12 0.22
8 1 0.02
9 6 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (6 bp):
ATATAA
Found at i:38290292 original size:15 final size:15
Alignment explanation
Indices: 38290272--38290385 Score: 119
Period size: 15 Copynumber: 7.5 Consensus size: 15
38290262 TAATTAATGA
38290272 TATATAAATATAATT
1 TATATAAATATAATT
38290287 TATAT-AATATGAATAT
1 TATATAAATAT-AAT-T
*
38290303 AAATATAAATATAA-T
1 -TATATAAATATAATT
38290318 T-TATAAATATAATT
1 TATATAAATATAATT
38290332 TATATAAATATAATT
1 TATATAAATATAATT
* *
38290347 AATGATATATATAATT
1 TAT-ATAAATATAATT
38290363 TATAT-AATATGAATT
1 TATATAAATAT-AATT
38290378 TATGATAA
1 TAT-ATAA
38290386 TTAAATTATA
Statistics
Matches: 83, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
13 11 0.13
14 11 0.13
15 33 0.40
16 16 0.19
17 7 0.08
18 5 0.06
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
TATATAAATATAATT
Found at i:38290303 original size:40 final size:40
Alignment explanation
Indices: 38290259--38290376 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 40
38290249 GTTTTAAATT
38290259 ATATAATTAATGATATATAAATATAATTTATATAATATGA
1 ATATAATTAATGATATATAAATATAATTTATATAATATGA
38290299 ATATAAATATAAAT-ATAATTTATAAATATAA-TT-TAT-ATA--A
1 ATAT-AAT-T-AATGAT-A--TATAAATATAATTTATATAATATGA
38290339 ATATAATTAATG--ATAT--ATATAATTTATATAATATGA
1 ATATAATTAATGATATATAAATATAATTTATATAATATGA
38290375 AT
1 AT
38290377 TTATGATAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
31 6 0.09
32 2 0.03
33 6 0.09
34 3 0.05
35 1 0.02
36 3 0.05
37 3 0.05
38 1 0.02
39 3 0.05
40 9 0.14
41 3 0.05
42 6 0.09
43 7 0.11
44 2 0.03
45 11 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (40 bp):
ATATAATTAATGATATATAAATATAATTTATATAATATGA
Found at i:38290355 original size:46 final size:45
Alignment explanation
Indices: 38290274--38290423 Score: 163
Period size: 45 Copynumber: 3.4 Consensus size: 45
38290264 ATTAATGATA
*
38290274 TATAAATATAATTTATAT-AATATGAATATAAAT-ATAAATATAATT
1 TATAAATATAATTTATATAAATAT-AATAT-AATGATATATATAATT
38290319 TATAAATATAATTTATATAAATATAAT-TAATGATATATATAATT
1 TATAAATATAATTTATATAAATATAATATAATGATATATATAATT
*
38290363 TATATAATATGAATTTATGATAATTA-AATTATAATGATAT-TAT-A-T
1 TATA-AATAT-AATTTAT-ATAAATATAA-TATAATGATATATATAATT
38290408 TATTAAATA-AATTTAT
1 TA-TAAATATAATTTAT
38290424 TCCAATTGTG
Statistics
Matches: 95, Mismatches: 2, Indels: 18
0.83 0.02 0.16
Matches are distributed among these distances:
43 10 0.11
44 16 0.17
45 33 0.35
46 17 0.18
47 10 0.11
48 9 0.09
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.45
Consensus pattern (45 bp):
TATAAATATAATTTATATAAATATAATATAATGATATATATAATT
Found at i:38290362 original size:31 final size:30
Alignment explanation
Indices: 38290272--38290385 Score: 112
Period size: 31 Copynumber: 3.7 Consensus size: 30
38290262 TAATTAATGA
38290272 TATATAAATATAATT-T-ATATAATATGAATAT
1 TATATAAATATAATTATGATA-AATAT-AAT-T
*
38290303 AAATATAAATATAATT-T-ATAAATATAATT
1 -TATATAAATATAATTATGATAAATATAATT
*
38290332 TATATAAATATAATTAATGATATATATAATT
1 TATATAAATATAATT-ATGATAAATATAATT
38290363 TATAT-AATATGAATTTATGATAA
1 TATATAAATAT-AA-TTATGATAA
38290386 TTAAATTATA
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
28 14 0.19
29 1 0.01
30 9 0.12
31 29 0.40
32 20 0.27
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (30 bp):
TATATAAATATAATTATGATAAATATAATT
Found at i:38297116 original size:51 final size:51
Alignment explanation
Indices: 38297052--38297187 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
38297042 TGGAAGCATG
* *
38297052 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATATTAGAGATCTTAGATAAGATATGGA
* * * * * * ** *
38297103 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATATTAGAGATCTTAGATAAGATATGGA
* * *
38297154 ATCTTAGAAGATATGATATTATATTTTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATATTAGAGAT
38297188 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATATTAGAGATCTTAGATAAGATATGGA
Found at i:38299938 original size:51 final size:51
Alignment explanation
Indices: 38299874--38300009 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
38299864 TGGAAACATG
*
38299874 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
38299925 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
38299976 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
38300010 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:38307586 original size:16 final size:18
Alignment explanation
Indices: 38307565--38307606 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
38307555 AAAGCCGAAT
38307565 TCTTTCTTCTTT-TC-TC
1 TCTTTCTTCTTTCTCATC
38307581 TCTTTCTT-TTTCTCATC
1 TCTTTCTTCTTTCTCATC
*
38307598 TCTTCCTTC
1 TCTTTCTTC
38307607 CTTGATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 9 0.41
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (18 bp):
TCTTTCTTCTTTCTCATC
Found at i:38308978 original size:60 final size:60
Alignment explanation
Indices: 38308914--38309085 Score: 256
Period size: 60 Copynumber: 2.9 Consensus size: 60
38308904 ACTTGTAATA
* *
38308914 GGGCTACGGCCCAAATTGATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAG
1 GGGCTATGGCCCAAATTAATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAG
* * *
38308974 GGGCTATGGCCCAGATTAATACTGATATAGGCTAGGCCTAGTATACTCTGAAACTGTAAG
1 GGGCTATGGCCCAAATTAATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAG
* *
38309034 GGGCTATGGCCCAAATTAATATTGATATGGGCTAAGGTCCAGT-TAACTCTGA
1 GGGCTATGGCCCAAATTAATACTGATATGGGCT-AGGCCCAGTAT-ACTCTGA
38309086 TTTCTAAATA
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
60 86 0.86
61 14 0.14
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (60 bp):
GGGCTATGGCCCAAATTAATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAG
Found at i:38308986 original size:33 final size:32
Alignment explanation
Indices: 38308942--38309046 Score: 100
Period size: 32 Copynumber: 3.4 Consensus size: 32
38308932 ATACTGATAT
38308942 GGGCTAGGCCCAGTATACTCTGAAACTGTAAG
1 GGGCTAGGCCCAGTATACTCTGAAACTGTAAG
38308974 GGGCTATGGCCCAG---A-T-T-AATACTGATATA-
1 GGGCTA-GGCCCAGTATACTCTGAA-ACTG-TA-AG
*
38309003 -GGCTAGGCCTAGTATACTCTGAAACTGTAAG
1 GGGCTAGGCCCAGTATACTCTGAAACTGTAAG
38309034 GGGCTATGGCCCA
1 GGGCTA-GGCCCA
38309047 AATTAATATT
Statistics
Matches: 58, Mismatches: 2, Indels: 25
0.68 0.02 0.29
Matches are distributed among these distances:
27 8 0.14
28 10 0.17
29 3 0.05
30 4 0.07
31 3 0.05
32 16 0.28
33 14 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (32 bp):
GGGCTAGGCCCAGTATACTCTGAAACTGTAAG
Found at i:38313633 original size:19 final size:19
Alignment explanation
Indices: 38313601--38313649 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
38313591 TTTATCTTTG
*
38313601 TCTTTAATTT-TAATTTTAA
1 TCTTT-ATTTATAATGTTAA
*
38313620 TCTTTATTTATAATGTTAG
1 TCTTTATTTATAATGTTAA
38313639 T-TTTATTTATA
1 TCTTTATTTATA
38313650 TAAAGGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
TCTTTATTTATAATGTTAA
Found at i:38313633 original size:25 final size:25
Alignment explanation
Indices: 38313588--38313643 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
38313578 TTTATTTCTC
* * *
38313588 ATTTTTATCTTTGTCTTTAATTTTA
1 ATTTTAATCTTTATCTTTAATGTTA
38313613 ATTTTAATCTTTAT-TTATAATGTTA
1 ATTTTAATCTTTATCTT-TAATGTTA
*
38313638 GTTTTA
1 ATTTTA
38313644 TTTATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (25 bp):
ATTTTAATCTTTATCTTTAATGTTA
Found at i:38315681 original size:2 final size:2
Alignment explanation
Indices: 38315674--38315702 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38315664 TCATATTAAA
38315674 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
38315703 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38320497 original size:30 final size:30
Alignment explanation
Indices: 38320461--38320524 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
38320451 ACTCGGTTCA
*
38320461 TTAAGTCCATGAAGGAAATCAGAGCATTGG
1 TTAAGTCCATGAAGGAAATCAGAACATTGG
* * *
38320491 TTAAGTCCATGAAGGTAGTTAGAACATTGG
1 TTAAGTCCATGAAGGAAATCAGAACATTGG
38320521 TTAA
1 TTAA
38320525 ACTGAAAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (30 bp):
TTAAGTCCATGAAGGAAATCAGAACATTGG
Found at i:38325250 original size:62 final size:62
Alignment explanation
Indices: 38325149--38325269 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 62
38325139 AACAGGTCTA
* * *
38325149 ATTCTTTCAGTAATCTCAGACGACCCGGTAAATCGTGGACCT-AGCTTTCCTTTACGACTCTG
1 ATTCTTTCAGTAATATCAGACGACCCGATAAATCATGGA-CTAAGCTTTCCTTTACGACTCTG
* * *
38325211 ATTCTTTTAGTAATATCATACGACCCGATAAATCATGGACTAAGCTTTCCTTTGCGACT
1 ATTCTTTCAGTAATATCAGACGACCCGATAAATCATGGACTAAGCTTTCCTTTACGACT
38325270 GAATCGAAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 2 0.04
62 50 0.96
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (62 bp):
ATTCTTTCAGTAATATCAGACGACCCGATAAATCATGGACTAAGCTTTCCTTTACGACTCTG
Found at i:38332115 original size:48 final size:48
Alignment explanation
Indices: 38332063--38332158 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
38332053 ACAAATTTAA
*
38332063 TAATCATAAGCTTATGTACATACCTGTACCATCTCGTAATAATTTCAT
1 TAATCATAAGCTTATGTACATACCTGTACCATCTCATAATAATTTCAT
38332111 TAATCATAAGCTTATGTACATACCTGTACCATCTCATAATAATTTCAT
1 TAATCATAAGCTTATGTACATACCTGTACCATCTCATAATAATTTCAT
38332159 ACTTATTCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (48 bp):
TAATCATAAGCTTATGTACATACCTGTACCATCTCATAATAATTTCAT
Found at i:38338017 original size:71 final size:71
Alignment explanation
Indices: 38337933--38338096 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38337923 CGATTTGTCT
38337933 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38337998 CTTTCA
66 CTTTCA
38338004 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38338069 CTTTCA
66 CTTTCA
38338075 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38338097 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38338134 original size:71 final size:70
Alignment explanation
Indices: 38337933--38338130 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38337923 CGATTTGTCT
* * * *
38337933 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38337998 CTTTCA
65 CTTTCA
* * * *
38338004 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38338069 CTTTCA
65 CTTTCA
* *
38338075 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38338131 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38345587 original size:71 final size:71
Alignment explanation
Indices: 38345503--38345666 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38345493 CGATTTGTCT
38345503 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38345568 CTTTCA
66 CTTTCA
38345574 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38345639 CTTTCA
66 CTTTCA
38345645 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38345667 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38345704 original size:71 final size:70
Alignment explanation
Indices: 38345503--38345700 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38345493 CGATTTGTCT
* * * *
38345503 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38345568 CTTTCA
65 CTTTCA
* * * *
38345574 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38345639 CTTTCA
65 CTTTCA
* *
38345645 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38345701 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38351975 original size:43 final size:43
Alignment explanation
Indices: 38351928--38352013 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
38351918 AATGTTAGCC
38351928 AATCCATACCCAGGATTATGTCAAACTCATCAAATGGTAACAA
1 AATCCATACCCAGGATTATGTCAAACTCATCAAATGGTAACAA
38351971 AATCCATACCCAGGATTATGTCAAACTCATCAAATGGTAACAA
1 AATCCATACCCAGGATTATGTCAAACTCATCAAATGGTAACAA
38352014 CATCAAATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (43 bp):
AATCCATACCCAGGATTATGTCAAACTCATCAAATGGTAACAA
Found at i:38353582 original size:42 final size:43
Alignment explanation
Indices: 38353486--38353638 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
38353476 CATCCCAGAC
* * * *
38353486 GTGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACA
1 GTGGTCTTACACGAAATCACATATCGATGCCAAC-GTCCTAGA-A
* *
38353530 G-GGTCATACACGAAATCACATAT-GATGCCAACGTCCTAGAT
1 GTGGTCTTACACGAAATCACATATCGATGCCAACGTCCTAGAA
* *
38353571 GTGGTCTTACACGTAAATCATA-AGTCGATGCCAACATCCTAGACA
1 GTGGTCTTACACG-AAATCACATA-TCGATGCCAACGTCCTAGA-A
*
38353616 -TGGTCTTACACGAAAACACATAT
1 GTGGTCTTACACGAAATCACATAT
38353639 TGAATCCTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 35 0.39
44 30 0.33
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
GTGGTCTTACACGAAATCACATATCGATGCCAACGTCCTAGAA
Found at i:38356039 original size:31 final size:32
Alignment explanation
Indices: 38356004--38356083 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 32
38355994 CTTGTCACTT
38356004 GTAGCCGAAGCTACCACTA-TTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTTCACTGATCAG
38356035 GTAGCCGAAGCTACCAC-ATTTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTTCACTGATCAG
* *
38356066 GTAGTCGAAGCTATCACT
1 GTAGCCGAAGCTACCACT
38356084 TATCACTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 1 0.02
31 44 0.98
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (32 bp):
GTAGCCGAAGCTACCACTATTTCACTGATCAG
Found at i:38356120 original size:26 final size:26
Alignment explanation
Indices: 38356091--38356143 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
38356081 ACTTATCACT
*
38356091 TTCATTTGTCATTGATCAGATAAGTG
1 TTCACTTGTCATTGATCAGATAAGTG
*
38356117 TTCACTTGTCCTTGATCAGATAAGTG
1 TTCACTTGTCATTGATCAGATAAGTG
38356143 T
1 T
38356144 AGCCGAAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (26 bp):
TTCACTTGTCATTGATCAGATAAGTG
Found at i:38356192 original size:50 final size:50
Alignment explanation
Indices: 38356117--38356217 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
38356107 CAGATAAGTG
* *
38356117 TTCACTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCAATTATCACT
1 TTCACTTATCCTTGATCAGATAAGTGTAGCCCAAGCTATCAATTATCACT
*
38356167 TTCACTTATCCTTGATCAGATAAGTGTAGCCCAAGCTATCACTTATCACT
1 TTCACTTATCCTTGATCAGATAAGTGTAGCCCAAGCTATCAATTATCACT
38356217 T
1 T
38356218 GTTACCATGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (50 bp):
TTCACTTATCCTTGATCAGATAAGTGTAGCCCAAGCTATCAATTATCACT
Found at i:38358029 original size:24 final size:24
Alignment explanation
Indices: 38357999--38358085 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
38357989 CTTATTATGT
38357999 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
38358023 TCACACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
38358047 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
38358071 TCGCACACATAGTGC
1 TCGCACACATAGTGC
38358086 ATTTGAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:38364496 original size:49 final size:49
Alignment explanation
Indices: 38364342--38364494 Score: 261
Period size: 49 Copynumber: 3.1 Consensus size: 49
38364332 TACATATATG
* * *
38364342 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
38364391 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
38364440 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
38364489 TGTGAT
1 TGTGAT
38364495 GATGTGAAAG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 99 1.00
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:38364500 original size:26 final size:26
Alignment explanation
Indices: 38364461--38364522 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 26
38364451 CTAATGGCCG
*
38364461 ATGTGGTGAATGTGAAAGTGTATGTAT
1 ATGTGATG-ATGTGAAAGTGTATGTAT
38364488 ATGTGATGATGTGAAAGTGTATGTAT
1 ATGTGATGATGTGAAAGTGTATGTAT
38364514 ATGTGATGA
1 ATGTGATGA
38364523 GGCCTAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 27 0.79
27 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.32, T:0.37
Consensus pattern (26 bp):
ATGTGATGATGTGAAAGTGTATGTAT
Found at i:38364509 original size:75 final size:75
Alignment explanation
Indices: 38364412--38364571 Score: 311
Period size: 75 Copynumber: 2.1 Consensus size: 75
38364402 CTAATGGCCG
38364412 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 ATGTGATG-ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
38364477 AGTGTATGTAT
65 AGTGTATGTAT
38364488 ATGTGATGATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAA
1 ATGTGATGATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAA
38364553 GTGTATGTAT
66 GTGTATGTAT
38364563 ATGTGATGA
1 ATGTGATGA
38364572 GGCCTAATGG
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 76 0.90
76 8 0.10
ACGTcount: A:0.29, C:0.05, G:0.33, T:0.33
Consensus pattern (75 bp):
ATGTGATGATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAA
GTGTATGTAT
Found at i:38364511 original size:124 final size:125
Alignment explanation
Indices: 38364367--38364618 Score: 479
Period size: 124 Copynumber: 2.0 Consensus size: 125
38364357 TGGCCAATGC
38364367 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38364432 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
66 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
* *
38364492 GATG-ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38364556 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
66 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
38364616 GAT
1 GAT
38364619 AAGGCCTAAT
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
124 121 0.97
125 4 0.03
ACGTcount: A:0.29, C:0.06, G:0.33, T:0.32
Consensus pattern (125 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
Found at i:38364550 original size:49 final size:49
Alignment explanation
Indices: 38364488--38364679 Score: 343
Period size: 49 Copynumber: 4.0 Consensus size: 49
38364478 GTGTATGTAT
*
38364488 ATGTGATG-ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
38364536 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
*
38364585 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
*
38364634 ATGTGGTGAATGTGAAAGTGTATGTATATGTGAT-AAGCCTAATGGC
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGC
38364680 TAATGTAAAA
Statistics
Matches: 140, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 18 0.13
49 122 0.87
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (49 bp):
ATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
Found at i:38364644 original size:173 final size:173
Alignment explanation
Indices: 38364342--38364667 Score: 580
Period size: 173 Copynumber: 1.9 Consensus size: 173
38364332 TACATATATG
38364342 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
*
38364407 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
38364472 GTGAAAGTGTATGTATATGTGATGATGTGAAAGTGTATGTATA
131 GTGAAAGTGTATGTATATGTGATGATGTGAAAGTGTATGTATA
* * * * * *
38364515 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
*
38364580 GGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
38364645 GTGAAAGTGTATGTATATGTGAT
131 GTGAAAGTGTATGTATATGTGAT
38364668 AAGCCTAATG
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 145 1.00
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (173 bp):
TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
GTGAAAGTGTATGTATATGTGATGATGTGAAAGTGTATGTATA
Found at i:38364831 original size:37 final size:37
Alignment explanation
Indices: 38364781--38364902 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
38364771 GGAATATGTT
*
38364781 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
38364818 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
38364855 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
38364892 CCGGGTAAGAC
1 CCGGGTAAGAC
38364903 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:38366933 original size:29 final size:29
Alignment explanation
Indices: 38366891--38367025 Score: 243
Period size: 29 Copynumber: 4.7 Consensus size: 29
38366881 GCGAATGATT
38366891 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
38366920 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
38366949 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
38366978 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
38367007 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
38367026 TTTTTCAACA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 104 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:38370378 original size:49 final size:49
Alignment explanation
Indices: 38370322--38370633 Score: 545
Period size: 49 Copynumber: 6.4 Consensus size: 49
38370312 TACATATATG
* * * *
38370322 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
38370371 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
38370420 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
38370469 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
38370518 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
38370567 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
38370616 TGTGATAA-GCCTAATGGC
1 TGTGATAAGGCCTAATGGC
38370634 TAATGTAAAA
Statistics
Matches: 257, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
48 10 0.04
49 247 0.96
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:38370785 original size:37 final size:37
Alignment explanation
Indices: 38370735--38370856 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
38370725 GGAATATGTT
*
38370735 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
38370772 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
38370809 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
38370846 CCGGGTAAGAC
1 CCGGGTAAGAC
38370857 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:38379843 original size:37 final size:37
Alignment explanation
Indices: 38379800--38379981 Score: 292
Period size: 37 Copynumber: 4.9 Consensus size: 37
38379790 GCTCAGACGA
*
38379800 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38379837 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
38379874 AATCTCCACACGTAGTCATCGAGTCTTACCTGGATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
38379911 AATCTCCACACGTAGTCATCGGGTTTTACTCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
38379948 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
38379982 ATATATTTCC
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:38380097 original size:48 final size:48
Alignment explanation
Indices: 38380026--38380793 Score: 1140
Period size: 48 Copynumber: 16.0 Consensus size: 48
38380016 TGTTACAACA
* * *
38380026 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
38380074 TTCACATTTGCCATTCGGCTTTACCACATCTTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** *
38380122 TTCACATTAGCCATTCGGATTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
38380170 TTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
38380218 TTCACATTCGTCATTCGGATTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
38380266 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
38380314 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
38380362 TTCACATTTGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
38380410 TTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
38380458 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * *
38380506 TTCACATTCGCCATTCGGCTTTACCACATATGCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
38380554 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
38380602 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
**** *
38380650 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTTTACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
38380698 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
38380746 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
38380794 ATATTTATCT
Statistics
Matches: 650, Mismatches: 70, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 650 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:38384010 original size:40 final size:40
Alignment explanation
Indices: 38383961--38384152 Score: 330
Period size: 40 Copynumber: 4.8 Consensus size: 40
38383951 CCAGCATGAT
* * * *
38383961 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
38384001 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38384041 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38384081 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
38384121 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
38384153 CTCAATTCTC
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:38385410 original size:37 final size:37
Alignment explanation
Indices: 38385352--38385496 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
38385342 GCTCAGACGA
* *
38385352 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
38385389 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38385426 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
38385463 AATCTCTACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
38385497 ATATATTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:38385612 original size:48 final size:48
Alignment explanation
Indices: 38385541--38386356 Score: 1227
Period size: 48 Copynumber: 17.0 Consensus size: 48
38385531 TGTTACAACA
* * *
38385541 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
38385589 TTCACATTTGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
38385637 TTCACATTAGCCATTTGGATTTACCATATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
38385685 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
38385733 TTCACATTCGTCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
38385781 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * ** *
38385829 TTCACATTCGCCATACTACTTTACCACATATACATATCACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
38385877 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
38385925 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
38385973 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
38386021 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
38386069 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
38386117 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
38386165 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
38386213 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
38386261 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
38386309 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
38386357 ATATTTATCT
Statistics
Matches: 697, Mismatches: 71, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 697 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:38392832 original size:27 final size:27
Alignment explanation
Indices: 38392789--38392867 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
38392779 AAAGGCAAAA
*
38392789 CAGTCATTTTACCCTACAAGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
* * *
38392816 CAGTCATTTTATACTACAAGAGTATTT
1 CAGTCATTTTACACTACAAGGGTATGT
* *
38392843 CGGTAATTTTACACTACAAGGGTAT
1 CAGTCATTTTACACTACAAGGGTAT
38392868 TTCGATAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:38392868 original size:27 final size:27
Alignment explanation
Indices: 38392832--38393295 Score: 503
Period size: 27 Copynumber: 17.4 Consensus size: 27
38392822 TTTTATACTA
* *
38392832 CAAGAGTATTTCGGTAATTTTAC-ACT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
38392858 ACAAGGGTATTTCGATAATTTTACAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
*** *
38392886 TTGGGGTGTTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
38392913 CGAGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
38392940 TAAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38392967 TAAGGGTGTTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38392994 CGAA-GGTGTTTCGGTAATTTCACAAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* * *
38393021 -AGGGGTATTTTGGTAATTTCAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
38393046 CAAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** * *
38393073 TGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
38393100 -AAGGGTATTTCGGTTATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
38393126 CAAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38393153 CAATGGTATTTTGGTAATTTTAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38393179 CGAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * ** *
38393206 CGAGGATATTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38393232 CAATGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38393259 C-GGAGGTATTTCAGTAATTTTACAAAT
1 CAAG-GGTATTTCGGTAATTTTACAAAT
*
38393286 CGAGGGTATT
1 CAAGGGTATT
38393296 ATAGTAATTT
Statistics
Matches: 374, Mismatches: 53, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.01
26 102 0.27
27 263 0.70
28 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:38393080 original size:53 final size:54
Alignment explanation
Indices: 38392832--38393295 Score: 503
Period size: 53 Copynumber: 8.7 Consensus size: 54
38392822 TTTTATACTA
* * * *
38392832 CAAGAGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTACAAAT
*** * * *
38392886 TTGGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* ** *
38392940 TAAGGGTATTTCGGTAATTTTACAAATTAAGGGTGTTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* * * * *
38392994 CGAA-GGTGTTTCGGTAATTTCACAAATAG-GGGTATTTTGGTAATTTCAC-AAT
1 C-AAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* * * *
38393046 CAAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* *
38393100 -AAGGGTATTTCGGTTATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* * *
38393153 CAATGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* * ** * * * *
38393206 CGAGGATATTTTAGTAATTTCAC-AATCAATGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
* *
38393259 C-GGAGGTATTTCAGTAATTTTACAAATCGAGGGTATT
1 CAAG-GGTATTTCGGTAATTTTACAAATCGAGGGTATT
38393296 ATAGTAATTT
Statistics
Matches: 344, Mismatches: 58, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
51 2 0.01
52 26 0.08
53 171 0.50
54 141 0.41
55 4 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
Found at i:38393091 original size:133 final size:133
Alignment explanation
Indices: 38392837--38393306 Score: 547
Period size: 133 Copynumber: 3.5 Consensus size: 133
38392827 TACTACAAGA
* * * * *
38392837 GTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATTTGGGGTGTTTCGGT
1 GTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCGGTAATTTTACAAA-TAGGGGTATTTTGGT
* * * * *
38392901 AATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATTAAGGGTATTTCGGTAATTTTACAAA
64 AATTTCAC-AATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAA
38392966 TTAAGG
128 TTAAGG
* * *
38392972 GTGTTTCGGTAATTTTACAAATCGAA-GGTGTTTCGGTAATTTCACAAATAGGGGTATTTTGGTA
1 GTATTTCGGTAATTTTACAAATC-AAGGGTATTTCGGTAATTTTACAAATAGGGGTATTTTGGTA
* **
38393036 ATTTCACAATCAAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAA-T
65 ATTTCACAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAATT
38393100 AAGG
130 AAGG
* **
38393104 GTATTTCGGTTATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAATGGTATTTTGGTA
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAT-AGGGGTATTTTGGTA
* * * *
38393169 ATTTTACAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGATATTT-TAGTAATTTCAC-AAT
65 ATTTCACAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGA-TAATTTCACAAAT
* *
38393232 CAATG
129 TAAGG
* * * * * *
38393237 GTATTTCAGTAATTTTACAAATC-GGAGGTATTTCAGTAATTTTACAAATCGAGGGTATTATAGT
1 GTATTTCGGTAATTTTACAAATCAAG-GGTATTTCGGTAATTTTACAAATAG-GGGTATTTTGGT
38393301 AATTTC
64 AATTTC
38393307 TCTTTATTAT
Statistics
Matches: 286, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
131 2 0.01
132 51 0.18
133 173 0.60
134 19 0.07
135 37 0.13
136 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (133 bp):
GTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATAGGGGTATTTTGGTAA
TTTCACAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAATTA
AGG
Found at i:38393306 original size:80 final size:80
Alignment explanation
Indices: 38392837--38393305 Score: 471
Period size: 80 Copynumber: 5.8 Consensus size: 80
38392827 TACTACAAGA
* * * * * *** * *
38392837 GTATTTCGGTAATTTTACACTACAAGGGTATTTCGATAATTTTACAAATTTGGGGTGTTTCGGTA
1 GTATTTCGGTAATTTCACA-AATAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTA
* *
38392902 ATTTTACAAATCGAGG
65 ATTTTACAAATCAATG
* * * * * * *
38392918 GTATTTTGGTAATTTTATAAATTAAGGGTATTTCGGTAATTTTACAAATTAAGGGTGTTTCGGTA
1 GTATTTCGGTAATTTCACAAA-TAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTA
38392983 ATTTTACAAATCGAA-G
65 ATTTTACAAATC-AATG
* * *
38392999 GTGTTTCGGTAATTTCACAAATAGGGGTATTTTGGTAATTTCAC-AATCAAGGGTATTTCAGTAA
1 GTATTTCGGTAATTTCACAAATAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAA
** *
38393063 TTTTACAAATTGAGG
66 TTTTACAAATCAATG
* * * *
38393078 GTATTTCGATAATTTCACAAATAAGGGTATTTCGGTTATTTTACAAATCAAGGGTATTTCGGTAA
1 GTATTTCGGTAATTTCACAAATAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAA
38393143 TTTTACAAATCAATG
66 TTTTACAAATCAATG
* * * * * * *
38393158 GTATTTTGGTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGATATTTTAGTA
1 GTATTTCGGTAATTTCACAAATAG-GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTA
*
38393222 ATTTCAC-AATCAATG
65 ATTTTACAAATCAATG
* * * * *
38393237 GTATTTCAGTAATTTTACAAATCGGAGGTATTTCAGTAATTTTACAAATCGAGGGTATTAT-AGT
1 GTATTTCGGTAATTTCACAAATAGG-GGTATTTCGGTAATTTTACAAATCAAGGGTATT-TCAGT
38393301 AATTT
64 AATTT
38393306 CTCTTTATTA
Statistics
Matches: 333, Mismatches: 47, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.00
79 94 0.28
80 150 0.45
81 87 0.26
82 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
GTATTTCGGTAATTTCACAAATAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAA
TTTTACAAATCAATG
Found at i:38396756 original size:2 final size:2
Alignment explanation
Indices: 38396749--38396785 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38396739 ACATACATGC
38396749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38396786 AACTTACAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38398913 original size:15 final size:15
Alignment explanation
Indices: 38398893--38398924 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38398883 TTTAATTTAG
38398893 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
38398908 AAGATAAATATATAT
1 AAGATAAATATAAAT
38398923 AA
1 AA
38398925 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:38401815 original size:105 final size:105
Alignment explanation
Indices: 38401682--38402544 Score: 1333
Period size: 105 Copynumber: 8.4 Consensus size: 105
38401672 GCCGCTAAAG
38401682 TTTTATTTTA-TTTT-AATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
38401745 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTGTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
38401785 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTCTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
38401850 TATTTTAATTTAATTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
38401890 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
38401955 TATTTTAATTTAATTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
38401995 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTATAGTTTTA-TTT---TATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
38402056 TATTTTA---T--TTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
38402091 -TTT-TTTTATTTTTAAATTACCTAATTAAATTAAATTTTATTTAGAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
38402154 TA-ATTATTTTGATTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* * *
38402193 CTTTATTTTATTTTTTAATTACCTAATTAAAGTAAATTGTATTTAAAGTTTTATTTT-AA-A---
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
38402253 TATTTTATTTTAATTTAATCA-TAAAAA-ATATTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
38402291 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTTTAAA-TATTATTTTAAATAT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTA--TTTAAAGTTTTATTTTAAATAT
*
38402355 TTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
64 TTTATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
38402397 TTTTATTTTATTTTTAAATTACCTAATTATAGTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
38402462 TATTTTATTTTAATTTAATCAC-AAAAA-ATATTATCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
38402500 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTT
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTT
38402545 TTAAATATTG
Statistics
Matches: 701, Mismatches: 34, Indels: 49
0.89 0.04 0.06
Matches are distributed among these distances:
94 46 0.07
95 6 0.01
96 27 0.04
97 3 0.00
98 56 0.08
99 15 0.02
100 25 0.04
101 13 0.02
102 28 0.04
103 34 0.05
104 118 0.17
105 281 0.40
106 49 0.07
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:38401849 original size:57 final size:57
Alignment explanation
Indices: 38401788--38401960 Score: 168
Period size: 57 Copynumber: 3.2 Consensus size: 57
38401778 TGTGTACTTT
38401788 TATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTCTTATTTTAAA
1 TATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTCTTATTTTAAA
* ** * * ** * *
38401845 TATTTTA-TTTTAATTTAATTTAA-TCACG-AAA-AATATTT--TGTC-TACTTT---
1 TATTTTATTTTTAAATT-ACCTAATTAAAGTAAATTGTATTTAAAGTCTTATTTTAAA
* *
38401893 TATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
1 TATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTCTTATTTTAAA
38401950 TATTTTATTTT
1 TATTTTATTTT
38401961 AATTTAATTT
Statistics
Matches: 85, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
48 11 0.13
49 10 0.12
50 3 0.04
51 10 0.12
52 3 0.04
53 2 0.02
54 10 0.12
55 3 0.04
56 11 0.13
57 22 0.26
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (57 bp):
TATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTCTTATTTTAAA
Found at i:38402051 original size:5 final size:5
Alignment explanation
Indices: 38402043--38402067 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38402033 GTATTTATAG
38402043 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
38402068 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:38402838 original size:9 final size:9
Alignment explanation
Indices: 38402813--38402922 Score: 100
Period size: 9 Copynumber: 12.0 Consensus size: 9
38402803 ATATCATATC
38402813 TTACATAAT
1 TTACATAAT
38402822 TTACATAAT
1 TTACATAAT
*
38402831 TTACATAAC
1 TTACATAAT
38402840 TTACATAA-
1 TTACATAAT
38402848 -TACATAAAT
1 TTACAT-AAT
38402857 ATATATCAT-AT
1 -T-TA-CATAAT
38402868 CTTACATAAT
1 -TTACATAAT
38402878 TTACATAAT
1 TTACATAAT
*** *
38402887 TCGGATAAC
1 TTACATAAT
38402896 TTACATAAT
1 TTACATAAT
*
38402905 TTACATAAC
1 TTACATAAT
38402914 TTACATAAT
1 TTACATAAT
38402923 ACATAAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
7 5 0.06
8 2 0.02
9 63 0.77
10 4 0.05
11 3 0.04
12 2 0.02
13 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:38402879 original size:56 final size:56
Alignment explanation
Indices: 38402793--38402904 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
38402783 AATCCCATCA
*
38402793 ACATAAATATATATCATATCTTACATAATTTACATAATTTACATAACTTACATAAT
1 ACATAAATATATATCATATCTTACATAATTTACATAATTCACATAACTTACATAAT
**
38402849 ACATAAATATATATCATATCTTACATAATTTACATAATTCGGATAACTTACATAAT
1 ACATAAATATATATCATATCTTACATAATTTACATAATTCACATAACTTACATAAT
38402905 TTACATAACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (56 bp):
ACATAAATATATATCATATCTTACATAATTTACATAATTCACATAACTTACATAAT
Found at i:38408024 original size:13 final size:14
Alignment explanation
Indices: 38408008--38408037 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38407998 TTATAAATAT
38408008 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
38408021 TTATAATGGTTTAA
1 TTATAATGGTTTAA
38408035 TTA
1 TTA
38408038 GTCGTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:38408807 original size:31 final size:31
Alignment explanation
Indices: 38408755--38408820 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
38408745 TGTATTTTTT
*
38408755 ATGCTACATTTGCTGTATTTGGTTGGATTCA
1 ATGCTACATTTACTGTATTTGGTTGGATTCA
* * *
38408786 ATGCTATATTTACTGTTTTTGGTTGGATTTA
1 ATGCTACATTTACTGTATTTGGTTGGATTCA
38408817 ATGC
1 ATGC
38408821 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.21, T:0.48
Consensus pattern (31 bp):
ATGCTACATTTACTGTATTTGGTTGGATTCA
Found at i:38409093 original size:86 final size:86
Alignment explanation
Indices: 38408892--38409098 Score: 281
Period size: 86 Copynumber: 2.4 Consensus size: 86
38408882 GTAACAAAAG
* * **
38408892 CGCCACTAAAAGTCATGACTTTTAGCGGTGCTTTTACCACAAAAGCTGCTAAAGGCCATGACTTT
1 CGCCGCTAAAAGTCATGACTTTTAGTGGTGCTTTTACCACAAAAGCTGCTAAAACCCATGACTTT
*
38408957 TAGCGGCGCTTTTCCCTCAAA
66 TAGCGGCGCTTTTCCCACAAA
* * * * * *
38408978 CACCGCTAAAGGCCATGACTTTTAATGGTGCTTTTCCCACAAACGCTGCTAAAACCCATGACTTT
1 CGCCGCTAAAAGTCATGACTTTTAGTGGTGCTTTTACCACAAAAGCTGCTAAAACCCATGACTTT
*
38409043 TAGCGGCGTTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAA
*
38409064 CGCCGCTAAAAGTCATGATCTTTT-GTGGTGTTTTT
1 CGCCGCTAAAAGTCATGA-CTTTTAGTGGTGCTTTT
38409099 TTCAAATAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 98 0.95
87 5 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (86 bp):
CGCCGCTAAAAGTCATGACTTTTAGTGGTGCTTTTACCACAAAAGCTGCTAAAACCCATGACTTT
TAGCGGCGCTTTTCCCACAAA
Found at i:38409098 original size:43 final size:43
Alignment explanation
Indices: 38408892--38409087 Score: 230
Period size: 43 Copynumber: 4.5 Consensus size: 43
38408882 GTAACAAAAG
* * *
38408892 CGCCACTAAAAGTCATGACTTTTAGCGGTGCTTTTACCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAA
* * * * *
38408935 AGCTGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCCTCAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAA
* * **
38408978 CACCGCTAAAGGCCATGACTTTTAATGGTGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAA
* * * *
38409021 CGCTGCTAAAACCCATGACTTTTAGCGGCGTTTTTCCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAA
*
38409064 CGCCGCTAAAAGTCATGATCTTTT
1 CGCCGCTAAAAGCCATGA-CTTTT
38409088 GTGGTGTTTT
Statistics
Matches: 126, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
43 121 0.96
44 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (43 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAA
Found at i:38412154 original size:38 final size:40
Alignment explanation
Indices: 38412103--38412211 Score: 143
Period size: 38 Copynumber: 2.8 Consensus size: 40
38412093 CTGGAAATTA
* *
38412103 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
38412141 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
38412181 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
38412212 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.05
38 28 0.45
39 1 0.02
40 28 0.45
41 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Done.