Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 147 of 328
Found at i:42992394 original size:18 final size:18
Alignment explanation
Indices: 42992371--42992406 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
42992361 GATATGATAC
42992371 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
42992389 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
42992407 CATGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:42992732 original size:35 final size:35
Alignment explanation
Indices: 42992676--42992793 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
42992666 AATCATATTT
42992676 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
42992713 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
42992748 TATAAGATTGTATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
42992784 TCTAAGATTG
1 TCTAAGATTG
42992794 CATATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:42992809 original size:17 final size:19
Alignment explanation
Indices: 42992676--42992801 Score: 201
Period size: 19 Copynumber: 6.9 Consensus size: 19
42992666 AATCATATTT
42992676 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42992695 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
42992713 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
42992730 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
42992748 TATAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
42992765 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42992784 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
42992802 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
17 31 0.31
18 31 0.31
19 37 0.37
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42993207 original size:45 final size:45
Alignment explanation
Indices: 42993157--42993395 Score: 281
Period size: 45 Copynumber: 5.3 Consensus size: 45
42993147 CGATATCTAC
* *
42993157 TATCTTTGATCTGCTCCCCGTCTAACACAGAGTCGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGTCGCCAAATCTGT
* *
42993202 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGTCGCCAAATCTGT
* *
42993247 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGGCAAATCT-T
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGTCGCCAAATCTGT
* * *
42993291 CT-TCTTCAATCTGCTTCCCGTCTAATACATAGAT-GCCAAATCTGT
1 -TATCTTCGATCTGCTCCCCGTCTAATACAGAG-TCGCCAAATCTGT
* * * *
42993336 TATCTCCGATTTGTTCCCCGTCTAATTCAGAGAT-GCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAG-TCGCCAAATCTGT
*
42993381 CATCTT-GAATCTGCT
1 TATCTTCG-ATCTGCT
42993396 TCGATGTAAA
Statistics
Matches: 167, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
44 38 0.23
45 129 0.77
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGTCGCCAAATCTGT
Found at i:42993339 original size:89 final size:90
Alignment explanation
Indices: 42993157--42993469 Score: 332
Period size: 89 Copynumber: 3.5 Consensus size: 90
42993147 CGATATCTAC
* * * *
42993157 TATCTTTGATCTGCTCCCCGTCTAACACAGAGTCGCCAAATCTGT-TATCTTCGATCTGC-TCCC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCT-TCTTCAATCTGCTTCCC
*
42993220 TGTCTAATACAGAGACGCCAAATCTGT
65 -GTCTAATACACAGACGCCAAATCTGT
*
42993247 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGGCAAATCT-TCTTCTTCAATCTGCTTCCCG
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCTTCTTCAATCTGCTTCCCG
* *
42993311 TCTAATACATAGATGCCAAATCTGT
66 TCTAATACACAGACGCCAAATCTGT
* * * * * * *
42993336 TATCTCCGATTTGTTCCCCGTCTAATTCAGAGATGCCAAATCTGTCATCTTGAATCTGCTT--CG
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCTTCTTCAATCTGCTTCCCG
* * * *
42993399 ATGTAA-ACACATGAAGGTCAGATCTGCT
66 -TCTAATACACA-G-ACGCCAAATCTG-T
* *
42993427 ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 -TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
42993470 ATCTTGGATC
Statistics
Matches: 190, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
88 6 0.03
89 78 0.41
90 68 0.36
91 1 0.01
92 37 0.19
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (90 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCTTCTTCAATCTGCTTCCCG
TCTAATACACAGACGCCAAATCTGT
Found at i:42993538 original size:78 final size:78
Alignment explanation
Indices: 42993409--42993703 Score: 511
Period size: 78 Copynumber: 3.8 Consensus size: 78
42993399 ATGTAAACAC
42993409 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
42993474 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
42993487 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
42993551 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
42993565 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
42993630 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
42993643 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
42993704 TGTTTCTTCG
Statistics
Matches: 205, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
77 2 0.01
78 201 0.98
79 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:42993778 original size:44 final size:44
Alignment explanation
Indices: 42993654--42994141 Score: 631
Period size: 44 Copynumber: 11.1 Consensus size: 44
42993644 TGAAGGTCAG
* * **
42993654 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAA
* * * *
42993701 ATCTG-TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * * *
42993744 ATTTGCTATCTTTGATTTGCTCTTTGACAATACAGAGATACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
42993788 ATCTGCTATCTTTGATCTGCTCTCTGATAATAC-GAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
42993831 ATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
*
42993875 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGATATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
42993919 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * *
42993963 ATATGCTATCTTTGATATGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
42994007 ATCTGCTATTTTCGATCTGCTCTCTGACTATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
42994051 ATCTGCTATCTTCGATCTGCTCTCTGTCTAATACAGATATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAA
* * * *
42994096 ATTTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
42994139 ATC
1 ATC
42994142 ATCTTGGATC
Statistics
Matches: 389, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
43 75 0.19
44 290 0.75
45 18 0.05
46 1 0.00
47 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
Found at i:43004099 original size:18 final size:18
Alignment explanation
Indices: 43004068--43004102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43004058 GATATGATAC
* *
43004068 TAAAATTATTAAAAAAAT
1 TAAAAATATAAAAAAAAT
43004086 TAAAAATATAAAAAAAA
1 TAAAAATATAAAAAAAA
43004103 CAGAGAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAATATAAAAAAAAT
Found at i:43004378 original size:22 final size:21
Alignment explanation
Indices: 43004343--43004418 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
43004333 AAAAGGTATC
* *
43004343 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
43004364 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
43004387 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
43004406 TGC-AATCATATCT
1 TACAAATCATATCT
43004419 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:43004435 original size:35 final size:37
Alignment explanation
Indices: 43004372--43004469 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
43004362 ATTACAAAAT
43004372 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
43004408 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
*
43004443 CATATTATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
43004470 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:43004466 original size:14 final size:15
Alignment explanation
Indices: 43004393--43004447 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 15
43004383 AGATTGCATA
43004393 TCATATCTAAGATTG
1 TCATATCTAAGATTG
43004408 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
43004426 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
43004443 -CATAT
1 TCATAT
43004448 TATATCTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 5 0.14
17 16 0.44
18 15 0.42
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:43004477 original size:17 final size:19
Alignment explanation
Indices: 43004379--43004469 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
43004369 AATCATATCT
43004379 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43004398 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
43004416 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
43004433 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
43004452 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
43004470 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43004626 original size:21 final size:20
Alignment explanation
Indices: 43004588--43004627 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43004578 TTGGACTTCG
**
43004588 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
43004608 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
43004628 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:43008948 original size:30 final size:30
Alignment explanation
Indices: 43008912--43008968 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
43008902 AAAAAATCAT
43008912 ACTTTTGCAAATTTTCA-TTTTGACCCCTAA
1 ACTTTTGCAAATTTTCACTTTTG-CCCCTAA
*
43008942 ACTTTTGCATATTTTCACTTTTGCCCC
1 ACTTTTGCAAATTTTCACTTTTGCCCC
43008969 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.46
Consensus pattern (30 bp):
ACTTTTGCAAATTTTCACTTTTGCCCCTAA
Found at i:43011102 original size:15 final size:15
Alignment explanation
Indices: 43011084--43011124 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
43011074 GAAGCCCAGA
43011084 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
43011099 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
43011114 ATAAGGAAATC
1 ATAAAGAAATC
43011125 TAATTTACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43021442 original size:46 final size:46
Alignment explanation
Indices: 43021293--43021466 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
43021283 TCACTTGTGT
* * ** *
43021293 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
* ** **
43021339 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTATTAAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* *
43021387 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
*
43021434 -AGCCAGTGTAAGACATGTCTGGGACATTCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
43021467 ACTACGAGAT
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 55 0.52
47 29 0.28
48 21 0.20
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:43027892 original size:39 final size:40
Alignment explanation
Indices: 43027794--43027908 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 40
43027784 TGCTGGAAAT
* * *
43027794 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAGGC
* *
43027835 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-TGT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAGGC
43027875 TAT-TCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAA
43027909 ATCGTGATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 28 0.42
40 9 0.13
41 30 0.45
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTAGGC
Found at i:43035806 original size:40 final size:40
Alignment explanation
Indices: 43035704--43035887 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
43035694 AAATTGAATG
* * * * * *
43035704 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
43035744 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
43035784 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * *
43035824 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
43035864 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43035888 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.02
40 116 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:43035912 original size:80 final size:80
Alignment explanation
Indices: 43035744--43035932 Score: 191
Period size: 80 Copynumber: 2.4 Consensus size: 80
43035734 GCTGGAAATT
* * *
43035744 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
43035809 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * * *
43035824 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGC
* * **
43035888 CTTGGTGCGGGTTACC
65 ATTCGTGCAAGTTACC
* * *
43035904 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43035933 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
79 1 0.01
80 86 0.99
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:43040073 original size:47 final size:47
Alignment explanation
Indices: 43040000--43040172 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 47
43039990 TCACTTGTGT
*
43040000 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTGA-GAC
*
43040046 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-G--ACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCACATTGAGAC
* *
43040092 GAGTGCTAGTGTAAGACATGTCTAGGACATGCGTCAG-C-C-TCGAGAC
1 GA--GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTGAGAC
* * *
43040138 ATAAGCTAGTGTAAGACATGTCTGGGATATGCATC
1 --GAGCTAGTGTAAGACATGTCTAGGACATGCATC
43040173 TGCTACGAGA
Statistics
Matches: 108, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
45 7 0.06
46 54 0.50
47 30 0.28
48 17 0.16
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTGAGAC
Found at i:43042517 original size:132 final size:131
Alignment explanation
Indices: 43042100--43043037 Score: 850
Period size: 132 Copynumber: 7.1 Consensus size: 131
43042090 TTAATTGGAG
* * * * * * *
43042100 TTAGGTTGC-AGTCTTAAATTAGC-AACCTTAACAATATCAACCGCTATCTTAAATTAGAGAGCT
1 TTAGGTTGCGA-TCTTAAATCAGCGAACCTTAACAATATCAGCTGCGATATTAAATCAGTGAGCT
* * * * * * *
43042163 TTTCGAAGTTGCGATCTAAGATCATCTAACTCAAATAAAATTTGTTCATGTTATTAAAACGAATG
65 TTTTGAAGTTGCGAT-TGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
43042228 AAC
129 AAC
* * * * *
43042231 TTAGGTTGCGATATTAAATCAGC-AACCTTAACAATATTAGCTGTGATATTAAATCAGCGAGCTG
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAGCTGCGATATTAAATCAGTGAGCTT
* ** * * ** * * * *
43042295 TTTGGAGTTGTTATTGAAATGAACTAAAC-CAAATAATTTTTTTTCATGTTCTTCAATCAAATAA
66 TTTGAAGTTGCGATTGAGATCAACT-AACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGA
43042359 AC
130 AC
* * * * *
43042361 TTAGGTTGTGATCTTAAATAAACGAACCTTAACAATATCAACTGCGATCTTAAATCAGTGAGCTT
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAGCTGCGATATTAAATCAGTGAGCTT
* * * * * **
43042426 TTTGAAGTTGTGATCTTAGATCAGCTAACTAAAATAAAATTTGTTCATGGTCTTAAATTGAATGA
66 TTTGAAGTTGCGAT-TGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGA
43042491 AC
130 AC
* * * *
43042493 TTAGGTTGCGATCTTAAATTAACGAACTTTAACAATATCAGCTGCGATATTAAATTAGTGAGCTT
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAGCTGCGATATTAAATCAGTGAGCTT
** * * * *
43042558 TTCAAAATTGCAACTTGAAATCAACTAACTCAAATAAAATTTGTTCTTGATCTTAAATCAAATGA
66 TTTGAAGTTGCGA-TTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGA
43042623 AC
130 AC
* * * * ** *
43042625 TTAGGTTACGATCTTAAATCAGTGAACCTTAACAATATCAAC-GACGATATTAAATTAGAAAGAT
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAGCTG-CGATATTAAATCAGTGAGCT
* ** ** * * *
43042689 TTTTGGAGTTGCGATATGAGATCAGTTAACTCAAATAAGTTTTTTTCATTATCATAAATCAAATG
65 TTTTGAAGTTGCGAT-TGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
43042754 AAC
129 AAC
* * * * * * ** *
43042757 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATTAGTTTCTATCTTAAATCAACGAG-AT
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAGCTGCGATATTAAATCAGTGAGCTT
* * * * * *
43042821 GTTCAGAGTTGCGATTTGGGATCAACTAACTCAAATAAAATTTGTCCATGATCTT-GATCGAATG
66 TTTGA-AGTTGCGA-TTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
*
43042885 AAA
129 AAC
* * * * ** *
43042888 TTAGGTTGTGATCTTAAATCAGTGAACATTAATC-ATATCAGTTATGATATTAAATCAATGAGC-
1 TTAGGTTGCGATCTTAAATCAGCGAACCTTAA-CAATATCAGCTGCGATATTAAATCAGTGAGCT
* * * **
43042951 TTTTGGAGTTGCGATTGGAGATTAGCTAACTCAAATAAAATTTGTTCATGATCTTAAATTTAATG
65 TTTTGAAGTTGCGATT-GAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
43043016 AAC
129 AAC
*
43043019 TTAGGTTGCAATCTTAAAT
1 TTAGGTTGCGATCTTAAAT
43043038 ATGTGATCTT
Statistics
Matches: 646, Mismatches: 146, Indels: 30
0.79 0.18 0.04
Matches are distributed among these distances:
129 2 0.00
130 97 0.15
131 206 0.32
132 339 0.52
133 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (131 bp):
TTAGGTTGCGATCTTAAATCAGCGAACCTTAACAATATCAGCTGCGATATTAAATCAGTGAGCTT
TTTGAAGTTGCGATTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGAA
C
Found at i:43042713 original size:264 final size:261
Alignment explanation
Indices: 43042123--43043373 Score: 1013
Period size: 264 Copynumber: 4.8 Consensus size: 261
43042113 TTAAATTAGC
* * * * * * *
43042123 AACCTTAACAATATCAACCGCTATCTTAAATTAGAGAGCTTTTCGAAGTTGCGATCTAAGATCAT
1 AACCTTAACAATATCAA-CGCGATATTAAATTAGAAAGATTTTTGAAGTTGCGATCTGAGATCAG
* * * * *
43042188 CTAACTCAAATAAAATTTGTTCATGTTATTAAAACGAATGAACTTAGGTTGCGATATTAAATCAG
65 CTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAA
* * ** *
43042253 C-AACCTTAACAATATTAGCTGTGATATTAAATCAGCGAGCTGTTT-GGAGTTGTTATTGAAATG
130 CGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCT-TTTCAGAGTTGCAATTGAAATC
** * * *
43042316 AACTAAAC-CAAATAATTTTTTTTCATGTTCTTCAATCAAATAAACTTAGGTTGTGATCTTAAAT
194 AACT-AACTCAAATAAAATTTGTTCATGATCTT-AATCAAATGAACTTAGGTTGTGATCTTAAAT
* **
43042380 AAACG
257 CAGTG
* * ** * * *
43042385 AACCTTAACAATATCAACTGCGATCTTAAATCAGTGAGCTTTTTGAAGTTGTGATCTTAGATCAG
1 AACCTTAACAATATCAAC-GCGATATTAAATTAGAAAGATTTTTGAAGTTGCGATCTGAGATCAG
* * * *
43042450 CTAACTAAAATAAAATTTGTTCATGGTCTTAAATTGAATGAACTTAGGTTGCGATCTTAAATTAA
65 CTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAA
* * * * * *
43042515 CGAACTTTAACAATATCAGCTGCGATATTAAATTAGTGAGCTTTTCAAAATTGCAACTTGAAATC
130 CGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGCAA-TTGAAATC
* **
43042580 AACTAACTCAAATAAAATTTGTTCTTGATCTTAAATCAAATGAACTTAGGTTACGATCTTAAATC
194 AACTAACTCAAATAAAATTTGTTCATGATCTT-AATCAAATGAACTTAGGTTGTGATCTTAAATC
43042645 AGTG
258 AGTG
* *
43042649 AACCTTAACAATATCAACGACGATATTAAATTAGAAAGATTTTTGGAGTTGCGATATGAGATCAG
1 AACCTTAACAATATCAACG-CGATATTAAATTAGAAAGATTTTTGAAGTTGCGATCTGAGATCAG
* ** * * * *
43042714 TTAACTCAAATAAGTTTTTTTCATTATCATAAATCAAATGAACTTAGGTTGCGATCTTAAATCAA
65 CTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAA
* * * * * * * * **
43042779 CGAACCTTAACAATATTAGTTTCTATCTTAAATCAACGAGATGTTCAGAGTTGCGATTTGGGATC
130 CGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGC-AATTGAAATC
* * * *
43042844 AACTAACTCAAATAAAATTTGTCCATGATCTTGATCGAATGAAATTAGGTTGTGATCTTAAATCA
194 AACTAACTCAAATAAAATTTGTTCATGATCTTAATCAAATGAACTTAGGTTGTGATCTTAAATCA
43042909 GTG
259 GTG
* **** * * * *
43042912 AACATTAATC-ATATCAGTTATGATATTAAA-T-CAATGAGCTTTTGGAGTTGCGAT-TGGAGAT
1 AACCTTAA-CAATATCA-ACGCGATATTAAATTAGAAAGA-TTTTTGAAGTTGCGATCT-GAGAT
* **
43042973 TAGCTAACTCAAATAAAATTTGTTCATGATCTTAAATTTAATGAACTTAGGTT--G--C---AAT
62 CAGCTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAAT
* * * * * *
43043031 --------CTT-A-AATA-T-G-T--GATCTTAAATTAGCGAGCTTTTTAGAGTTTCGATCTGAG
127 CAACGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGCAAT-TGAA
* * *** * * * ** *
43043081 ATCAACTAATTTAAATATTTTTTTTTCATGATCTAAAATCGAATGAACTTAGGTTGCAATCCTAA
191 ATCAACTAACTCAAATAAAATTTGTTCATGATCT-TAATCAAATGAACTTAGGTTGTGATCTTAA
*
43043146 ATGAGCT-
255 ATCAG-TG
* ** * * * *
43043153 AACCTTAACAATAACAACTATGATCTTAAATCAAAAAGATGTTT-AGAGTTGCGATCTGAGAT-A
1 AACCTTAACAATATCAAC-GCGATATTAAATTAGAAAGATTTTTGA-AGTTGCGATCTGAGATCA
* * *
43043216 TACTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGTGATATTAAATC
64 -GCTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATC
** * * * * **
43043281 AGTGAACCTTGAA-AATATTAGCTACGATCTTAAATCAACGAGCTGTTC-GAAGTTGTGATCTGA
128 AACGAACCTT-AACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAG-AGTTGCAAT-TGA
*
43043344 AATCAGCTAACTCAAATAAAATTTGTTCAT
190 AATCAACTAACTCAAATAAAATTTGTTCAT
43043374 AAAATAAAGT
Statistics
Matches: 794, Mismatches: 151, Indels: 86
0.77 0.15 0.08
Matches are distributed among these distances:
239 1 0.00
240 55 0.07
241 51 0.06
242 67 0.08
243 6 0.01
244 2 0.00
245 4 0.01
246 1 0.00
247 3 0.00
249 3 0.00
255 3 0.00
257 3 0.00
258 1 0.00
259 5 0.01
260 2 0.00
261 7 0.01
262 183 0.23
263 98 0.12
264 298 0.38
265 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (261 bp):
AACCTTAACAATATCAACGCGATATTAAATTAGAAAGATTTTTGAAGTTGCGATCTGAGATCAGC
TAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAAC
GAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGCAATTGAAATCAA
CTAACTCAAATAAAATTTGTTCATGATCTTAATCAAATGAACTTAGGTTGTGATCTTAAATCAGT
G
Found at i:43043279 original size:132 final size:132
Alignment explanation
Indices: 43043062--43043373 Score: 330
Period size: 132 Copynumber: 2.4 Consensus size: 132
43043052 TAGCGAGCTT
* * * *** *
43043062 TTTAGAGTTTCGATCTGAGATCA-ACTAATTTAAATATTTTTTTTTCATGATCTAAAATCGAATG
1 TTTAGAGTTGCGATCTGAGAT-ATACTAACTCAAATAAAATTTGTTCATGATCTAAAATCGAATG
* * *
43043126 AACTTAGGTTGCAATCCTAAATGAGCT-AACCTT-AACAATAACAACTATGATCTTAAATCAAAA
65 AACTTAGGTTGCAATACTAAATCAG-TGAACCTTGAA-AATAACAACTACGATCTTAAATCAAAA
43043189 AGATG
128 AGATG
*
43043194 TTTAGAGTTGCGATCTGAGATATACTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGA
1 TTTAGAGTTGCGATCTGAGATATACTAACTCAAATAAAATTTGTTCATGATCTAAAATCGAATGA
** * ** * ** *
43043259 ACTTAGGTTGTGATATTAAATCAGTGAACCTTGAAAATATTAGCTACGATCTTAAATCAACGAGC
66 ACTTAGGTTGCAATACTAAATCAGTGAACCTTGAAAATAACAACTACGATCTTAAATCAAAAAGA
43043324 TG
131 TG
* *
43043326 -TTCGAAGTTGTGATCTGA-A-ATCAGCTAACTCAAATAAAATTTGTTCAT
1 TTTAG-AGTTGCGATCTGAGATAT-A-CTAACTCAAATAAAATTTGTTCAT
43043374 AAAATAAAGT
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
130 2 0.01
131 7 0.05
132 141 0.93
133 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (132 bp):
TTTAGAGTTGCGATCTGAGATATACTAACTCAAATAAAATTTGTTCATGATCTAAAATCGAATGA
ACTTAGGTTGCAATACTAAATCAGTGAACCTTGAAAATAACAACTACGATCTTAAATCAAAAAGA
TG
Found at i:43048709 original size:22 final size:22
Alignment explanation
Indices: 43048681--43048723 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43048671 ATATGATTAT
*
43048681 TGTTCATTAATGTGATATCTAC
1 TGTTCATTAATGTAATATCTAC
*
43048703 TGTTCATTGATGTAATATCTA
1 TGTTCATTAATGTAATATCTA
43048724 GGTAGGCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (22 bp):
TGTTCATTAATGTAATATCTAC
Found at i:43048981 original size:24 final size:24
Alignment explanation
Indices: 43048954--43049008 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
43048944 TAATAATAAG
*
43048954 TAGATTTCAAATTTTAAGTTT-AAC
1 TAGATTTCAAATATTAA-TTTCAAC
* *
43048978 TAGATTTTAAATATTAATTTCAAT
1 TAGATTTCAAATATTAATTTCAAC
43049002 TAGATTT
1 TAGATTT
43049009 AGTTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (24 bp):
TAGATTTCAAATATTAATTTCAAC
Found at i:43049015 original size:28 final size:29
Alignment explanation
Indices: 43048983--43049037 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
43048973 TTAACTAGAT
* *
43048983 TTTAAATATTAA-TTTCAATTAGATTTAG
1 TTTAAATATTAAGATTAAATTAGATTTAG
*
43049011 TTTAAATTTTAAGATTAAATTAGATTT
1 TTTAAATATTAAGATTAAATTAGATTT
43049038 TATATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTAAATATTAAGATTAAATTAGATTTAG
Found at i:43049206 original size:17 final size:17
Alignment explanation
Indices: 43049177--43049209 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43049167 AGATTTTGGA
43049177 TTTTTGAATTAGATTTC
1 TTTTTGAATTAGATTTC
43049194 TTTTT-AATCTAGATTT
1 TTTTTGAAT-TAGATTT
43049210 GAGTTAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (17 bp):
TTTTTGAATTAGATTTC
Found at i:43056497 original size:49 final size:49
Alignment explanation
Indices: 43056443--43056852 Score: 622
Period size: 49 Copynumber: 8.6 Consensus size: 49
43056433 TATTAAAATT
* *
43056443 TGTGAAAGTGTATATATACGCGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056492 TGTGAAAGTG--TATATATGTGATATGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056539 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
43056588 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056635 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056684 TGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
43056732 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * *
43056781 TGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056828 TGTGGAAGTGTATA-A-ATGTGATAAG
1 TGTGAAAGTGTATATATATGTGATAAG
43056853 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 20, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
47 139 0.42
48 47 0.14
49 148 0.44
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:43056554 original size:96 final size:96
Alignment explanation
Indices: 43056443--43056852 Score: 673
Period size: 96 Copynumber: 4.3 Consensus size: 96
43056433 TATTAAAATT
* * *
43056443 TGTGAAAGTGTATATATACGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
43056508 TGTGATATGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
43056539 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
43056604 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056635 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTGTATAT
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATAT
43056700 ATGTGATAAGGCCTAATGGCCGATGTGATGAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43056732 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
43056797 TGTGATAGGGCCGAGTGGCCAACGTGATGGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
43056828 TGTGGAA-GTGTATA-A-ATGTGATAAG
1 TGT-GAAGGTGTATATATATGTGATAAG
43056853 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
94 10 0.03
95 1 0.00
96 191 0.64
97 97 0.32
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (96 bp):
TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:43059032 original size:40 final size:40
Alignment explanation
Indices: 43058977--43059128 Score: 241
Period size: 40 Copynumber: 3.8 Consensus size: 40
43058967 GAGAATTGAG
* *
43058977 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
43059017 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
43059057 AGTGATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
43059097 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
43059129 ATCATGCTGG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:43063032 original size:47 final size:47
Alignment explanation
Indices: 43062857--43063260 Score: 616
Period size: 47 Copynumber: 8.5 Consensus size: 47
43062847 TATTAAAATT
*
43062857 TGTGAAAGTGTATATATACGCGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATAT--GTGATAAGGCCTAATGGCCGATGTGATGAA
43062906 TGTGAAAGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43062951 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
43063000 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43063047 TGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
43063094 TGTG-AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
43063140 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * *
43063189 TGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
43063236 TGTGGAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
43063261 TCCCGAAGGG
Statistics
Matches: 332, Mismatches: 16, Indels: 16
0.91 0.04 0.04
Matches are distributed among these distances:
45 38 0.11
46 45 0.14
47 150 0.45
49 99 0.30
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:43063197 original size:189 final size:187
Alignment explanation
Indices: 43062857--43063260 Score: 657
Period size: 189 Copynumber: 2.1 Consensus size: 187
43062847 TATTAAAATT
*
43062857 TGTGAAAGTGTATATATACGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTG-AAGTGTATATAT--GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
43062922 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGG
63 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGG
* * * *
43062987 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
128 CCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAA
43063047 TGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATG
1 TGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATG
43063111 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGG
63 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGG
* * *
43063176 CCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGA
128 CCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAA
*
43063236 TGTGGAAGTGTATAAATGTGATAAG
1 TGT-GAAGTGTATATATGTGATAAG
43063261 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
187 5 0.02
188 33 0.16
189 146 0.73
190 17 0.08
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (187 bp):
TGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCA
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAA
Found at i:43065437 original size:40 final size:40
Alignment explanation
Indices: 43065382--43065533 Score: 241
Period size: 40 Copynumber: 3.8 Consensus size: 40
43065372 GAGAATTGAG
* *
43065382 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
43065422 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
43065462 AGTGATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
43065502 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
43065534 ATCATGCTGG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:43069314 original size:49 final size:49
Alignment explanation
Indices: 43069260--43069669 Score: 613
Period size: 49 Copynumber: 8.6 Consensus size: 49
43069250 TATTAAAATT
* *
43069260 TGTGAAAGTGTATATATACGCGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43069309 TGTGAAAGTG--TGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43069356 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
43069405 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
43069452 TGTGAAGGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43069501 TGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
43069549 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * *
43069598 TGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43069645 TGTGGAAGTGTATA-A-ATGTGATAAG
1 TGTGAAAGTGTATATATATGTGATAAG
43069670 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 19, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
47 139 0.41
48 48 0.14
49 148 0.44
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:43069373 original size:96 final size:96
Alignment explanation
Indices: 43069260--43069669 Score: 664
Period size: 96 Copynumber: 4.3 Consensus size: 96
43069250 TATTAAAATT
* * * *
43069260 TGTGAAAGTGTATATATACGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
43069325 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
43069356 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
43069421 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
43069452 TGTGAAGGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTGTATAT
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATAT
43069517 ATGTGATAAGGCCTAATGGCCGATGTGATGAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
43069549 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
43069614 TGTGATAGGGCCGAGTGGCCAACGTGATGGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
43069645 TGTGGAA-GTGTATA-A-ATGTGATAAG
1 TGT-GAAGGTGTATATATATGTGATAAG
43069670 TCCCGAAGGG
Statistics
Matches: 297, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
94 10 0.03
95 1 0.00
96 190 0.64
97 96 0.32
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (96 bp):
TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:43080800 original size:15 final size:15
Alignment explanation
Indices: 43080780--43080813 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43080770 ATTGTGTTAC
43080780 TTGAAATGGT-TGATA
1 TTGAAATGGTATGA-A
43080795 TTGAAATGGTATGAA
1 TTGAAATGGTATGAA
43080810 TTGA
1 TTGA
43080814 GTTTAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (15 bp):
TTGAAATGGTATGAA
Found at i:43082321 original size:28 final size:28
Alignment explanation
Indices: 43082288--43082388 Score: 157
Period size: 28 Copynumber: 3.6 Consensus size: 28
43082278 GCCCCTTTAA
*
43082288 GCCCAATCTCATTCATATGGCCCATCGG
1 GCCCAATCACATTCATATGGCCCATCGG
43082316 GCCCAATCACATTCATATGGCCCATCGG
1 GCCCAATCACATTCATATGGCCCATCGG
* * * *
43082344 GCCCAATCACTTTCATATGGTCCGTCAG
1 GCCCAATCACATTCATATGGCCCATCGG
43082372 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
43082389 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.25
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCGG
Found at i:43084539 original size:28 final size:29
Alignment explanation
Indices: 43084508--43084591 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 29
43084498 TTTTAATAAA
**
43084508 AAAATATAAAATCTTTCAAAAAT-TA-TAG
1 AAAATATAAAAAATTT-AAAAATATATTAG
*
43084536 AAAATATATAAAAATTTAAAAATATATTAT
1 AAAATATA-AAAAATTTAAAAATATATTAG
*
43084566 AAAATAT-AAAAATATAAAATATATAT
1 AAAATATAAAAAATTTAAAA-ATATAT
43084592 ATAAAGAGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 25 0.52
29 14 0.29
30 9 0.19
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAATATAAAAAATTTAAAAATATATTAG
Found at i:43084547 original size:30 final size:31
Alignment explanation
Indices: 43084506--43084580 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
43084496 GATTTTAATA
* *
43084506 AAAAAATATAAAATCTTTCAAAAAT-TA-TAG
1 AAAATATATAAAATATTT-AAAAATATATTAG
*
43084536 AAAATATATAAAA-ATTTAAAAATATATTAT
1 AAAATATATAAAATATTTAAAAATATATTAG
43084566 AAAATATA-AAAATAT
1 AAAATATATAAAATAT
43084581 AAAATATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 6 0.15
29 9 0.23
30 24 0.62
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (31 bp):
AAAATATATAAAATATTTAAAAATATATTAG
Found at i:43084548 original size:20 final size:20
Alignment explanation
Indices: 43084525--43084581 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
43084515 AAAATCTTTC
43084525 AAAAATTATAGAAAATATA-T
1 AAAAATTATA-AAAATATATT
43084545 AAAAATT-TAAAAATATATT
1 AAAAATTATAAAAATATATT
43084564 ATAAAA-TATAAAAATATA
1 A-AAAATTATAAAAATATA
43084582 AAATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.24
19 5 0.15
20 21 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAATTATAAAAATATATT
Found at i:43084594 original size:28 final size:30
Alignment explanation
Indices: 43084541--43084615 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 30
43084531 TATAGAAAAT
*
43084541 ATATAAAAATTTAAAA-ATATATTATAAA-
1 ATATAAAAATATAAAATATATATTATAAAG
43084569 ATATAAAAATATAAAATATATA-TATAAAG
1 ATATAAAAATATAAAATATATATTATAAAG
* *
43084598 AGAGAAAAATAGTAAAAT
1 ATATAAAAATA-TAAAAT
43084616 TTTAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 21 0.51
29 14 0.34
30 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (30 bp):
ATATAAAAATATAAAATATATATTATAAAG
Found at i:43086994 original size:2 final size:2
Alignment explanation
Indices: 43086987--43087011 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43086977 TAAGATTAAG
43086987 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 A
43087012 ACAAGTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43088206 original size:21 final size:22
Alignment explanation
Indices: 43088157--43088219 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
43088147 TATGTATCTC
*
43088157 TTTAAAAATTTAATTAATAAAT
1 TTTAAAAATTTATTTAATAAAT
*
43088179 TTT-AAAATTTATTTAAT-ATT
1 TTTAAAAATTTATTTAATAAAT
* *
43088199 TTTAAAAA-ATATTTAAAAAAT
1 TTTAAAAATTTATTTAATAAAT
43088220 ATATAATTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 12 0.35
21 19 0.56
22 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAAATTTATTTAATAAAT
Found at i:43092063 original size:5 final size:5
Alignment explanation
Indices: 43092053--43092077 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43092043 TATACTGACA
43092053 TGTTT TGTTT TGTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT
43092078 ATGATTGCAT
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:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:43097976 original size:143 final size:140
Alignment explanation
Indices: 43097710--43098035 Score: 420
Period size: 143 Copynumber: 2.3 Consensus size: 140
43097700 TTGAAGTTGC
* * * *
43097710 AAATGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATTGAAGCCACCAGCCTTATCTCGT
1 AAATGGCAAATCTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCGC
* * * *
43097775 TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCTTGACGTTGCAGTGGAACAGA
66 TGAAGTTGCAGCGGAACAGACTGAAGACAGCAAATCTTATTTCCCTGACGTTGCAGTGGAACAGA
43097840 TTAAAGCTATA
131 TTAAAGCTA-A
* * *
43097851 AATTATGGCAAATCTTATCTTCCTAAAGTTGCAATGGAGCATATTGAAGCCACCAGCCTTATCTT
1 AA--ATGGCAAATCTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATC-T
* * * ** *
43097916 C-CTGAAGTTGCAGCGTAACAGACTGACGACAGTAAATCTTATTTCCCTGACGTTTTAGTGGAAT
63 CGCTGAAGTTGCAGCGGAACAGACTGAAGACAGCAAATCTTATTTCCCTGACGTTGCAGTGGAAC
43097980 AGATTAAAGCTAA
128 AGATTAAAGCTAA
** * *
43097993 AAATCACAAATCTTATCTTCCTGAAGTTGCAGTGAAGAAGATT
1 AAATGGCAAATCTTATCTTCCTGAAGTTGCAATGAAGCAGATT
43098036 CAATATACAA
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
140 34 0.22
141 2 0.01
142 3 0.02
143 117 0.74
144 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (140 bp):
AAATGGCAAATCTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCGC
TGAAGTTGCAGCGGAACAGACTGAAGACAGCAAATCTTATTTCCCTGACGTTGCAGTGGAACAGA
TTAAAGCTAA
Found at i:43098240 original size:45 final size:46
Alignment explanation
Indices: 43098129--43098241 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 46
43098119 AGATCTAAGC
* * * *
43098129 CACAATCCTTATCTCTCTGAAGTTGTAGTAGAGTAGCATAAAAATA
1 CACAATTCTTATCTCTTTGAAGTTGCAGTAGAGCAGCATAAAAATA
* * * ** * *
43098175 CACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTA
1 CACAATTCTTATCTCTTTGAAGTTGCAGTAGAGCAGCATAAAAATA
43098221 C-CAATTCTTATCTCTTTGAAG
1 CACAATTCTTATCTCTTTGAAG
43098242 ATTTAGCGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
45 18 0.33
46 36 0.67
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (46 bp):
CACAATTCTTATCTCTTTGAAGTTGCAGTAGAGCAGCATAAAAATA
Found at i:43103902 original size:22 final size:22
Alignment explanation
Indices: 43103877--43103920 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
43103867 TAATGTTTTA
43103877 GGGTAATACTGTAACTTATCTT
1 GGGTAATACTGTAACTTATCTT
43103899 GGGTAATACTGTAACTTATCTT
1 GGGTAATACTGTAACTTATCTT
43103921 TTTTTAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (22 bp):
GGGTAATACTGTAACTTATCTT
Found at i:43104907 original size:63 final size:63
Alignment explanation
Indices: 43104833--43104954 Score: 208
Period size: 63 Copynumber: 1.9 Consensus size: 63
43104823 GTACCTAATT
43104833 TATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAAAATA
1 TATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAAAATA
* * * *
43104896 TATATTTCAAAGTTTGTTCCAATTTTTTATGTTGTAATGTATTTAATTTATATTACAAA
1 TATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAA
43104955 GTTTGATCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (63 bp):
TATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAAAATA
Found at i:43105409 original size:2 final size:2
Alignment explanation
Indices: 43105402--43105436 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
43105392 AGGTCATAAG
43105402 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 A
43105437 AAACTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43106447 original size:21 final size:21
Alignment explanation
Indices: 43106421--43106460 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43106411 GACAATGCGA
*
43106421 GATTAAAATTATTTTTTAAGG
1 GATTAAAATTAATTTTTAAGG
43106442 GATTAAAATTAATTTTTAA
1 GATTAAAATTAATTTTTAA
43106461 TGAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (21 bp):
GATTAAAATTAATTTTTAAGG
Found at i:43106540 original size:68 final size:68
Alignment explanation
Indices: 43106443--43106613 Score: 218
Period size: 68 Copynumber: 2.5 Consensus size: 68
43106433 TTTTTAAGGG
* * *
43106443 ATTAAAATTAATTTTTAATGAAAACAGTGAAGAAGTGAGCTATTGGAGTATCCTCTAGTTAATAT
1 ATTAAAATTAATTTTTAATGAAAATAGTGAAGAAGTGAGCTATGGGAGTATCCTCTAGTCAATAT
43106508 GAA
66 GAA
* * * * *
43106511 ATTAAAATTAATCTTTTAATG-AAATAGTGATGAAGTGAGTTATGGGAGTATTCTCTGGTCAATG
1 ATTAAAATTAAT-TTTTAATGAAAATAGTGAAGAAGTGAGCTATGGGAGTATCCTCTAGTCAATA
**
43106575 TGGG
65 TGAA
*
43106579 ATTAAAATTAAAATTTTAATGAAAATAGTGAAGAA
1 ATTAAAATT-AATTTTTAATGAAAATAGTGAAGAA
43106614 ATCGTCACTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 66 0.75
69 22 0.25
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (68 bp):
ATTAAAATTAATTTTTAATGAAAATAGTGAAGAAGTGAGCTATGGGAGTATCCTCTAGTCAATAT
GAA
Found at i:43106982 original size:68 final size:69
Alignment explanation
Indices: 43106879--43107040 Score: 186
Period size: 68 Copynumber: 2.4 Consensus size: 69
43106869 TTTAAGGGAT
* * * * * * ** *
43106879 TAAAATTAA-TTTTTAATGAGAATATTGATCGAAGTGAGCTATGTGAGTATTCTCTAATGAATGT
1 TAAAATTAACTTTTTAATAAAAATAGTGA-AGAAGTGAGCTATGAGAATATTCTCTAACCAATAT
43106943 GAGAC
65 GAGAC
*
43106948 T-AAATTAACTTTGTT-ATAAAAATAGTGAAGAAGTGAGCTATGAGAATATTCTCTAGCCAATAT
1 TAAAATTAACTTT-TTAATAAAAATAGTGAAGAAGTGAGCTATGAGAATATTCTCTAACCAATAT
*
43107011 GAGAT
65 GAGAC
43107016 TAAAATTAACTTTTTAATAAAAATA
1 TAAAATTAACTTTTTAATAAAAATA
43107041 ATTAAGAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
68 42 0.54
69 34 0.44
70 2 0.03
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (69 bp):
TAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTGAGCTATGAGAATATTCTCTAACCAATATG
AGAC
Found at i:43112337 original size:48 final size:46
Alignment explanation
Indices: 43112263--43112433 Score: 164
Period size: 48 Copynumber: 3.6 Consensus size: 46
43112253 CATTAGGGAA
* * * *
43112263 TTCATTGATTTAGCTTCGGGCTATGATATTGGCACATTGAGTGTGAGC
1 TTCATTGATTTGGCTTCGAGCCATGATATT-GCAC-TTGAGTGCGAGC
*
43112311 TTCATTGATTTGGCTTCGAGCCATGATATCTGCACTTCAGGTGCGAGC
1 TTCATTGATTTGGCTTCGAGCCATGATAT-TGCACTTGA-GTGCGAGC
* * * * *
43112359 TTTATTGATTTGGCTTTGGGCCATGATATTAGCACTTTGGGTGCGAGA
1 TTCATTGATTTGGCTTCGAGCCATGATATT-GCAC-TTGAGTGCGAGC
* *
43112407 TACATTGAGTTGGCTTC-AGGCCATGAT
1 TTCATTGATTTGGCTTCGA-GCCATGAT
43112434 TTGAGAACTT
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 4 0.04
48 95 0.93
49 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (46 bp):
TTCATTGATTTGGCTTCGAGCCATGATATTGCACTTGAGTGCGAGC
Found at i:43118554 original size:27 final size:28
Alignment explanation
Indices: 43118523--43118636 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
43118513 TACCAGTATT
* *
43118523 TGGCCCATTAAGCCC-AATCATATTATA
1 TGGCCCATTAGGCCCAAATCACATTATA
*
43118550 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
43118579 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
* * *
43118608 TGGCACGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
43118636 T
1 T
43118637 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.21
28 16 0.21
29 43 0.57
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:43118586 original size:29 final size:29
Alignment explanation
Indices: 43118518--43118623 Score: 135
Period size: 29 Copynumber: 3.7 Consensus size: 29
43118508 TCACATACCA
* * *
43118518 GTATTTGGCCCATTAAGCCC-AATCATAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
*
43118546 -TATATGGCCCATTAGGCCCAAATCACCT
1 GTATATGGCCCATTAGGCCCAAATCACAT
43118574 GTATATGGCCCATTAGGCCCAAATCACAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
* * *
43118603 TTATATGGCACGTTAGGCCCA
1 GTATATGGCCCATTAGGCCCA
43118624 GTCACATTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 17 0.25
28 6 0.09
29 45 0.66
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (29 bp):
GTATATGGCCCATTAGGCCCAAATCACAT
Found at i:43118873 original size:16 final size:16
Alignment explanation
Indices: 43118852--43118889 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
43118842 CAAACTTTTA
43118852 ACTTTTCGGCATTTCG
1 ACTTTTCGGCATTTCG
*
43118868 ACTTTTTGGCATTTCG
1 ACTTTTCGGCATTTCG
*
43118884 GCTTTT
1 ACTTTT
43118890 GCCGATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.50
Consensus pattern (16 bp):
ACTTTTCGGCATTTCG
Found at i:43129170 original size:18 final size:19
Alignment explanation
Indices: 43129144--43129184 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
43129134 AGCCTCTCGG
43129144 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
43129162 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
43129181 CGGT
1 CGGT
43129185 CCACGATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:43131822 original size:29 final size:28
Alignment explanation
Indices: 43131765--43131849 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
43131755 TACCTGTATT
*
43131765 TGGCCCATTAGGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
43131793 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
43131822 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
43131850 ATCATACTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:43134602 original size:160 final size:162
Alignment explanation
Indices: 43134409--43134703 Score: 425
Period size: 160 Copynumber: 1.8 Consensus size: 162
43134399 AGGAGTCTTC
* *
43134409 TCTAGTCAATATGGAATTAAATTTAACTTTTTAATGAAAATAATGAAAAACTAAGCTATGAGAGT
1 TCTAGTCAATATAGAATTAAATTTAACTTTTTAATGAAAATAATGAAAAACTAAGCTATGAGAAT
* * * *
43134474 ATTCTCTAGTCATTGTGGGATTAAAATAAACTTTTTAATAAAAATAGTGAA-AAATTGTCATTTA
66 ATTCTCTAGTCAATGCGGGATTAAAATAAACATTTTAATAAAAATAGTGAAGAAATTGTCACTTA
43134538 TTTATTAGAAAAAGTGAGATATTAGAGTGTTT
131 TTTATTAGAAAAAGTGAGATATTAGAGTGTTT
* * * * **
43134570 TCTAGTCAATATAG-ATTCGAA-TTAACTTTTTAATGAAAATTATGAAAAAGTGATTTATGAGAA
1 TCTAGTCAATATAGAATT-AAATTTAACTTTTTAATGAAAATAATGAAAAACTAAGCTATGAGAA
* * *
43134633 TATTCTCTAGTCAATGCGGGATTAAAATTATCATTTTAATGAAAATAGTGAAGAAATTGTCACTT
65 TATTCTCTAGTCAATGCGGGATTAAAATAAACATTTTAATAAAAATAGTGAAGAAATTGTCACTT
43134698 ATTTAT
130 ATTTAT
43134704 AACTTAAATG
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
160 85 0.73
161 32 0.27
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (162 bp):
TCTAGTCAATATAGAATTAAATTTAACTTTTTAATGAAAATAATGAAAAACTAAGCTATGAGAAT
ATTCTCTAGTCAATGCGGGATTAAAATAAACATTTTAATAAAAATAGTGAAGAAATTGTCACTTA
TTTATTAGAAAAAGTGAGATATTAGAGTGTTT
Found at i:43136111 original size:24 final size:24
Alignment explanation
Indices: 43136045--43136119 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
43136035 CTTGGGTGGC
* *
43136045 GGCGGTGGTGCTGGTGGTGGAGTT
1 GGCGGTGGAGCTGGTGGTGGTGTT
* * *
43136069 GGAGGTGGAG-TCGGAGGTGCTGTT
1 GGCGGTGGAGCT-GGTGGTGGTGTT
43136093 GGCGGTGGAGCTGGTGGTGGTGTT
1 GGCGGTGGAGCTGGTGGTGGTGTT
43136117 GGC
1 GGC
43136120 ACTGGTGTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.07, C:0.09, G:0.57, T:0.27
Consensus pattern (24 bp):
GGCGGTGGAGCTGGTGGTGGTGTT
Found at i:43152325 original size:5 final size:5
Alignment explanation
Indices: 43152315--43152340 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
43152305 ATTTTTCTTG
43152315 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
43152341 TTTTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:43157962 original size:25 final size:25
Alignment explanation
Indices: 43157934--43157983 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
43157924 ACCCTTATAA
* * *
43157934 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
43157959 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
43157984 GTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:43158052 original size:20 final size:20
Alignment explanation
Indices: 43158027--43158085 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
43158017 TAAATATGGT
43158027 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
43158047 ATGTATGAGATGCACATGAT
1 ATGTATGATATGCACATGAA
43158067 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43158086 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:43158163 original size:24 final size:24
Alignment explanation
Indices: 43158136--43158302 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
43158126 GAGGAAGTGA
43158136 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43158160 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43158184 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43158208 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
43158231 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
43158255 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
43158279 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43158303 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:43158253 original size:71 final size:71
Alignment explanation
Indices: 43158136--43158303 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
43158126 GAGGAAGTGA
43158136 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
43158201 AGTTATC
65 AGTTATC
** *
43158208 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
43158273 GTTATT
66 GTTATC
*
43158279 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
43158304 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:43158532 original size:31 final size:31
Alignment explanation
Indices: 43158494--43158557 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
43158484 CGTTTACAGT
*
43158494 AAAGGCTTCGTCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
43158525 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43158556 AA
1 AA
43158558 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43162904 original size:40 final size:39
Alignment explanation
Indices: 43162838--43162988 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
43162828 AAATTGAATG
* * *
43162838 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
43162877 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
43162917 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
43162957 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43162989 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:43163002 original size:40 final size:39
Alignment explanation
Indices: 43162875--43163004 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
43162865 ATGCTGGAAA
* *
43162875 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
43162915 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
43162955 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
43162995 TTATATCCGG
1 TTATATCCGG
43163005 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:43170895 original size:40 final size:39
Alignment explanation
Indices: 43170829--43170979 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
43170819 AAATTGAATG
* * *
43170829 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
43170868 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
43170908 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
43170948 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43170980 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:43170993 original size:40 final size:39
Alignment explanation
Indices: 43170866--43170995 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
43170856 ATGCTGGAAA
* *
43170866 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
43170906 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
43170946 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
43170986 TTATATCCGG
1 TTATATCCGG
43170996 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:43177315 original size:25 final size:25
Alignment explanation
Indices: 43177286--43177333 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43177276 TTATAATATG
* * *
43177286 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43177311 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43177334 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43177414 original size:20 final size:20
Alignment explanation
Indices: 43177377--43177434 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
43177367 TAAATATGGT
43177377 ATGTATGA-ATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
43177396 ATGTATGATATGCATATGAT
1 ATGTATGATATGCACATGAA
43177416 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43177435 GGTAATCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:43177512 original size:24 final size:24
Alignment explanation
Indices: 43177485--43177628 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
43177475 GAGGAAGTGA
43177485 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43177509 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43177533 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
43177557 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
43177581 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
43177605 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43177629 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
24 101 0.90
25 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:43177855 original size:31 final size:31
Alignment explanation
Indices: 43177820--43177883 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
43177810 CGTTTACAGT
43177820 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
43177851 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43177882 AA
1 AA
43177884 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43180000 original size:19 final size:20
Alignment explanation
Indices: 43179961--43180015 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
43179951 TTCTTGCCAA
43179961 AAAATAATT-AATTAT-TAT
1 AAAATAATTAAATTATGTAT
43179979 AAAATAATTAAATTATGT-T
1 AAAATAATTAAATTATGTAT
43179998 AAAA-ATATTAACATTATG
1 AAAATA-ATTAA-ATTATG
43180016 AATTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.30
19 16 0.48
20 7 0.21
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAATAATTAAATTATGTAT
Found at i:43180004 original size:20 final size:20
Alignment explanation
Indices: 43179960--43180015 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
43179950 ATTCTTGCCA
43179960 AAAAATAATT-AATTA--TT
1 AAAAATAATTAAATTATGTT
43179977 ATAAAATAATTAAATTATGTT
1 A-AAAATAATTAAATTATGTT
43179998 AAAAAT-ATTAACATTATG
1 AAAAATAATTAA-ATTATG
43180016 AATTTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 10 0.29
20 11 0.32
21 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
AAAAATAATTAAATTATGTT
Found at i:43194734 original size:18 final size:19
Alignment explanation
Indices: 43194711--43194747 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43194701 GAGTAAAAGG
*
43194711 AACGAG-AAATGGGCCAAA
1 AACGAGAAAATAGGCCAAA
43194729 AACGAGAAAATAGGCCAAA
1 AACGAGAAAATAGGCCAAA
43194748 GTACGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.54, C:0.16, G:0.24, T:0.05
Consensus pattern (19 bp):
AACGAGAAAATAGGCCAAA
Found at i:43201310 original size:27 final size:27
Alignment explanation
Indices: 43201245--43201423 Score: 254
Period size: 27 Copynumber: 6.7 Consensus size: 27
43201235 TTTGGTTTAC
43201245 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
43201271 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
43201298 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
43201325 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
43201352 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
43201379 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
43201406 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
43201424 TCGACCTGTA
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 14 0.10
27 123 0.89
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:43201366 original size:81 final size:80
Alignment explanation
Indices: 43201245--43201477 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 80
43201235 TTTGGTTTAC
* *
43201245 AAAATTACCAAAATACCCTGCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCTGATTTGTAAAATTATC-AAAATACCCTTGGTTTGTAAAATTACCAA
*
43201309 AATACCCCTAGTTTGT
65 AATACCCCTAATTTGT
* *
43201325 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATA-CCCTGA-TTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCA
43201389 AAATACCCCTAATTTGT
64 AAATACCCCTAATTTGT
* ** ** ** * **
43201406 GAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCT-GATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAA
*
43201471 AGTACCC
65 AATACCC
43201478 TCGATTTATA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 19 0.15
81 109 0.84
82 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:43201437 original size:27 final size:27
Alignment explanation
Indices: 43201407--43201481 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
43201397 CTAATTTGTG
43201407 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
43201434 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
43201461 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
43201482 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:43201493 original size:81 final size:81
Alignment explanation
Indices: 43201297--43201520 Score: 204
Period size: 81 Copynumber: 2.8 Consensus size: 81
43201287 CCTTGGTTTA
* * * ** * **
43201297 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTATC
1 TAAAATTACCAAAATACCCCTAATTTATGAAATTACTGAAATACCCTCGA-CCTGTAAAATTATC
* *
43201361 AAAATACCCCTAGTTTG
65 AAAATACCCCGAGCTTG
* **
43201378 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTATTG
1 TAAAATTACCAAAATACCCCTAATTTATGAAATTACTGAAATACCCTCGACCTGTAAAATTATCA
43201443 AAATACCCTCGA-CTTG
66 AAATACCC-CGAGCTTG
* * *** **
43201459 TAAAATTACCAAAGTA-CCCTCGATTTAT-AGAATTACTGTTTTACCCTCGATTTGTAAAATTA
1 TAAAATTACCAAAATACCCCT-AATTTATGA-AATTACTGAAATACCCTCGACCTGTAAAATTA
43201521 CCGTTTTACC
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.04
81 111 0.93
82 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTAATTTATGAAATTACTGAAATACCCTCGACCTGTAAAATTATCA
AAATACCCCGAGCTTG
Found at i:43201791 original size:27 final size:27
Alignment explanation
Indices: 43201473--43201790 Score: 424
Period size: 27 Copynumber: 11.8 Consensus size: 27
43201463 ATTACCAAAG
* *
43201473 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
43201500 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
43201527 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
43201554 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
43201581 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43201608 TACCC-CAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
43201634 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
43201661 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43201688 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43201715 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
43201742 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43201769 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43201791 TAAAATACCT
Statistics
Matches: 259, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.09
27 234 0.90
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:43203140 original size:20 final size:20
Alignment explanation
Indices: 43203115--43203177 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
43203105 ATTTTGATAA
43203115 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
43203135 ACATGACATGTGTGATATGC
1 ACATGATATGTATGATATGC
*
43203155 ACGTGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43203175 ACA
1 ACA
43203178 CGAGATGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43203288 original size:24 final size:23
Alignment explanation
Indices: 43203232--43203397 Score: 235
Period size: 23 Copynumber: 7.0 Consensus size: 23
43203222 GAGGAAGTGA
43203232 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43203255 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
43203278 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43203302 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43203326 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43203349 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
43203373 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43203397 A
1 A
43203398 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 63 0.48
24 57 0.44
25 10 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:43203348 original size:71 final size:70
Alignment explanation
Indices: 43203232--43203396 Score: 260
Period size: 71 Copynumber: 2.3 Consensus size: 70
43203222 GAGGAAGTGA
*
43203232 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCA
43203297 GTTATC
65 GTTATC
*
43203303 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
*
43203368 TTATT
66 TTATC
*
43203373 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
43203397 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
70 32 0.36
71 56 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
TTATC
Found at i:43203625 original size:31 final size:31
Alignment explanation
Indices: 43203590--43203653 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43203580 CGTTTACCGT
*
43203590 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43203621 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43203652 AA
1 AA
43203654 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43206484 original size:27 final size:25
Alignment explanation
Indices: 43206452--43206510 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
43206442 ATAAAACTTC
**
43206452 AAAATAACTTAAAATACTTAATAATT
1 AAAATAACTTAAAATAAATAATAA-T
* *
43206478 ATAAATAATTTAGAATAAATAATAAT
1 A-AAATAACTTAAAATAAATAATAAT
43206504 AAAATAA
1 AAAATAA
43206511 TAAGAGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 19 0.68
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATAACTTAAAATAAATAATAAT
Found at i:43206567 original size:33 final size:33
Alignment explanation
Indices: 43206525--43206592 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
43206515 AGATGATAAA
43206525 TACAATATTGGGATCATATAGTAAAATTAAGCC
1 TACAATATTGGGATCATATAGTAAAATTAAGCC
*
43206558 TACAATATTGGGATCATATATTAAAATTAAGCC
1 TACAATATTGGGATCATATAGTAAAATTAAGCC
43206591 TA
1 TA
43206593 AAACCTGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (33 bp):
TACAATATTGGGATCATATAGTAAAATTAAGCC
Found at i:43210226 original size:2 final size:2
Alignment explanation
Indices: 43210221--43210251 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43210211 AAGAAAAAAC
43210221 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 A
43210252 CAACAATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43212531 original size:2 final size:2
Alignment explanation
Indices: 43212524--43212565 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
43212514 TCTGACTTAT
43212524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43212566 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43225074 original size:116 final size:118
Alignment explanation
Indices: 43224822--43225085 Score: 446
Period size: 116 Copynumber: 2.2 Consensus size: 118
43224812 TATTCGGATG
* *
43224822 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
43224887 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGT-CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
43224941 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
43225005 ATTTGT-GAGTTACTATA-CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
64 ATTTGTCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43225057 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
43225086 AGCAAGTAGC
Statistics
Matches: 140, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
116 53 0.38
117 11 0.08
118 13 0.09
119 48 0.34
120 15 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (118 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:43225099 original size:40 final size:40
Alignment explanation
Indices: 43224822--43225085 Score: 441
Period size: 40 Copynumber: 6.7 Consensus size: 40
43224812 TATTCGGATG
* *
43224822 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
43224862 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
43224901 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43224941 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43224981 ATAACCGGGCTAAGTCCCGAAGGCATTTGT--GAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43225019 AT-ACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43225057 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
43225086 AGCAAGTAGC
Statistics
Matches: 213, Mismatches: 4, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
36 14 0.07
37 12 0.06
38 20 0.09
39 48 0.23
40 119 0.56
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:43234201 original size:40 final size:40
Alignment explanation
Indices: 43234146--43234389 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
43234136 TGGATGATAC
* * * *
43234146 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
43234186 CCGGGTTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* * *
43234226 CTGGGTTAAGACCTGAAGGCAATTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
43234266 CCGGGTTAAGACCCAAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
43234306 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
43234346 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43234386 CCGG
1 CCGG
43234390 CTAAATTCCG
Statistics
Matches: 181, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 179 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:43236578 original size:118 final size:118
Alignment explanation
Indices: 43236370--43236582 Score: 349
Period size: 118 Copynumber: 1.8 Consensus size: 118
43236360 TATTCGGATG
* * * *
43236370 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGAGCTAAGTCCCGAAGGCATTTGTACTAGTGACTAATACCGAGCTAAGCCCGAAGGCAT
43236435 TTGTGCGAGTTACTATATCCGGGCTAAGTCTTGAAGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCTTGAAGCATTTGTGCGAGTTACT
*
43236488 ATAACCGAGCTAAG-CCCGAAGGCATTTGTACTAGTTACT-ATAACCGAGCTAAGTCCCGAAGGC
1 ATAACCGAGCTAAGTCCCGAAGGCATTTGTACTAGTGACTAAT-ACCGAGCTAAG-CCCGAAGGC
43236551 ATTTGTGCGAGTTACTATATCCGGGCTAAGTC
64 ATTTGTGCGAGTTACTATATCCGGGCTAAGTC
43236583 CCGAAGGCAT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
116 2 0.02
117 32 0.36
118 54 0.61
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (118 bp):
ATAACCGAGCTAAGTCCCGAAGGCATTTGTACTAGTGACTAATACCGAGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATATCCGGGCTAAGTCTTGAAGCATTTGTGCGAGTTACT
Found at i:43236609 original size:40 final size:40
Alignment explanation
Indices: 43236374--43236628 Score: 324
Period size: 39 Copynumber: 6.5 Consensus size: 40
43236364 CGGATGATAA
* *
43236374 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
43236414 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
43236453 CCGGGCTAAGTCTTGAA-GCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
43236492 CCGAGCTAAG-CCCGAAGGCATTTGTACTAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43236531 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43236571 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43236611 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43236629 TACTTGGTTT
Statistics
Matches: 192, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.02
39 111 0.58
40 77 0.40
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43247230 original size:40 final size:39
Alignment explanation
Indices: 43247170--43247338 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 39
43247160 CAGAATTTAG
* ** *
43247170 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAT
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAAC
* *** * *
43247210 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAAC
*
43247250 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAAC
* * * *
43247290 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAAC
43247330 CCGGATATA
1 CCGGATATA
43247339 TTCACTAGCA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
40 105 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAAC
Found at i:43247314 original size:80 final size:78
Alignment explanation
Indices: 43247166--43247373 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 78
43247156 TCTTCAGAAT
* ** * ** *
43247166 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAATCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCAC
*
43247230 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGAC
* * *
43247245 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCAC
43247310 AAATGCCTTCGGGAC
64 AAATGCCTTCGGGAC
* * **
43247325 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGAACTTAGCCCGG
1 TTAGCCCGGATATA-ACACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
43247374 GTATTATTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.05
80 100 0.93
81 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAA
ATGCCTTCGGGAC
Found at i:43247344 original size:40 final size:40
Alignment explanation
Indices: 43247230--43247383 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 40
43247220 TAACTTGCAC
* * * *
43247230 AAATGCCTTCGGGTCTTAGCCCGGATATA-ACAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATATTC-ACTAGCAT
* * *
43247270 GAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATATTCACTAGCAT
43247310 AAATGCCTTCGGGACTTAGCCCGGATATATTCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATATTCACTAGCAT
* *
43247350 AAATGCCTTCGGAACTTAGCCCGGGTATTATTCA
1 AAATGCCTTCGGGACTTAGCCCGGATA-TATTCA
43247384 AATGCTCATG
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
40 96 0.93
41 7 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATATTCACTAGCAT
Found at i:43255399 original size:44 final size:43
Alignment explanation
Indices: 43255351--43255435 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 43
43255341 CGTAAGTTAG
*
43255351 ACTAGTTGCTTTAAAATTTAAACCCCTCCAGCAAAGTTCAAGAA
1 ACTAGTTGCTTTAAAATTTAAA-CCATCCAGCAAAGTTCAAGAA
*
43255395 ACTAGTTGCTTTAAAATTTTAACCATCCAGCAAAGTTCAAG
1 ACTAGTTGCTTTAAAATTTAAACCATCCAGCAAAGTTCAAG
43255436 GAAAGTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 18 0.46
44 21 0.54
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (43 bp):
ACTAGTTGCTTTAAAATTTAAACCATCCAGCAAAGTTCAAGAA
Found at i:43259320 original size:93 final size:93
Alignment explanation
Indices: 43259213--43259478 Score: 469
Period size: 93 Copynumber: 2.9 Consensus size: 93
43259203 CCCATAAGCT
* * * * *
43259213 AACTCGAACTCAACTCAACGAGCTCGGGCATTCTCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
43259278 GAGCTCGGATGCCCAGTTACATCTCTCG
66 GAGCTCGGATGCCCAGTTACATCTCTCG
43259306 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
43259371 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCCAGTTACATCTCTCG
43259399 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
43259464 GAGTTCGGATGCCCA
66 GAGCTCGGATGCCCA
43259479 AATATCTTAG
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCCAGTTACATCTCTCG
Found at i:43259472 original size:46 final size:46
Alignment explanation
Indices: 43259204--43259472 Score: 262
Period size: 46 Copynumber: 5.8 Consensus size: 46
43259194 TGTAACCCGC
* * *
43259204 CCATAAGCT-AACTCGAACTCAACTCAACGAGCTCGGGCATTCTCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
43259250 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA--T
* *** *
43259296 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43259343 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
43259389 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43259436 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43259473 TGCCCAAATA
Statistics
Matches: 182, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 9 0.05
45 1 0.01
46 97 0.53
47 64 0.35
49 9 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43261909 original size:15 final size:15
Alignment explanation
Indices: 43261870--43261910 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
43261860 AACAAGAAAA
* *
43261870 CAGAATAAAAAAATC
1 CAGAATAAAGAGATC
43261885 CAGAATAAAGAGATC
1 CAGAATAAAGAGATC
*
43261900 CAGGATAAAGA
1 CAGAATAAAGA
43261911 AACTCAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.12
Consensus pattern (15 bp):
CAGAATAAAGAGATC
Found at i:43264930 original size:93 final size:93
Alignment explanation
Indices: 43264823--43265086 Score: 438
Period size: 93 Copynumber: 2.8 Consensus size: 93
43264813 CCCATAAGCT
* * * * *
43264823 AACTCGAACTCAACTCAACGAGCTCGGGCATTCTCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
43264888 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAATTACATCTCTCG
*
43264916 AACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
43264981 GAGCTTGGATGCCTAATTACATCTCTCG
66 GAGCTCGGATGCCTAATTACATCTCTCG
*
43265009 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
43265074 GAGTTCGGATGCC
66 GAGCTCGGATGCC
43265087 CAAATATCCT
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAATTACATCTCTCG
Found at i:43264934 original size:47 final size:46
Alignment explanation
Indices: 43264868--43265036 Score: 191
Period size: 47 Copynumber: 3.6 Consensus size: 46
43264858 ATCCACAAGT
43264868 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTA-TTACATCTCTC
* * * * ***
43264915 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGC-A-TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTATTACATCTCTC
*
43264961 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAATTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCT-ATTACATCTCTC
*
43265008 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
43265037 CATTCGCATC
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 30 0.31
47 58 0.59
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTATTACATCTCTC
Found at i:43265082 original size:46 final size:45
Alignment explanation
Indices: 43264814--43265082 Score: 226
Period size: 46 Copynumber: 5.8 Consensus size: 45
43264804 TGTAACCTGC
* * *
43264814 CCATAAGCT-AACTCGAACTCAACTCAACGAGCTCGGGCATTCTCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGACATTC-CAT
* * *
43264860 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCC-A--T
* *** *
43264906 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTC-CAT
*
43264953 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--ATGCCTAATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCC--A-T
* ***
43264999 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTC-CAT
*
43265046 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43265083 TGCCCAAATA
Statistics
Matches: 179, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 2 0.01
46 95 0.53
47 63 0.35
48 1 0.01
49 7 0.04
50 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCCAT
Found at i:43267848 original size:17 final size:17
Alignment explanation
Indices: 43267826--43267860 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43267816 AGAACTAAAG
*
43267826 AAAACTGTAGATTTTCC
1 AAAACTATAGATTTTCC
43267843 AAAACTATAGATTTTCC
1 AAAACTATAGATTTTCC
43267860 A
1 A
43267861 TAGTTGACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (17 bp):
AAAACTATAGATTTTCC
Found at i:43270079 original size:30 final size:30
Alignment explanation
Indices: 43270043--43270173 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
43270033 GACAAGATTG
* * * * *
43270043 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
43270073 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
43270101 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43270131 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43270160 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43270174 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:43270134 original size:58 final size:58
Alignment explanation
Indices: 43270043--43270173 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
43270033 GACAAGATTG
* * * * * *
43270043 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
43270101 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
43270160 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43270174 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:43270556 original size:49 final size:53
Alignment explanation
Indices: 43270499--43270603 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
43270489 AGTCGTTTGT
43270499 GTACATGTTGTAGT-AATTTA-T-TGGATTGACGAATGCTTATGA-TTACTGA
1 GTACATGTTGTAGTGAATTTATTATGGATTGACGAATGCTTATGACTTACTGA
* *
43270548 GTACATGTTGTAGTGACTTTATTAGTGGATTGATGAATGCTTATGACTTACTGA
1 GTACATGTTGTAGTGAATTTATTA-TGGATTGACGAATGCTTATGACTTACTGA
43270602 GT
1 GT
43270604 TGTAAACTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
49 14 0.29
50 5 0.10
51 1 0.02
53 20 0.41
54 9 0.18
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.41
Consensus pattern (53 bp):
GTACATGTTGTAGTGAATTTATTATGGATTGACGAATGCTTATGACTTACTGA
Found at i:43277787 original size:29 final size:30
Alignment explanation
Indices: 43277696--43277824 Score: 160
Period size: 29 Copynumber: 4.5 Consensus size: 30
43277686 GACAAGATTG
* * * * *
43277696 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTCTGAAATTATATA
*
43277726 G-ACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAGTCTGAAATTATATA
43277753 GCACTAAGTGTGCGAG-CTGAAATTATATA
1 GCACTAAGTGTGCGAGTCTGAAATTATATA
*
43277782 GCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTGAAATTATATA
43277811 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43277825 GATTCACTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
27 9 0.10
28 14 0.16
29 66 0.73
30 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTCTGAAATTATATA
Found at i:43277788 original size:57 final size:57
Alignment explanation
Indices: 43277696--43277824 Score: 154
Period size: 57 Copynumber: 2.2 Consensus size: 57
43277686 GACAAGATTG
* * * * *
43277696 GCACTAAGTGTGCGGGTTTAAAATTGTACAGACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGTCTAAAATTATACAGACTAAGTGTGCGAG-CTGAAATATATA
* *
43277753 GCACTAAGTGTGCGAG-CTGAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAATTATACAG-ACTAAGTGTGCGAGCTG-AAATATATA
43277811 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43277825 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 12 0.19
57 29 0.47
58 21 0.34
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTCTAAAATTATACAGACTAAGTGTGCGAGCTGAAATATATA
Found at i:43287340 original size:43 final size:43
Alignment explanation
Indices: 43287290--43287440 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
43287280 TATCCTAGAT
* * *
43287290 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
43287333 AGGGTCTTACACGTAATTGA-TTAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAA-TCACATATCGATGCCAATGTCCCAGAC
* * *
43287376 ATGGTCATACACATAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
43287419 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
43287441 CTTGATAACC
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.04
43 80 0.94
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:43291795 original size:39 final size:40
Alignment explanation
Indices: 43291695--43291861 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
43291685 TCGAATGATG
* * *
43291695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
43291735 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
43291775 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
43291814 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
43291855 -CCGGGCT
1 TCCGGGCT
43291862 TCTTCCTAAG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
39 33 0.32
40 62 0.60
41 9 0.09
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:43291835 original size:79 final size:80
Alignment explanation
Indices: 43291695--43291846 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
43291685 TCGAATGATG
* * *
43291695 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
43291760 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
43291775 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
43291837 TCGTGCGAGT
64 TCGTGCGAGT
43291847 CACTATAACC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.02
79 45 0.70
80 18 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:43293842 original size:20 final size:20
Alignment explanation
Indices: 43293804--43293851 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
43293794 TAAATTCTAA
* **
43293804 AAAGATAAATATATTTAATT
1 AAAGATAAATAAAGATAATT
43293824 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
43293844 AAA-ATAAA
1 AAAGATAAA
43293852 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:43300663 original size:63 final size:63
Alignment explanation
Indices: 43300587--43300744 Score: 158
Period size: 63 Copynumber: 2.5 Consensus size: 63
43300577 GATGCCAGAT
** * *
43300587 TCACACGGCTGAGACACATGGGCGTGTGTGTAGGCCGTGTAACTTACTAAGTTCATATTAGAG
1 TCACACGGCTGAGACACACAGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCATATTAGAG
* ** * * * *
43300650 TCACACGAG-TGAGACATACAGGCGTGTGTCTAGGTTGTGTGACTCACTGAGTTTATATTTGAG
1 TCACACG-GCTGAGACACACAGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCATATTAGAG
* * * *
43300713 ACACACGGGTAAGGCACACAGGCGTGTG-CTAG
1 TCACACGGCTGAGACACACAGGCGTGTGTCTAG
43300745 ACCATATGGG
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
62 5 0.06
63 72 0.92
64 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (63 bp):
TCACACGGCTGAGACACACAGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCATATTAGAG
Found at i:43302770 original size:49 final size:50
Alignment explanation
Indices: 43302703--43302949 Score: 302
Period size: 49 Copynumber: 5.0 Consensus size: 50
43302693 AGCTATTGTG
* *
43302703 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
43302753 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * *
43302803 CA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* *
43302853 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
43302903 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGGGTACTAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
43302950 CTTCGGCTAC
Statistics
Matches: 165, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
49 82 0.50
50 46 0.28
51 37 0.22
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:43303225 original size:11 final size:11
Alignment explanation
Indices: 43303209--43303238 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43303199 ACATGAATTT
43303209 GAAAATTTACC
1 GAAAATTTACC
43303220 GAAAATTTACC
1 GAAAATTTACC
*
43303231 AAAAATTT
1 GAAAATTT
43303239 TGGAAGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (11 bp):
GAAAATTTACC
Found at i:43303960 original size:13 final size:13
Alignment explanation
Indices: 43303942--43303969 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43303932 CTTGACAGTA
43303942 TAAACACATATGC
1 TAAACACATATGC
43303955 TAAACACATATGC
1 TAAACACATATGC
43303968 TA
1 TA
43303970 GAATTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (13 bp):
TAAACACATATGC
Found at i:43306802 original size:19 final size:19
Alignment explanation
Indices: 43306778--43306821 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
43306768 GTAAAAGTAA
43306778 AGTGTGAGCTAACAAGCTC
1 AGTGTGAGCTAACAAGCTC
*
43306797 AGTGTGAGCTAATAAGCTC
1 AGTGTGAGCTAACAAGCTC
43306816 AGTGTG
1 AGTGTG
43306822 TGTAACTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (19 bp):
AGTGTGAGCTAACAAGCTC
Done.