Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 123 of 433
Found at i:37574974 original size:5 final size:5
Alignment explanation
Indices: 37574962--37575004 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
37574952 TGCTTCTGAA
37574962 ATGA- ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
37575005 ACTGATCTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (5 bp):
ATGAT
Found at i:37582054 original size:31 final size:30
Alignment explanation
Indices: 37582012--37582097 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 30
37582002 GATTAAATTA
*
37582012 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * *
37582042 ATAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
* * *
37582073 AAATTAAAATTT-ATGTATACAATTG
1 AAATTAAAGTTTCAAGTATATAATTG
37582098 CTCATTAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.24
30 10 0.22
31 25 0.54
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:37584538 original size:32 final size:32
Alignment explanation
Indices: 37584493--37584564 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
37584483 TCTTCAGTCT
*
37584493 TTTTTTTAATTATTTA-ATAAT-ATTTCAGTAA
1 TTTTTTTAATTATTGACA-AATGATTTCAGTAA
* * *
37584524 TTTTTTTATGTTATTGACACATGATTTTAGTAA
1 TTTTTTTA-ATTATTGACAAATGATTTCAGTAA
37584557 TTTTTTTA
1 TTTTTTTA
37584565 GCTTTATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 8 0.24
33 18 0.53
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (32 bp):
TTTTTTTAATTATTGACAAATGATTTCAGTAA
Found at i:37585690 original size:2 final size:2
Alignment explanation
Indices: 37585683--37585708 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37585673 TTGGTTCAAT
37585683 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
37585709 CATAATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37587256 original size:27 final size:29
Alignment explanation
Indices: 37587199--37587261 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
37587189 ACTAACAGGG
*
37587199 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
37587228 TATACTATATATATATAAT-AT-TT-GAAA
1 TATAC-ATATATATATAATGATATTAGAAA
37587255 TATACAT
1 TATACAT
37587262 GAAGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 9 0.28
28 2 0.06
29 7 0.22
30 12 0.38
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:37587594 original size:21 final size:21
Alignment explanation
Indices: 37587564--37587603 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37587554 ATTAATAATA
37587564 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
37587585 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
37587604 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:37587676 original size:3 final size:3
Alignment explanation
Indices: 37587662--37587789 Score: 117
Period size: 3 Copynumber: 43.7 Consensus size: 3
37587652 TACATAACAT
*
37587662 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CAT- ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA ATA
* * *
37587706 A-A ACA A-A ACA TATA CTA -TA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
37587749 ATA ATA ATA ATA ATA ATA ATA AGG ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
37587790 GTAAAAAAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
2 14 0.13
3 82 0.77
4 10 0.09
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:37595069 original size:2 final size:2
Alignment explanation
Indices: 37595064--37595098 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37595054 TTTTTTTTAA
37595064 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
37595099 AAAGAGTCCT
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:37595892 original size:2 final size:2
Alignment explanation
Indices: 37595839--37595880 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
37595829 AAAAATGAGA
*
37595839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37595881 CCTTTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37598978 original size:16 final size:16
Alignment explanation
Indices: 37598954--37598990 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
37598944 CCATGTCCTA
*
37598954 GACATGGTCTTACACT
1 GACACGGTCTTACACT
37598970 GACACGGTCTTACACT
1 GACACGGTCTTACACT
37598986 GACAC
1 GACAC
37598991 ATCTTGCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (16 bp):
GACACGGTCTTACACT
Found at i:37599056 original size:46 final size:45
Alignment explanation
Indices: 37598999--37599126 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 45
37598989 ACATCTTGCA
* *
37598999 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGAAGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCAAG
* * *
37599045 GCCGAAGCATGTCCCA-AGCATGTCTTACACTAGCCTCGTCTCAAT
1 GCCGAAGCATGTCCCAGA-CATGTCTTACACTGGCTTCGTCTCAAG
* * * *
37599090 TCTGATACCATGTCCCGGACATGGTCTTACACTGGCT
1 GCCGA-AGCATGTCCCAGACAT-GTCTTACACTGGCT
37599127 CTCAAAATGT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 11 0.16
46 43 0.64
47 13 0.19
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (45 bp):
GCCGAAGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCAAG
Found at i:37602772 original size:16 final size:16
Alignment explanation
Indices: 37602753--37602807 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
37602743 TGGAATGGGA
* *
37602753 CTGTAATTGCATAGGG
1 CTGTAATTGAATAGAG
37602769 CTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
37602785 CTGTAA-TGAAATAGAG
1 CTGTAATTG-AATAGAG
37602801 CTGTAAT
1 CTGTAAT
37602808 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
15 2 0.06
16 33 0.94
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:37603077 original size:17 final size:17
Alignment explanation
Indices: 37603055--37603087 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37603045 AATTATTATT
37603055 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
37603072 AAATATAATTTAATAA
1 AAATATAATTTAATAA
37603088 CATTCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:37607407 original size:32 final size:32
Alignment explanation
Indices: 37607366--37607428 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
37607356 TTGCAATTTG
37607366 TTTTATATTTGCCCTTGGCCTTTACATCTATA
1 TTTTATATTTGCCCTTGGCCTTTACATCTATA
*
37607398 TTTTATATTTTCCCTTGGCCTTTACATCTAT
1 TTTTATATTTGCCCTTGGCCTTTACATCTAT
37607429 CTCATCATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.22, G:0.08, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTGGCCTTTACATCTATA
Found at i:37607650 original size:12 final size:12
Alignment explanation
Indices: 37607633--37607658 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37607623 AGATTTATGT
37607633 AAAACAATACCC
1 AAAACAATACCC
37607645 AAAACAATACCC
1 AAAACAATACCC
37607657 AA
1 AA
37607659 TAATTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAACAATACCC
Found at i:37611935 original size:16 final size:15
Alignment explanation
Indices: 37611914--37611961 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
37611904 GATGTGAATA
37611914 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
37611930 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
37611945 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
37611961 A
1 A
37611962 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:37611937 original size:24 final size:24
Alignment explanation
Indices: 37611910--37611965 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
37611900 TAATGATGTG
*
37611910 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
37611934 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
37611958 AATAATAA
1 AATAATAA
37611966 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:37611944 original size:8 final size:8
Alignment explanation
Indices: 37611910--37611961 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
37611900 TAATGATGTG
*
37611910 AATAATAA
1 AATATTAA
37611918 AATATATAA
1 AATAT-TAA
37611927 AATA-TAA
1 AATATTAA
37611934 AATATTAA
1 AATATTAA
*
37611942 AATATCAA
1 AATATTAA
*
37611950 AATATTAG
1 AATATTAA
37611958 AATA
1 AATA
37611962 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:37612021 original size:2 final size:2
Alignment explanation
Indices: 37612016--37612049 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37612006 AATGTACATA
37612016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37612050 TAGAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37612201 original size:22 final size:24
Alignment explanation
Indices: 37612138--37612202 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
37612128 CGTGATAATA
*
37612138 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
37612163 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
37612186 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
37612203 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:37612222 original size:2 final size:2
Alignment explanation
Indices: 37612215--37612307 Score: 88
Period size: 2 Copynumber: 48.5 Consensus size: 2
37612205 TAACATGTAA
*
37612215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
37612256 AT AT A- AT AT -T AA AG AT AT AT AC AT A- AA AT AGT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
37612295 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
37612308 CGTAATATAG
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
1 5 0.07
2 69 0.91
3 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:37612304 original size:56 final size:55
Alignment explanation
Indices: 37612237--37612362 Score: 141
Period size: 56 Copynumber: 2.3 Consensus size: 55
37612227 ATATATATAT
*
37612237 ATATATATATATATAAATAATATA-ATATTAAAGATATATACATAAAATAGTATAA-A
1 ATATATATATATATAAATAATATAGA-ATTAAA-A-ATATACATAAAATAGTAAAAGA
** * * * *
37612293 ATATATATATATATACGTAATATAGAATTTAAAATATACCTAATATATTAAAAGA
1 ATATATATATATATAAATAATATAGAATTAAAAATATACATAAAATAGTAAAAGA
37612348 ATATATATA-ATATAA
1 ATATATATATATATAA
37612363 TATTAAGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
54 21 0.35
55 11 0.18
56 27 0.45
57 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (55 bp):
ATATATATATATATAAATAATATAGAATTAAAAATATACATAAAATAGTAAAAGA
Found at i:37612380 original size:23 final size:25
Alignment explanation
Indices: 37612337--37612382 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37612327 TATACCTAAT
37612337 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
37612362 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
37612383 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:37612913 original size:30 final size:30
Alignment explanation
Indices: 37612877--37612961 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
37612867 TAGGTACAAG
*
37612877 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
37612907 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
37612937 TGGTGGTGGAAAAGGAGCGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
37612962 TGAGAAAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.20, C:0.05, G:0.51, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:37621206 original size:34 final size:34
Alignment explanation
Indices: 37621155--37621317 Score: 177
Period size: 34 Copynumber: 4.8 Consensus size: 34
37621145 TCTGTTTGCA
* * *
37621155 TACTGTTATTGTCATGGGCTTAGGCCCAGACTAC
1 TACTGTTACTGTAATGGGCTTAGGCCCAGACTGC
*
37621189 TACTGTTACTGTAATGGGCTTAGGCCCAGATTGC
1 TACTGTTACTGTAATGGGCTTAGGCCCAGACTGC
*
37621223 TACTGTTACTGTAATGGGCTCAGGCCCAGACTGC
1 TACTGTTACTGTAATGGGCTTAGGCCCAGACTGC
* * * * * *
37621257 TACTATTACTGCAACGGGCTCAGACCCATA-TCGC
1 TACTGTTACTGTAATGGGCTTAGGCCCAGACT-GC
* * *
37621291 TACTGTTATTG-AAAGGGCTTAGACCCA
1 TACTGTTACTGTAATGGGCTTAGGCCCA
37621318 AATTGTGCTT
Statistics
Matches: 113, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
33 15 0.13
34 98 0.87
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (34 bp):
TACTGTTACTGTAATGGGCTTAGGCCCAGACTGC
Found at i:37623943 original size:19 final size:20
Alignment explanation
Indices: 37623906--37623943 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
37623896 GCTTATATAG
*
37623906 AAAGATAAATGAGACTTAAT
1 AAAGATAAATGAGAATTAAT
*
37623926 AAAGA-AAATGTGAATTAA
1 AAAGATAAATGAGAATTAA
37623944 CATAGATGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.24
Consensus pattern (20 bp):
AAAGATAAATGAGAATTAAT
Found at i:37626446 original size:27 final size:27
Alignment explanation
Indices: 37626408--37626462 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
37626398 AACTCGAGAG
37626408 AAAGGCGATGCTACCATTGTCATAGCA
1 AAAGGCGATGCTACCATTGTCATAGCA
*
37626435 AAAGGCTATGCTACCATTGTCATAGCA
1 AAAGGCGATGCTACCATTGTCATAGCA
37626462 A
1 A
37626463 GTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAGGCGATGCTACCATTGTCATAGCA
Found at i:37627488 original size:18 final size:18
Alignment explanation
Indices: 37627457--37627494 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
37627447 ATAAGGGAGA
37627457 TTCTTTCCTCTCATACCT
1 TTCTTTCCTCTCATACCT
*
37627475 TTCTCTTCCT-TCATTCCT
1 TTCT-TTCCTCTCATACCT
37627493 TT
1 TT
37627495 ATTATCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.08, C:0.37, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCTTTCCTCTCATACCT
Found at i:37628971 original size:17 final size:17
Alignment explanation
Indices: 37628946--37628979 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37628936 CCTAGAGAAA
37628946 ATTTCAGAATCATGGGC
1 ATTTCAGAATCATGGGC
*
37628963 ATTTTAGAATCATGGGC
1 ATTTCAGAATCATGGGC
37628980 CTACAAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (17 bp):
ATTTCAGAATCATGGGC
Found at i:37637823 original size:35 final size:36
Alignment explanation
Indices: 37637753--37637947 Score: 134
Period size: 36 Copynumber: 5.5 Consensus size: 36
37637743 ACAACCCCAA
* * * *
37637753 AAAAAGGTTGGAATAAAGCATTCATATGCTAACTTTT
1 AAAAAGGTTGGGATAGACCATT-TTATGCTAACTTTT
* * *
37637790 AAAGA-GTTAGGATAGACCATTTTATGCTAACTTTA
1 AAAAAGGTTGGGATAGACCATTTTATGCTAACTTTT
* * * *
37637825 AAAAAGGTTGGGATAGGCCATCTAAGGC-AAC-TTT
1 AAAAAGGTTGGGATAGACCATTTTATGCTAACTTTT
* * *
37637859 AAAAAGGTTGGGATAGACCATTGTATG-TCAACATTA
1 AAAAAGGTTGGGATAGACCATTTTATGCT-AACTTTT
** * * *
37637895 AAAAAATTTGAGATAGACTC-TTCTAAGGC-AACTTTT
1 AAAAAGGTTGGGATAGAC-CATT-TTATGCTAACTTTT
37637931 -AAAAGGTTGGGATAGAC
1 AAAAAGGTTGGGATAGAC
37637948 TCCTCTAAGG
Statistics
Matches: 120, Mismatches: 31, Indels: 16
0.72 0.19 0.10
Matches are distributed among these distances:
34 24 0.20
35 36 0.30
36 53 0.44
37 7 0.06
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
AAAAAGGTTGGGATAGACCATTTTATGCTAACTTTT
Found at i:37637935 original size:71 final size:70
Alignment explanation
Indices: 37637783--37637947 Score: 208
Period size: 70 Copynumber: 2.3 Consensus size: 70
37637773 TTCATATGCT
* * * * * *
37637783 AACTTTT-AAAGAGTTAGGATAGACCATTTTATGCTAACTTTAAAAAAGGTTGGGATAGGCCATC
1 AACTTTTAAAAG-GTTGGGATAGACCATTGTATGCTAACATTAAAAAAAGTTGAGATAGACCATC
37637847 TAAGGC
65 TAAGGC
* * *
37637853 AACTTTAAAAAGGTTGGGATAGACCATTGTATG-TCAACATTAAAAAAATTTGAGATAGACTCTT
1 AACTTTTAAAAGGTTGGGATAGACCATTGTATGCT-AACATTAAAAAAAGTTGAGATAGAC-CAT
37637917 CTAAGGC
64 CTAAGGC
37637924 AACTTTTAAAAGGTTGGGATAGAC
1 AACTTTTAAAAGGTTGGGATAGAC
37637948 TCCTCTAAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 1 0.01
70 45 0.55
71 36 0.44
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (70 bp):
AACTTTTAAAAGGTTGGGATAGACCATTGTATGCTAACATTAAAAAAAGTTGAGATAGACCATCT
AAGGC
Found at i:37637948 original size:35 final size:34
Alignment explanation
Indices: 37637818--37637982 Score: 159
Period size: 35 Copynumber: 4.7 Consensus size: 34
37637808 ATTTTATGCT
* *
37637818 AACTTTAAAAAAGGTTGGGATAGGCCATCTAAGGC
1 AACTTT-AAAAAGGTTGGGATAGACCTTCTAAGGC
* * *
37637853 AACTTTAAAAAGGTTGGGATAGACCATTGTATGTC
1 AACTTTAAAAAGGTTGGGATAGACC-TTCTAAGGC
* ** *
37637888 AACATTAAAAAAATTTGAGATAGACTCTTCTAAGGC
1 AAC-TTTAAAAAGGTTGGGATAGAC-CTTCTAAGGC
* * *
37637924 AACTTTTAAAAGGTTGGGATAGACTCCTCTAAGGA
1 AACTTTAAAAAGGTTGGGATAGAC-CTTCTAAGGC
* *
37637959 AAATTTTAAAAGGTTGGGATAGAC
1 AACTTTAAAAAGGTTGGGATAGAC
37637983 GTTATCTGCG
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
34 18 0.17
35 62 0.58
36 26 0.24
37 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (34 bp):
AACTTTAAAAAGGTTGGGATAGACCTTCTAAGGC
Found at i:37640292 original size:125 final size:126
Alignment explanation
Indices: 37640083--37640318 Score: 334
Period size: 125 Copynumber: 1.9 Consensus size: 126
37640073 AGCATAGTGT
37640083 TGGAAAAAGCCGAATCTTATTTAAGTGTTACGTTAGACATGCATATCTCAACCCTTACACAAAGA
1 TGGAAAAAGCCGAATCTTATTTAAGTGTTACGTTAGACATGCATATCTCAACCCTTACACAAAGA
*
37640148 GTTGGCCAAAGCGTATGTCGACAAGTCTATCC-AACACTTAGGAAAGTGTCAGTATAATGC
66 GTTGGCCAAAGCGTATGTCGACAAGTCTATCCAAACACTAAGGAAAGTGTCAGTATAATGC
* * * * * * *
37640208 TGGAATAATCCGAATCTTATTTAAGTGTTGCTTTAGGCATGCATAT-TACAACTCTTATACAATA
1 TGGAAAAAGCCGAATCTTATTTAAGTGTTACGTTAGACATGCATATCT-CAACCCTTACACAA-A
* * *
37640272 -AGTTGGCTAAAGTGTATGTCGGCAAGTCTATCCAAACACTAAGGAAA
64 GAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCAAACACTAAGGAAA
37640319 TTTTCGGCCC
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
124 1 0.01
125 83 0.86
126 13 0.13
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (126 bp):
TGGAAAAAGCCGAATCTTATTTAAGTGTTACGTTAGACATGCATATCTCAACCCTTACACAAAGA
GTTGGCCAAAGCGTATGTCGACAAGTCTATCCAAACACTAAGGAAAGTGTCAGTATAATGC
Found at i:37640592 original size:135 final size:135
Alignment explanation
Indices: 37640217--37640608 Score: 396
Period size: 137 Copynumber: 2.9 Consensus size: 135
37640207 CTGGAATAAT
* * * * * * * *
37640217 CCGAATCTTATTTAAGTGTTGCTTTAGGCATGCATATTACAACTCTTATACAATAAGTTGGCTAA
1 CCGAATCTTATTTAAGTGTTACCTTACGCATG-ATA-TCCAACCCTTATACAAAAACTT-GCCAA
** * * * * *
37640282 AGTGTATGTCGGCAAGTCTATCCAAACACTAAGGAAATTTTCGGCCCAAAAGTGTCAGTAGTATT
63 AGTGTATGTTTGCAAATCTATCCCAACACTAAGGAAAGTGTCGACCCAAAAGTGTCAGTAGTATT
*
37640347 GGATAAAG
128 GGACAAAG
* * *
37640355 CCGAATCTTATTTAAGTGTTTCCTTACGCATGCATATCCCAACCCTTATACAAAAAGTTGCCGAA
1 CCGAATCTTATTTAAGTGTTACCTTACGCATG-ATAT-CCAACCCTTATACAAAAACTTGCCAAA
* *
37640420 GTGTATGTTTGCAAATCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGTCAGCATAGTGT
64 GTGTATGTTTGCAAATCTATCCCAACACTAAGGAAAGTGTCGACCCAAAAGTGTCAG--TAGTAT
37640485 TGGACAAAG
127 TGGACAAAG
* * * * * *
37640494 TCGACTCTTATTTAAGTGTTACCTTAGGCATG-TAT-C-TCCTTTATACAAAGACTTGGCCAAAG
1 CCGAATCTTATTTAAGTGTTACCTTACGCATGATATCCAACCCTTATACAAAAACTT-GCCAAAG
* * * *
37640556 TTTATGTTTGTAAATCTATCCCAACACTCAGAAAAGTGTC-AGCCCAAAAGTGT
65 TGTATGTTTGCAAATCTATCCCAACACTAAGGAAAGTGTCGA-CCCAAAAGTGT
37640609 TGTCTTAGGA
Statistics
Matches: 218, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
134 15 0.07
135 54 0.25
137 57 0.26
138 51 0.23
139 41 0.19
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (135 bp):
CCGAATCTTATTTAAGTGTTACCTTACGCATGATATCCAACCCTTATACAAAAACTTGCCAAAGT
GTATGTTTGCAAATCTATCCCAACACTAAGGAAAGTGTCGACCCAAAAGTGTCAGTAGTATTGGA
CAAAG
Found at i:37642139 original size:71 final size:68
Alignment explanation
Indices: 37642050--37642181 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 68
37642040 CTAGCCATTT
* *
37642050 TATCTCGTACCTCTCTTGT-CTACATGGTGTCCTTCACCTGGAACCACACATGTGACCTAGCTAC
1 TATCTCGTACCTCTCTTGTAC-ACATGATG---TGCACCTGGAACCACACATGTGACCTAGCTAC
37642114 CACATAG
62 CACATAG
* * * *
37642121 TATCTCGTAGCTCTCTTGTACACATGATGTGCACTTGGCACCATACATGTGACCTAGCTAC
1 TATCTCGTACCTCTCTTGTACACATGATGTGCACCTGGAACCACACATGTGACCTAGCTAC
37642182 ATACCATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 28 0.52
71 25 0.46
72 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (68 bp):
TATCTCGTACCTCTCTTGTACACATGATGTGCACCTGGAACCACACATGTGACCTAGCTACCACA
TAG
Found at i:37642344 original size:12 final size:12
Alignment explanation
Indices: 37642329--37642354 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37642319 TAAATAAAGA
37642329 TAATTTATTATT
1 TAATTTATTATT
37642341 TAATTTATTATT
1 TAATTTATTATT
37642353 TA
1 TA
37642355 CATACAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAATTTATTATT
Found at i:37647155 original size:35 final size:35
Alignment explanation
Indices: 37647109--37647254 Score: 137
Period size: 35 Copynumber: 4.3 Consensus size: 35
37647099 ACTCCCTGTT
*
37647109 TTGGTGTGTTTC-GATTGGATTAGCTCTTCTGAGCA
1 TTGGTGTGTTTCAGA-TGGATTAGCTCTTTTGAGCA
* *
37647144 TTGGTGTGTTTCGGATGGATTATCTCTTTTGAG--
1 TTGGTGTGTTTCAGATGGATTAGCTCTTTTGAGCA
* *
37647177 -TGTTG-GTGT--GATGGATTAGCTCTTTTGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTTTGAGCA
**
37647208 TTGGAATGTTTCAGATGGATTAGCT-TTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTT-TGAGCA
*
37647243 TCTGTTGTGTTT
1 T-TGGTGTGTTT
37647255 GGTTGGAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
29 19 0.21
31 3 0.03
32 6 0.07
33 3 0.03
34 3 0.03
35 47 0.52
36 9 0.10
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.45
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTTTGAGCA
Found at i:37649242 original size:7 final size:7
Alignment explanation
Indices: 37649230--37649294 Score: 73
Period size: 7 Copynumber: 9.3 Consensus size: 7
37649220 GATAAATTTT
37649230 TATATTA
1 TATATTA
37649237 TATATTA
1 TATATTA
37649244 TAATATTA
1 T-ATATTA
37649252 TATATTA
1 TATATTA
37649259 -ATCATTA
1 TAT-ATTA
37649266 -AGTA-TA
1 TA-TATTA
*
37649272 TATATTT
1 TATATTA
37649279 TATATTA
1 TATATTA
37649286 TATATTA
1 TATATTA
37649293 TA
1 TA
37649295 ATAAATAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
6 6 0.12
7 37 0.73
8 8 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (7 bp):
TATATTA
Found at i:37649309 original size:13 final size:13
Alignment explanation
Indices: 37649291--37649316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37649281 TATTATATAT
37649291 TATAATAAATAAA
1 TATAATAAATAAA
37649304 TATAATAAATAAA
1 TATAATAAATAAA
37649317 AGAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATAATAAATAAA
Found at i:37649350 original size:15 final size:16
Alignment explanation
Indices: 37649330--37649359 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37649320 AACAAAAAGA
37649330 AATAGAAA-GAAACAT
1 AATAGAAACGAAACAT
37649345 AATAGAAACGAAACA
1 AATAGAAACGAAACA
37649360 CGAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (16 bp):
AATAGAAACGAAACAT
Found at i:37650384 original size:40 final size:40
Alignment explanation
Indices: 37650265--37650402 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
37650255 CTTCGAGTTA
* *
37650265 ATAAGACACTGGGTGTCAATTTACTACTTCAGATTAATTCG
1 ATAAGACACTGGGTGTCAAATTACTACTTCAGATT-ATCCG
* * * * * *
37650306 ATGAGGCACTGGGTG-CCAATT--TACTTCGGTTTAGCCG
1 ATAAGACACTGGGTGTCAAATTACTACTTCAGATTATCCG
* *
37650343 ATAAGACATTGGGTGTCAAATTACTACTTCAAATTATCCG
1 ATAAGACACTGGGTGTCAAATTACTACTTCAGATTATCCG
* * *
37650383 ATGAGGCACTGGGTGCCAAA
1 ATAAGACACTGGGTGTCAAA
37650403 CTGGTTTGTT
Statistics
Matches: 74, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 15 0.20
38 14 0.19
40 32 0.43
41 13 0.18
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (40 bp):
ATAAGACACTGGGTGTCAAATTACTACTTCAGATTATCCG
Found at i:37651246 original size:18 final size:18
Alignment explanation
Indices: 37651220--37651262 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
37651210 AAAAGCTGTT
*
37651220 TTTACATATATTAACAAA
1 TTTATATATATTAACAAA
*
37651238 TTTATATATATTAATAAA
1 TTTATATATATTAACAAA
37651256 TTTATAT
1 TTTATAT
37651263 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATATATATTAACAAA
Found at i:37651267 original size:16 final size:16
Alignment explanation
Indices: 37651225--37651267 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
37651215 CTGTTTTTAC
*
37651225 ATATATTAACAAATTT
1 ATATTTTAACAAATTT
*
37651241 ATATATATTAATAAATTT
1 ATAT-T-TTAACAAATTT
37651259 ATATTTTAA
1 ATATTTTAA
37651268 ATTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTTAACAAATTT
Found at i:37653207 original size:21 final size:21
Alignment explanation
Indices: 37653181--37653220 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37653171 GGACTAAATT
*
37653181 GAAAACTTTGAAAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
*
37653202 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
37653221 CCATGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:37655380 original size:49 final size:48
Alignment explanation
Indices: 37655312--37655622 Score: 154
Period size: 49 Copynumber: 6.5 Consensus size: 48
37655302 AAAGTCAATG
* * *
37655312 CCATGTCCCAAACAAGTCTTACACTGACTTTCATATATCGAGGCCGAT
1 CCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGAT
* * * * *
37655360 ACCATGTCCTAGACCGGTCTTACACTGGCTCTCATCTATCG-GTGTCGAT
1 -CCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGAT
* * *
37655409 GCCATGTCCCAGACAGGTCTTACAGT-AGCTTGT-ATATCTCGAGGCCGAT
1 -CCATGTCCTAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCCGAT
* * * * * * * **
37655458 GCATATCCTAGACATGTCTTATACT-AGCTCTC--ATCTCAATACCGAT
1 CCATGTCCTAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCCGAT
* * * * * * *
37655504 GCATGTCCCAGACATGTCTTACACTGGCTGGT-ATATCTCGAGGCCAAT
1 CCATGTCCTAGACAGGTCTTACACTGACT-TTCATATATCGAGGCCGAT
* * * * * * *
37655552 GCATATCCCAGACATGTCTTACACTGGCTCTCA-ATAT-GTGGCCGAT
1 CCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGAT
* * * *
37655598 GCATGTCCCAAACATGTCTTACACT
1 CCATGTCCTAGACAGGTCTTACACT
37655623 AGCACACATA
Statistics
Matches: 209, Mismatches: 43, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
46 65 0.31
47 6 0.03
48 63 0.30
49 73 0.35
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGAT
Found at i:37655486 original size:48 final size:48
Alignment explanation
Indices: 37655405--37655625 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 48
37655395 CTATCGGTGT
* * *
37655405 CGATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGC
1 CGATG-CATATCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * * * * **
37655454 CGATGCATATCCTAGACATGTCTTATACTAGC-TCT-CATCTCAATAC
1 CGATGCATATCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * *
37655500 CGATGCATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGC
1 CGATGCATATCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * * * *
37655548 CAATGCATATCCCAGACATGTCTTACACTGGCTCT-CA-ATAT-GTGGC
1 CGATGCATATCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGC
* *
37655594 CGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATATCCCAGACATGTCTTACACTAGC
37655626 ACACATATCA
Statistics
Matches: 139, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
46 67 0.48
47 6 0.04
48 61 0.44
49 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCATATCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
Found at i:37655517 original size:46 final size:46
Alignment explanation
Indices: 37655376--37655625 Score: 171
Period size: 46 Copynumber: 5.3 Consensus size: 46
37655366 TCCTAGACCG
* ** * * *
37655376 GTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAG
1 GTCTTACACTAGCTCTCATC--TCAATGCCGATG-CATATCCCAGACAT
* * * * * *
37655425 GTCTTACAGTAGCTTGTATATCTCGAGGCCGATGCATATCCTAGACAT
1 GTCTTACACTAGC-TCT-CATCTCAATGCCGATGCATATCCCAGACAT
* * *
37655473 GTCTTATACTAGCTCTCATCTCAATACCGATGCATGTCCCAGACAT
1 GTCTTACACTAGCTCTCATCTCAATGCCGATGCATATCCCAGACAT
* * * * * *
37655519 GTCTTACACTGGCTGGTATATCTCGAGGCCAATGCATATCCCAGACAT
1 GTCTTACACTAGCT-CT-CATCTCAATGCCGATGCATATCCCAGACAT
* * * * *
37655567 GTCTTACACTGGCTCTCA-AT-ATGTGGCCGATGCATGTCCCAAACAT
1 GTCTTACACTAGCTCTCATCTCA-AT-GCCGATGCATATCCCAGACAT
37655613 GTCTTACACTAGC
1 GTCTTACACTAGC
37655626 ACACATATCA
Statistics
Matches: 157, Mismatches: 38, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.43
47 4 0.03
48 60 0.38
49 20 0.13
50 2 0.01
51 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTCTCATCTCAATGCCGATGCATATCCCAGACAT
Found at i:37655538 original size:94 final size:93
Alignment explanation
Indices: 37655313--37655622 Score: 327
Period size: 94 Copynumber: 3.3 Consensus size: 93
37655303 AAGTCAATGC
* * * * * * **
37655313 CATGTCCCAAACAAGTCTTACACTGACTTTCATATATCGAGGCCGATACCATGTCCTAGACCGGT
1 CATGTCCCAAACATGTCTTACACTGGCTGT-ATATCTCGAGGCCGAT-GCATATCCTAGACATGT
* *
37655378 CTTACACTGGCTCTCATCTATCGGTGTCGATG
64 CTTACACTGGCTCTCATC--TCAGTGCCGATG
* * * *
37655410 CCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCGATGCATATCCTAGACATGT
1 -CATGTCCCAAACATGTCTTACACTGGC-TGTATATCTCGAGGCCGATGCATATCCTAGACATGT
* * * *
37655475 CTTATACTAGCTCTCATCTCAATACCGATG
64 CTTACACTGGCTCTCATCTCAGTGCCGATG
* * *
37655505 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCAATGCATATCCCAGACATGTC
1 CATGTCCCAAACATGTCTTACACTGGCT-GTATATCTCGAGGCCGATGCATATCCTAGACATGTC
*
37655570 TTACACTGGCTCTCA-AT-ATGTGGCCGATG
65 TTACACTGGCTCTCATCTCA-GT-GCCGATG
37655599 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
37655623 AGCACACATA
Statistics
Matches: 180, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
92 1 0.01
93 3 0.02
94 100 0.56
95 8 0.04
97 29 0.16
98 37 0.21
99 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (93 bp):
CATGTCCCAAACATGTCTTACACTGGCTGTATATCTCGAGGCCGATGCATATCCTAGACATGTCT
TACACTGGCTCTCATCTCAGTGCCGATG
Found at i:37657662 original size:40 final size:40
Alignment explanation
Indices: 37657588--37657765 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
37657578 GAGTCACGTA
** *
37657588 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
37657627 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
37657667 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
37657707 CCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
37657747 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
37657766 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:37662605 original size:137 final size:138
Alignment explanation
Indices: 37662375--37662648 Score: 437
Period size: 137 Copynumber: 2.0 Consensus size: 138
37662365 GAAAAAAGAT
*
37662375 TTATATTCTTTCCAAAAGAATACTAATTTCCATGTTTTTTATATTTTGACCAAAATTAACTAATA
1 TTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACCAAAATTAACTAATA
*
37662440 TAATTGTTTATATTAATAAATTTCGTAAAATATATACTATTAATATTTTG-TATGAATCAAATTC
66 TAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTGAT-TGAATCAAATTC
37662504 A-ATATTAA
130 ATATATTAA
* * * * *
37662512 TTATATTCTTTCCAAATGAATATTAATTTCCATGTCTTTTATTTTTTGACCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACCAAAATTAACTAATA
*
37662577 TAATTGTTTATATTAATAAA-TTCAGTAAAATATATACAATTAATATTTTGATTGAATCAAATTT
66 TAATTGTTTATATTAATAAATTTC-GTAAAATATATACAATTAATATTTTGATTGAATCAAATTC
37662641 ATATATTA
130 ATATATTA
37662649 GTTTTATATA
Statistics
Matches: 126, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
136 3 0.02
137 116 0.92
138 7 0.06
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (138 bp):
TTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACCAAAATTAACTAATA
TAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTGATTGAATCAAATTCA
TATATTAA
Found at i:37667357 original size:18 final size:19
Alignment explanation
Indices: 37667324--37667359 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37667314 TTTTCTAGCT
37667324 CTTTTACATGTTTTTATTG
1 CTTTTACATGTTTTTATTG
*
37667343 CTTTTTCAT-TTTTTATT
1 CTTTTACATGTTTTTATT
37667360 AGCTCAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (19 bp):
CTTTTACATGTTTTTATTG
Found at i:37671429 original size:61 final size:61
Alignment explanation
Indices: 37671361--37671484 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
37671351 CATTTGTTAC
37671361 CTAAACTCAGGTTACTTTGTAACCCTTTTAAAATATTTATTTATATTTATTTGTTTTTTCT
1 CTAAACTCAGGTTACTTTGTAACCCTTTTAAAATATTTATTTATATTTATTTGTTTTTTCT
37671422 CTAAACTCAGGTTACTTTGTAACCCTTTTAAAATATTTATTTATATTTATTTGTTTTTTCT
1 CTAAACTCAGGTTACTTTGTAACCCTTTTAAAATATTTATTTATATTTATTTGTTTTTTCT
37671483 CT
1 CT
37671485 TTCTTCATTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (61 bp):
CTAAACTCAGGTTACTTTGTAACCCTTTTAAAATATTTATTTATATTTATTTGTTTTTTCT
Found at i:37673705 original size:2 final size:2
Alignment explanation
Indices: 37673700--37673724 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37673690 ACTAGAAAAA
37673700 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
37673725 GAAGAAGCCA
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:37675223 original size:43 final size:43
Alignment explanation
Indices: 37675163--37675281 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
37675153 TAAATAATAT
* *
37675163 TATCGAGCTACGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
1 TATCGAGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
* *
37675206 TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCTGTGAGATAA
1 TATCGAGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
* * *
37675249 TATCGAGCTTTGGGCCTAGCAGGCGA-AATGCCG
1 TATCGAGCTTCGAGCCTAGCAGGCTATAATGCCG
37675282 ATGAATGAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 6 0.09
43 61 0.91
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (43 bp):
TATCGAGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
Found at i:37675366 original size:40 final size:40
Alignment explanation
Indices: 37675263--37675367 Score: 93
Period size: 40 Copynumber: 2.6 Consensus size: 40
37675253 GAGCTTTGGG
* * * *
37675263 CCTAGCAGGCGAAATGCCGATGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * * **
37675304 TCTAGCAGGCTTCGTGCTGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
37675344 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
37675368 TTGATAAAAG
Statistics
Matches: 47, Mismatches: 17, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
40 32 0.68
41 15 0.32
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:37678921 original size:21 final size:22
Alignment explanation
Indices: 37678884--37678924 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37678874 ATGCATGTAT
37678884 AGATATGTATAAGAAAAAATAC
1 AGATATGTATAAGAAAAAATAC
*
37678906 AGATATGTA-CAGAAAAAAT
1 AGATATGTATAAGAAAAAAT
37678925 TTCATGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.22
Consensus pattern (22 bp):
AGATATGTATAAGAAAAAATAC
Found at i:37681173 original size:48 final size:48
Alignment explanation
Indices: 37681066--37681186 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
37681056 GGTTATGTGT
* **
37681066 GATCCCATGTAAGACCAT-GCATGGGACATGGCATTGGCATCGATATTC
1 GATCCCATGTAAGACCATAGC-TGGGACATGGCATTGGCATCGACATGA
* *
37681114 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGA
1 GATCCCATGTAAGACCATAGCTGGGACATGGCATTGGCATCGACATGA
* * *
37681162 GA-CATCGTGTAAGAACATAGCTGGG
1 GATC-CCATGTAAGACCATAGCTGGG
37681187 CTATTAGCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 60 0.97
49 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (48 bp):
GATCCCATGTAAGACCATAGCTGGGACATGGCATTGGCATCGACATGA
Found at i:37688835 original size:48 final size:48
Alignment explanation
Indices: 37688764--37688901 Score: 179
Period size: 48 Copynumber: 2.9 Consensus size: 48
37688754 ATGTGTGATG
* *
37688764 CCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATATTCGATC
1 CCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATATTCGATC
* * *
37688812 CCATGTAAGACCATGTCTAGGACATGGAATCGGTATCGATATTCGATC
1 CCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATATTCGATC
* * * *
37688860 CCATAG-AAGACTATATCTGGGATATGGTATTGGCATCGATAT
1 CCAT-GTAAGACCATGTCTGGGACATGGAATTGGCATCGATAT
37688902 GAGACATCGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 76 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
CCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATATTCGATC
Found at i:37689924 original size:28 final size:28
Alignment explanation
Indices: 37689777--37689911 Score: 234
Period size: 28 Copynumber: 4.8 Consensus size: 28
37689767 TGGGAAGTTG
*
37689777 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
37689805 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
37689833 TTGGACCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
37689861 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
37689889 TTGGGCCTGATGGGCCATGTGAA
1 TTGGGCCTGATGGGCCATATGAA
37689912 CGAGATTAGG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 101 1.00
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:37690308 original size:27 final size:27
Alignment explanation
Indices: 37690278--37690585 Score: 230
Period size: 27 Copynumber: 11.4 Consensus size: 27
37690268 AAATTACCAG
*** * *
37690278 TTTGTAAAATTATTGAAGTACCTCCGA
1 TTTGTAAAATTACCAAAGTACCCCCAA
37690305 TTTGTAAAATTACCAAAGTACCCCCAA
1 TTTGTAAAATTACCAAAGTACCCCCAA
* *
37690332 TTTGTAAAATTACCGAAA-TATCCCTAA
1 TTTGTAAAATTACC-AAAGTACCCCCAA
* * *
37690359 TTTGTAAAATTACCAAAATACCCTCAG
1 TTTGTAAAATTACCAAAGTACCCCCAA
* ** *
37690386 TTTGCAAAATTATTGAAA-TACCCTCAA
1 TTTGTAAAATTA-CCAAAGTACCCCCAA
* * ***
37690413 TTTGTAAAATTACTAAAATACCCTTGA
1 TTTGTAAAATTACCAAAGTACCCCCAA
* * * *
37690440 TTTGTACAATTACCGAAA-CACCCTCGA
1 TTTGTAAAATTACC-AAAGTACCCCCAA
** * *
37690467 TTTGTAAAATTACCAAAACACCCTCGA
1 TTTGTAAAATTACCAAAGTACCCCCAA
*
37690494 TTTGTAAAATTACCGAAA-T-CCCTCAA
1 TTTGTAAAATTACC-AAAGTACCCCCAA
* * *
37690520 TTTGTAAAATTACCAAAATACCCTCGA
1 TTTGTAAAATTACCAAAGTACCCCCAA
** * *
37690547 TTTGTAAAATTACCAAAACAACCCCGA
1 TTTGTAAAATTACCAAAGTACCCCCAA
37690574 TTTGTAAAATTA
1 TTTGTAAAATTA
37690586 TCGAAATACC
Statistics
Matches: 241, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
25 3 0.01
26 30 0.12
27 196 0.81
28 12 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAGTACCCCCAA
Found at i:37690362 original size:54 final size:54
Alignment explanation
Indices: 37690304--37690595 Score: 367
Period size: 54 Copynumber: 5.4 Consensus size: 54
37690294 AGTACCTCCG
* * * *
37690304 ATTTGTAAAATTACCAAAGTACCCCCAATTTGTAAAATTACCGAAATATCCCT-A
1 ATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACA-CCCTCA
* ** *
37690358 ATTTGTAAAATTACCAAAATACCCTC-AGTTTGCAAAATTATTGAAATACCCTCA
1 ATTTGTAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCGAAACACCCTCA
* * * *
37690412 ATTTGTAAAATTACTAAAATACCCTTGATTTGTACAATTACCGAAACACCCTCG
1 ATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCA
* *
37690466 ATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAA-TCCCTCA
1 ATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCA
* *
37690519 ATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAACAACCC-CG
1 ATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAAC-ACCCTCA
* *
37690573 ATTTGTAAAATTATCGAAATACC
1 ATTTGTAAAATTACCAAAATACC
37690596 TTTGTAGTGT
Statistics
Matches: 208, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
53 54 0.26
54 150 0.72
55 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
ATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCA
Found at i:37690414 original size:81 final size:80
Alignment explanation
Indices: 37690302--37690624 Score: 382
Period size: 81 Copynumber: 4.0 Consensus size: 80
37690292 GAAGTACCTC
* *
37690302 CGATTTGTAAAATTACCAAAGTACCCCCAATTTGTAAAATTACCGAAATATCCCTAATTTGTAAA
1 CGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATA-CCCTAATTTGTAAA
37690367 ATTACCAAAATACCCT
65 ATTACCAAAATACCCT
* *** ** * *
37690383 C-AGTTTGCAAAATTATTGAAATACCCTCAATTTGTAAAATTACTAAAATACCCTTGATTTGTAC
1 CGA-TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATACCC-TAATTTGTAA
* *
37690447 AATTACCGAAACACCCT
64 AATTACCAAAATACCCT
* *
37690464 CGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAAT-CCCTCAATTTGTAAA
1 CGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATACCCT-AATTTGTAAA
37690528 ATTACCAAAATACCCT
65 ATTACCAAAATACCCT
* * * * ** *
37690544 CGATTTGTAAAATTACCAAAACAACCC-CGATTTGTAAAATTATCGAAATACCTTTGTAGTGTAA
1 CGATTTGTAAAATTACCAAAA-TACCCTCAATTTGTAAAATTACCGAAATACCCTAAT-TTGTAA
37690608 AATTACCAAAATACCCT
64 AATTACCAAAATACCCT
37690625 TGCAGTGTAA
Statistics
Matches: 205, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.00
80 72 0.35
81 131 0.64
82 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (80 bp):
CGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTAATTTGTAAAA
TTACCAAAATACCCT
Found at i:37690606 original size:27 final size:27
Alignment explanation
Indices: 37690334--37690664 Score: 135
Period size: 27 Copynumber: 12.3 Consensus size: 27
37690324 ACCCCCAATT
** *
37690334 TGTAAAATTACCGAAATATCCCTAAT-T
1 TGTAAAATTACCGAAATA-CCCTTGTAG
* * *
37690361 TGTAAAATTACCAAAATACCCTCAGT-T
1 TGTAAAATTACCGAAATACCCT-TGTAG
* ** ** *
37690388 TGCAAAATTATTGAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
** *
37690415 TGTAAAATTACTAAAATACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
37690442 TGTACAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
37690469 TGTAAAATTACCAAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
** *
37690496 TGTAAAATTACCGAAAT-CCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
37690522 TGTAAAATTACCAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
37690549 TGTAAAATTACCAAAACAACCC-CG-ATT
1 TGTAAAATTACCGAAA-TACCCTTGTA-G
* *
37690576 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
37690603 TGTAAAATTACCAAAATACCCTTGCAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
37690630 TGTAAAATGACCGATATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
37690657 GGTAAAAT
1 TGTAAAAT
37690665 GACTATTTTC
Statistics
Matches: 251, Mismatches: 43, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
26 29 0.12
27 216 0.86
28 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:37690634 original size:134 final size:135
Alignment explanation
Indices: 37690302--37690651 Score: 352
Period size: 134 Copynumber: 2.6 Consensus size: 135
37690292 GAAGTACCTC
* * * * * * * *
37690302 CGATTTGTAAAATTACC-AAAGTACCCCCAATTTGTAAAATTACCGAAATATCCCT-AATTTGTA
1 CGATTTGTAAAATTACCGAAA-CACCCTCGATGTGTAAAATTACCAAAACA-CCCTCGATGTGTA
* * *** *
37690365 AAATTACCAAAATACCCTCAGTTTGCAAAATTATTGAAATACCCTCAATTTGTAAAATTACTAAA
64 AAATTACCGAAATACCCTCAATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
*
37690430 ATACCCT
129 AAACCCT
* * * *
37690437 TGATTTGTACAATTACCGAAACACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAA
1 CGATTTGTAAAATTACCGAAACACCCTCGATGTGTAAAATTACCAAAACACCCTCGATGTGTAAA
* *
37690502 ATTACCGAAAT-CCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAAC
66 ATTACCGAAATACCCTCAATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA-
37690566 AACCC-
130 AACCCT
* * * * * *
37690571 CGATTTGTAAAATTATCGAAATACCTTTG-TAGTGTAAAATTACCAAAATACCCTTGCA-GTGTA
1 CGATTTGTAAAATTACCGAAACACCCTCGAT-GTGTAAAATTACCAAAACACCCTCG-ATGTGTA
* *
37690634 AAATGACCGATATACCCT
64 AAATTACCGAAATACCCT
37690652 TGTAGGGTAA
Statistics
Matches: 180, Mismatches: 29, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
133 1 0.01
134 109 0.61
135 67 0.37
136 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (135 bp):
CGATTTGTAAAATTACCGAAACACCCTCGATGTGTAAAATTACCAAAACACCCTCGATGTGTAAA
ATTACCGAAATACCCTCAATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAAA
ACCCT
Found at i:37695827 original size:34 final size:34
Alignment explanation
Indices: 37695789--37695855 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
37695779 TCACCAGTTT
37695789 TTCTAGAATCTTTTTAATTTATCTATTAGAAATA
1 TTCTAGAATCTTTTTAATTTATCTATTAGAAATA
37695823 TTCTAGAATCTTTTTAATTTATCTATTAGAAAT
1 TTCTAGAATCTTTTTAATTTATCTATTAGAAAT
37695856 CTTAGCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (34 bp):
TTCTAGAATCTTTTTAATTTATCTATTAGAAATA
Found at i:37699750 original size:40 final size:40
Alignment explanation
Indices: 37699706--37699927 Score: 146
Period size: 39 Copynumber: 5.7 Consensus size: 40
37699696 GTTCAAAACA
* * ***
37699706 CCTTCGGGACATACCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
37699746 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * * *
37699786 CCTTCGGG-CTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * *
37699825 CCTTCGGG-CTTATCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * * *
37699864 CCTTCGGG-CTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* *
37699903 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACATAACCCGGATATCAC
37699928 TCGAACATTC
Statistics
Matches: 164, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 124 0.76
40 40 0.24
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:37699817 original size:39 final size:39
Alignment explanation
Indices: 37699736--37699926 Score: 310
Period size: 39 Copynumber: 4.9 Consensus size: 39
37699726 TATGGTAACC
* * * *
37699736 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
37699776 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
37699815 CGCACAATTGCCTTCGGGCTTATCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
37699854 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
37699893 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
37699927 CTCGAACATT
Statistics
Matches: 141, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 124 0.88
40 17 0.12
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:37702825 original size:21 final size:20
Alignment explanation
Indices: 37702801--37702840 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37702791 GAACTGGGAT
37702801 TTCTACCAATACAACTCCAGG
1 TTCTACCAATACAAC-CCAGG
* *
37702822 TTCTATCGATACAACCCAG
1 TTCTACCAATACAACCCAG
37702841 ACTTCTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.25
Consensus pattern (20 bp):
TTCTACCAATACAACCCAGG
Found at i:37702846 original size:21 final size:21
Alignment explanation
Indices: 37702809--37702849 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37702799 ATTTCTACCA
*
37702809 ATACAACTCCAGGTTCTATCG
1 ATACAACTCCAGCTTCTATCG
37702830 ATACAAC-CCAGACTTCTATC
1 ATACAACTCCAG-CTTCTATC
37702850 AGTATAACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.27
Consensus pattern (21 bp):
ATACAACTCCAGCTTCTATCG
Found at i:37707250 original size:5 final size:5
Alignment explanation
Indices: 37707240--37707267 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37707230 CTCTGTGTTA
37707240 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
37707268 CCACAGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:37712622 original size:40 final size:40
Alignment explanation
Indices: 37712556--37712706 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
37712546 AAATTGAATG
* * *
37712556 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
37712595 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
37712635 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
37712675 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
37712707 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:37712720 original size:40 final size:40
Alignment explanation
Indices: 37712593--37712722 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
37712583 ATGCTGGAAA
* * *
37712593 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
37712633 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
37712673 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
37712713 TTATATCCGG
1 TTATATCCGG
37712723 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:37723480 original size:40 final size:39
Alignment explanation
Indices: 37723353--37723482 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
37723343 ATGCTGGAAA
* *
37723353 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
37723393 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
37723433 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
37723473 TTATATCCGG
1 TTATATCCGG
37723483 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:37732045 original size:24 final size:24
Alignment explanation
Indices: 37732017--37732065 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
37732007 TAGTCTAAGA
37732017 GATAAATAAATGAGCACTTAAAGG
1 GATAAATAAATGAGCACTTAAAGG
37732041 GATAAATAAATGAGCACTTAAAGG
1 GATAAATAAATGAGCACTTAAAGG
37732065 G
1 G
37732066 CAATTGGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.20
Consensus pattern (24 bp):
GATAAATAAATGAGCACTTAAAGG
Found at i:37739824 original size:18 final size:19
Alignment explanation
Indices: 37739786--37739824 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37739776 GAACTTTTTG
*
37739786 TTTTAGAAAAACTATTCAT
1 TTTTAGAAAAACTATTAAT
*
37739805 TTTTAGGAAAACT-TTAAT
1 TTTTAGAAAAACTATTAAT
37739823 TT
1 TT
37739825 CAAGAAAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (19 bp):
TTTTAGAAAAACTATTAAT
Found at i:37749965 original size:48 final size:48
Alignment explanation
Indices: 37749894--37750325 Score: 697
Period size: 48 Copynumber: 9.0 Consensus size: 48
37749884 CAAGATAAAT
* * *
37749894 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
37749942 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
37749990 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
37750038 ATATGTATATGTGGTAAAGCCGAATGGCTGGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
37750086 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
37750132 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
37750180 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
37750228 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
37750276 ATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
37750324 AT
1 AT
37750326 GTGTGTATAT
Statistics
Matches: 358, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 45 0.13
48 313 0.87
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:37750130 original size:37 final size:37
Alignment explanation
Indices: 37750080--37750176 Score: 104
Period size: 46 Copynumber: 2.4 Consensus size: 37
37750070 GTGAAATATG
*
37750080 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 TATGAAATATGTATATGTGGTAAAGCCGAATGGCTAA
37750117 TATGAAATATGTATGATATATATATGTGGTAAAGCCGAATGGCTAA
1 TATG-AA-A--TATG-----TATATGTGGTAAAGCCGAATGGCTAA
37750163 TATGAAATATGTAT
1 TATGAAATATGTAT
37750177 GAGATATATA
Statistics
Matches: 50, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
37 7 0.14
38 1 0.02
39 1 0.02
41 4 0.08
42 4 0.08
44 1 0.02
45 2 0.04
46 30 0.60
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (37 bp):
TATGAAATATGTATATGTGGTAAAGCCGAATGGCTAA
Found at i:37750228 original size:190 final size:191
Alignment explanation
Indices: 37749894--37750319 Score: 764
Period size: 190 Copynumber: 2.2 Consensus size: 191
37749884 CAAGATAAAT
* * * *
37749894 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT-AGATATATATATGTGGTAA
37749959 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
65 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
*
37750024 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTGGTGTGAAATATGTATGAG
130 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
37750086 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTAT-GATATATATATGTGGTAAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAGATATATATATGTGGTAAA
37750150 GCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGTG
66 GCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGTG
37750215 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
131 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
37750276 ATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATGTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
37750320 GGAGATGTGT
Statistics
Matches: 225, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 184 0.82
192 41 0.18
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (191 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAGATATATATATGTGGTAAA
GCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGTG
AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:37750516 original size:37 final size:37
Alignment explanation
Indices: 37750466--37750568 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
37750456 GGAAATATAT
*
37750466 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37750503 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
37750540 TCCGGGTAAAACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
37750569 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:37761459 original size:57 final size:57
Alignment explanation
Indices: 37761349--37761552 Score: 144
Period size: 57 Copynumber: 3.6 Consensus size: 57
37761339 GGTGTTACAA
* * * *
37761349 CAGGATTACAAGTCCAGGCTAAATCCTGTCTACAATATATACTCAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATACTCAATAAAGCTTAAT
* * * ** *
37761406 CAGGATTACCAGTCTAGGCTAAATCCTTTTTATGACATATGCTCTAA-AAAGCTTAAT
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATACTC-AATAAAGCTTAAT
* * * ** * * * * * *
37761463 CTGGATTACCCGTCC-GAGCTACATCCAATCCATAACATATGCTCGA-GAGGACTTATAT
1 CAGGATTACCAGTCCAG-GCTAAATCCTGTCTACAACATATACTCAATAAAG-CTTA-AT
* *
37761521 CAGGATTACCCGTCCAGGCTAAATCCTTTCTA
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTA
37761553 TAATGAGGTC
Statistics
Matches: 115, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
56 4 0.03
57 81 0.70
58 29 0.25
59 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATACTCAATAAAGCTTAAT
Found at i:37764452 original size:30 final size:30
Alignment explanation
Indices: 37764416--37764475 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37764406 CATTTAATAC
*
37764416 GAACTTTGGAAAAATTACATTTTTGCCCCT
1 GAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
37764446 GAACTTTTGCATAATTACACTTTTGCCCCT
1 GAACTTTGGAAAAATTACACTTTTGCCCCT
37764476 AGGCTCGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (30 bp):
GAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:37766324 original size:12 final size:12
Alignment explanation
Indices: 37766303--37766332 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37766293 ATTAATTGAG
*
37766303 TTAATTAATGCA
1 TTAATCAATGCA
37766315 TTAATCAATGCA
1 TTAATCAATGCA
37766327 TTAATC
1 TTAATC
37766333 TTGGTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (12 bp):
TTAATCAATGCA
Found at i:37767781 original size:11 final size:11
Alignment explanation
Indices: 37767749--37767781 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
37767739 TCTCTTAAAC
37767749 ATTTTTTTAC-
1 ATTTTTTTACA
37767759 ATTTTTTT-CA
1 ATTTTTTTACA
37767769 ATTTTTTTACA
1 ATTTTTTTACA
37767780 AT
1 AT
37767782 ACCCTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 16 0.76
11 4 0.19
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTTTACA
Found at i:37774962 original size:2 final size:2
Alignment explanation
Indices: 37774955--37774984 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37774945 CTCCAATGCC
37774955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37774985 GGGCTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37779267 original size:2 final size:2
Alignment explanation
Indices: 37779260--37779287 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37779250 CTCCAATGCC
37779260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37779288 GGGCTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37780893 original size:83 final size:83
Alignment explanation
Indices: 37780749--37780910 Score: 261
Period size: 83 Copynumber: 2.0 Consensus size: 83
37780739 AAAGCCATCT
* *
37780749 GGTATGCATAGTAGCCTGCACTTAGTACTACACATACAACCAATTATCCAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATACAACCAATTATCCAGTACACGTAGTAGCC
*
37780814 TTCACTTAGTACTATTCG
66 TGCACTTAGTACTATTCG
* * * *
37780832 GGTACGCATAGTATCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATACAACCAATTATCCAGTACACGTAGTAGCC
37780897 TGCACTTAGTACTA
66 TGCACTTAGTACTA
37780911 CACACGTGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (83 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATACAACCAATTATCCAGTACACGTAGTAGCC
TGCACTTAGTACTATTCG
Found at i:37785785 original size:12 final size:12
Alignment explanation
Indices: 37785768--37785792 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37785758 AACACCTGGT
37785768 AACACCATTAAA
1 AACACCATTAAA
37785780 AACACCATTAAA
1 AACACCATTAAA
37785792 A
1 A
37785793 TGCATTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
AACACCATTAAA
Found at i:37787914 original size:146 final size:145
Alignment explanation
Indices: 37787659--37787940 Score: 449
Period size: 146 Copynumber: 1.9 Consensus size: 145
37787649 AATAATGCAT
* * * * ** *
37787659 TGAAATTTTGTCAAATTGGACTTGCTTATTCCATTGTTGAAAATTATAAACAAAAATCAATGTTG
1 TGAAATTATGTCAAATTGGACTTACTTATTCAATTGTTGAAAATTATAAAAAAAAAAAAATATTG
37787724 AAACTTTAAATTTTAGAACATCAAAATCAATTAAATAAATTGTTGA-TTTTTTCCTTGATAATGC
66 AAACTTTAAATTTTAGAACATCAAAATCAATTAAATAAATTGTTGATTTTTTTCCTTGATAATGC
37787788 CAATCACTATAATAG
131 CAATCACTATAATAG
*
37787803 TGAAATTAATGTCAAATTGGACTTACTTATTCAATTGTTGAAAATTCTAAAAAAAAAAAAAATAT
1 TGAAATT-ATGTCAAATTGGACTTACTTATTCAATTGTTGAAAATTAT-AAAAAAAAAAAAATAT
*
37787868 TGAAATTTTAAATTTTAGAACATCAAAATCAATTAAATAAATTGTTGATTTTTTTCCTTGATAAT
64 TGAAACTTTAAATTTTAGAACATCAAAATCAATTAAATAAATTGTTGATTTTTTTCCTTGATAAT
*
37787933 GTCAATCA
129 GCCAATCA
37787941 ATTTGTTACT
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
144 7 0.06
145 36 0.29
146 59 0.47
147 23 0.18
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (145 bp):
TGAAATTATGTCAAATTGGACTTACTTATTCAATTGTTGAAAATTATAAAAAAAAAAAAATATTG
AAACTTTAAATTTTAGAACATCAAAATCAATTAAATAAATTGTTGATTTTTTTCCTTGATAATGC
CAATCACTATAATAG
Found at i:37787977 original size:28 final size:28
Alignment explanation
Indices: 37787941--37787997 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
37787931 ATGTCAATCA
37787941 ATTTGTTACTATAATAGTGAAATTAATT
1 ATTTGTTACTATAATAGTGAAATTAATT
37787969 ATTTGTTACTATAATAGTGAAATTAATT
1 ATTTGTTACTATAATAGTGAAATTAATT
37787997 A
1 A
37787998 ATTCAATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (28 bp):
ATTTGTTACTATAATAGTGAAATTAATT
Found at i:37807077 original size:93 final size:93
Alignment explanation
Indices: 37806965--37807135 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
37806955 GCCCATAAGT
*
37806965 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37807029 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
37807058 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
37807123 CGAGTTCGGATGC
66 CGAGCTCGGATGC
37807136 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:37807132 original size:46 final size:45
Alignment explanation
Indices: 37806957--37807131 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
37806947 TGTAACCCGC
*
37806957 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
37807003 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
37807049 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
37807096 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
37807132 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 67 0.61
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:37807151 original size:46 final size:46
Alignment explanation
Indices: 37806962--37807151 Score: 137
Period size: 46 Copynumber: 4.1 Consensus size: 46
37806952 CCCGCCCATA
* * *
37806962 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCAACCATCC-T
37807007 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
37807057 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
37807101 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
37807147 AGTGA
1 AGTGA
37807152 CATGTCACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 32
0.73 0.08 0.20
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 63 0.54
47 30 0.26
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:37809377 original size:20 final size:21
Alignment explanation
Indices: 37809339--37809378 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37809329 TATAAACACA
*
37809339 TTCACATTCCAACATATAAAG
1 TTCACATTACAACATATAAAG
37809360 TTCACATTACAA-ATATAAA
1 TTCACATTACAACATATAAA
37809379 TATGCATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (21 bp):
TTCACATTACAACATATAAAG
Found at i:37809631 original size:40 final size:40
Alignment explanation
Indices: 37809576--37809654 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
37809566 ATGCATAATT
37809576 TTAAGGCTCATTTCAATATAGTCTCAAGACTGAATACACC
1 TTAAGGCTCATTTCAATATAGTCTCAAGACTGAATACACC
37809616 TTAAGGCTCATTTCAATATAGTCTCAAGACTGAATACAC
1 TTAAGGCTCATTTCAATATAGTCTCAAGACTGAATACAC
37809655 TTACCTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (40 bp):
TTAAGGCTCATTTCAATATAGTCTCAAGACTGAATACACC
Found at i:37817336 original size:56 final size:56
Alignment explanation
Indices: 37817250--37817361 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
37817240 GTCCATCTAT
37817250 AAGCTTGACTCATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATA
1 AAGCTTGACTCATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATA
37817306 AAGCTTGACTCATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATA
1 AAGCTTGACTCATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATA
37817362 TGCAATCTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (56 bp):
AAGCTTGACTCATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATA
Found at i:37817363 original size:19 final size:19
Alignment explanation
Indices: 37817339--37817436 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
37817329 AATCTTTAAG
37817339 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37817358 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37817377 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37817394 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37817413 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
37817434 GAT
1 GAT
37817437 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37817370 original size:36 final size:35
Alignment explanation
Indices: 37817329--37817436 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
37817319 ATGGAAATAT
37817329 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
37817365 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
37817401 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
37817437 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:37817377 original size:56 final size:57
Alignment explanation
Indices: 37817261--37817434 Score: 209
Period size: 56 Copynumber: 3.1 Consensus size: 57
37817251 AGCTTGACTC
* *
37817261 ATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATA---AAGCTTGACTC
1 ATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATATGCAATCTTGA--G
37817317 ATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATATGCAATCTT-AG
1 ATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATATGCAATCTTGAG
* * *
37817373 ATAT-G--ATACAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTGAAG
1 ATATGGAAATATAATCTT-TA-AGGATATGCAATCTTAGATATGATATGCAATCTTG-AG
37817430 ATATG
1 ATATG
37817435 ATCTTGTAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
53 9 0.09
54 1 0.01
55 34 0.32
56 49 0.47
57 6 0.06
58 1 0.01
59 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (57 bp):
ATATGGAAATATAATCTTTAAGGATATGCAATCTTAGATATGATATGCAATCTTGAG
Found at i:37824573 original size:42 final size:42
Alignment explanation
Indices: 37824514--37824677 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
37824504 TTAGGGTTAT
* *
37824514 TGAGATTAT-GTGTAAGACTATATCTGGGATATGGCATCTATA
1 TGAGATT-TCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
37824556 TGAGATTTTGTGTAAGACCATATTTGGGATATAGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
37824598 TGAGACTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
37824641 TGAGATTCCATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
37824678 TGGTATGGTA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.66
43 34 0.33
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:37824656 original size:85 final size:84
Alignment explanation
Indices: 37824523--37824677 Score: 220
Period size: 85 Copynumber: 1.8 Consensus size: 84
37824513 TTGAGATTAT
* * * * ***
37824523 GTGTAAGACTATATCTGGGATATGGCATCTATATGAGATTTTGTGTAAGACCATATTTGGGATAT
1 GTGTAAGACCATAGCTAGGATATGGCATCGATATGAGATTCCATGTAAGACCATATTTGGGATAT
37824588 AGCATCGATATGAGACTTC
66 AGCATCGATATGAGACTTC
*
37824607 GTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGATTCCATGTAAGACCATATTTGGGATA
1 GTGTAAGACCATAGCTAGGATA-TGGCATCGATATGAGATTCCATGTAAGACCATATTTGGGATA
*
37824672 TGGCAT
65 TAGCAT
37824678 TGGTATGGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 18 0.30
85 43 0.70
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCATAGCTAGGATATGGCATCGATATGAGATTCCATGTAAGACCATATTTGGGATAT
AGCATCGATATGAGACTTC
Found at i:37828489 original size:48 final size:45
Alignment explanation
Indices: 37828413--37828628 Score: 163
Period size: 48 Copynumber: 4.7 Consensus size: 45
37828403 ATGTGTGATA
* * * *
37828413 CCATATAAGACCATGTCTGAGACATGGCATTGGTATCAATATGAGATC
1 CCATGTAAGACCATATCTGGGATATGGCATTGG-AT--ATATGAGATC
* *
37828461 CCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGGTT
1 CCATGTAAGACCATATCTGGGATATGGCATTGG-AT--ATATGAGATC
* * * * *
37828509 TCTTGTAAGACCATGTTTGGGACATGGCATT-G--ATATGAGA-C
1 CCATGTAAGACCATATCTGGGATATGGCATTGGATATATGAGATC
* * * * * * *
37828550 ATCGTGTAAGACCATAGCTGGGCTATCGGCA-TCGATATGTGTGATC
1 -CCATGTAAGACCATATCTGGGATAT-GGCATTGGATATATGAGATC
37828596 CCATGTAAGACCATATCTGGGATATGGCATTGG
1 CCATGTAAGACCATATCTGGGATATGGCATTGG
37828629 CATCTTACTA
Statistics
Matches: 133, Mismatches: 28, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
42 27 0.20
43 5 0.04
44 4 0.03
45 29 0.22
46 1 0.01
47 1 0.01
48 66 0.50
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (45 bp):
CCATGTAAGACCATATCTGGGATATGGCATTGGATATATGAGATC
Found at i:37837335 original size:39 final size:39
Alignment explanation
Indices: 37837292--37837424 Score: 212
Period size: 39 Copynumber: 3.4 Consensus size: 39
37837282 CATGTTTTTT
37837292 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
*
37837331 AGTATTGTGATATATGCTTGAATGTTATGTGATTATACG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* *
37837370 AGTATTGTGATATATGCTTAAATGTTATGTGCTTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* * *
37837409 TGTAATGTTATATATG
1 AGTATTGTGATATATG
37837425 TTTAAACGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.46
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
Found at i:37843572 original size:38 final size:38
Alignment explanation
Indices: 37843529--37843916 Score: 598
Period size: 38 Copynumber: 10.1 Consensus size: 38
37843519 GAAGGCATGA
* * * *
37843529 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCAGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
37843567 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** *
37843605 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
*
37843645 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * *
37843683 ATAT-TTACCAGCACGAAGCCTGTGGGTCTTTAAGCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
*
37843722 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
37843760 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
37843798 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
37843836 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
37843874 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
37843912 ATATA
1 ATATA
37843917 CATCAAATAT
Statistics
Matches: 322, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
37 21 0.07
38 229 0.71
39 23 0.07
40 49 0.15
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:37849707 original size:28 final size:28
Alignment explanation
Indices: 37849674--37849749 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
37849664 ATTGCATGAC
* *
37849674 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTAACGGACCA
* * *
37849702 TATGAAAGTGATTGGGCC-AATGGATCA
1 TATGAATGTGATTGGGCCTAACGGACCA
*
37849729 TATGAATGAGATTGGGCCTAA
1 TATGAATGTGATTGGGCCTAA
37849750 AGGGGCCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAACGGACCA
Found at i:37854394 original size:27 final size:28
Alignment explanation
Indices: 37854363--37854433 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
37854353 ATTGTATGAC
*
37854363 TATG-ATGTGATTGGGCTTGACGGGCCA
1 TATGAATGTGATTGGGCTCGACGGGCCA
* * *
37854390 TATGAAAGTGATTGGG-TCGATGGGTCA
1 TATGAATGTGATTGGGCTCGACGGGCCA
*
37854417 TATGAATGAGATTGGGC
1 TATGAATGTGATTGGGC
37854434 CTAAAGGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 26 0.72
28 10 0.28
ACGTcount: A:0.24, C:0.10, G:0.37, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCTCGACGGGCCA
Found at i:37858175 original size:21 final size:22
Alignment explanation
Indices: 37858149--37858189 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37858139 CACTAGACAT
37858149 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
*
37858170 AGGGGCAACACGCCTGTGTG
1 AGGGGCAACACGCCCGTGTG
37858190 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:37859353 original size:47 final size:47
Alignment explanation
Indices: 37859281--37859552 Score: 157
Period size: 46 Copynumber: 5.8 Consensus size: 47
37859271 GTAGAATGCT
* ** *
37859281 GATGCTATGTCCCAGACATATTCTTACACTGGCTCATATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGCC
* *
37859328 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCT-TCATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCA---A-GCC
* * * * * *
37859377 GTTGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGCC
* * * * ** * *
37859423 GATG-CATGTCTCAAACAT-GTCTTACAGTGGCTTACGTCTCGAGGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGCC
* * * *
37859469 GATG-CATGTCCCATACAT-GTCTTACACTAGCTC-TCGTCACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GCC
* * * *
37859515 GATTCCATGTCCCAGACATGGTCCTACACCGACTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA
37859553 GTAACCCATA
Statistics
Matches: 172, Mismatches: 39, Indels: 27
0.72 0.16 0.11
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 54 0.31
47 44 0.26
48 14 0.08
49 33 0.19
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGCC
Found at i:37864364 original size:10 final size:10
Alignment explanation
Indices: 37864346--37864388 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
37864336 ATTATTAACA
*
37864346 TAATGAATTT
1 TAATTAATTT
37864356 TAATTAATTTT
1 TAATTAA-TTT
37864367 ATAATTAATTT
1 -TAATTAATTT
*
37864378 TGATTAATTT
1 TAATTAATTT
37864388 T
1 T
37864389 GGTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 16 0.55
11 6 0.21
12 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:37864370 original size:22 final size:22
Alignment explanation
Indices: 37864345--37864388 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
37864335 AATTATTAAC
37864345 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
37864367 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
37864389 GGTTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:37877843 original size:23 final size:23
Alignment explanation
Indices: 37877802--37877856 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
37877792 GCAGCGTAGT
* *
37877802 TGCTAACAGTAACATAGCAAAGC
1 TGCTAATAGTAACACAGCAAAGC
*
37877825 TGTTAATAGTAACACAGCAAAGC
1 TGCTAATAGTAACACAGCAAAGC
37877848 TGCTAATAG
1 TGCTAATAG
37877857 CGCTAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (23 bp):
TGCTAATAGTAACACAGCAAAGC
Found at i:37881062 original size:28 final size:28
Alignment explanation
Indices: 37881030--37881099 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
37881020 TACGTAGAAC
*
37881030 CCGAAATTACCCTTAAAGAACAAAATTA
1 CCGAAATTACCCCTAAAGAACAAAATTA
*
37881058 CCGAAATTACCCCTAAAGAGCAAAATTA
1 CCGAAATTACCCCTAAAGAACAAAATTA
*
37881086 CCGATA-TACCCCTA
1 CCGAAATTACCCCTA
37881100 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (28 bp):
CCGAAATTACCCCTAAAGAACAAAATTA
Found at i:37888222 original size:60 final size:59
Alignment explanation
Indices: 37888143--37888279 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
37888133 AACTATGTTA
* *
37888143 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAAATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAAATTAATACTG
* * * * *
37888203 ATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAAATTAATACTG
37888263 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
37888280 GTTAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.77
61 14 0.22
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAAATTAATACTG
Found at i:37891993 original size:39 final size:39
Alignment explanation
Indices: 37891938--37892145 Score: 276
Period size: 39 Copynumber: 5.3 Consensus size: 39
37891928 AATTGTATTC
*
37891938 GGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCT
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
*
37891977 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
*
37892016 AGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
* * *
37892055 GGGTTAAGCCCCGAAGGCATTCGTGCTAGTGTTATAT-T
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
* * * * *
37892093 TGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTATTATATCC
1 GGGCT-AAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
37892132 GGGCTTAAAGTCCC
1 GGGC-T-AAGTCCC
37892146 ACATGCTTTG
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 19 0.13
39 121 0.81
40 9 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCT
Found at i:37894243 original size:32 final size:32
Alignment explanation
Indices: 37894207--37894267 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
37894197 GGTAACCCCG
*
37894207 GTAATTCTTCCAGAAACACATCCGAATATCCA
1 GTAATTCTTCCAGAAACACATCCAAATATCCA
37894239 GTAATTCTTCCAGAAACACATCCAAATAT
1 GTAATTCTTCCAGAAACACATCCAAATAT
37894268 TCACATACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (32 bp):
GTAATTCTTCCAGAAACACATCCAAATATCCA
Found at i:37896759 original size:30 final size:30
Alignment explanation
Indices: 37896725--37896793 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
37896715 ATGGGGCTGG
*
37896725 CCGTGTGTCACACACAGCCTAGCCATATGC
1 CCGTGTGTCACACACAGCCTAGCCACATGC
37896755 CCGTGTGTCACACACAGCCTAGCCACATGC
1 CCGTGTGTCACACACAGCCTAGCCACATGC
37896785 CCGTGTGTC
1 CCGTGTGTC
37896794 TACTCGTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.38, G:0.22, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCCTAGCCACATGC
Found at i:37897822 original size:48 final size:48
Alignment explanation
Indices: 37897736--37898002 Score: 328
Period size: 48 Copynumber: 5.6 Consensus size: 48
37897726 TAAAGTACCA
* * *
37897736 ATGCCATGTCCCCA-ACATGGTCTCACA-T-GAATCTACATATCATCGCTG
1 ATGCCATGT-CCCAGACATGGTCTTACACTAGCA-C-ACATATCATCACTG
*
37897784 ATGTCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACTG
* * *
37897832 ATGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACTG
* * * *
37897880 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAT-AACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACTG
* *
37897927 ATGCCATGTCCTAGACATGGTCTTACA-TATGCACATATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTA-GCACACATATCATCACTG
* *
37897975 ATGCCGTGTCCCAGACATGGTTTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
37898003 AGGCACATTA
Statistics
Matches: 191, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
46 1 0.01
47 43 0.23
48 143 0.75
49 2 0.01
50 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACTG
Found at i:37897978 original size:95 final size:96
Alignment explanation
Indices: 37897770--37898009 Score: 342
Period size: 95 Copynumber: 2.5 Consensus size: 96
37897760 ACATGAATCT
* * * *
37897770 ACATATCATCGCTGATGTCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACTGATG
1 ACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCGATG
37897835 CCATGTCTCAGACATGGTCTTACACTAGCAC
66 CCATGTCTCAGACATGGTCTTACACTAGCAC
* *
37897866 ACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAT-AACACCGATG
1 ACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCGATG
37897930 CCATGTC-CTAGACATGGTCTTACA-TATGCAC
66 CCATGTCTC-AGACATGGTCTTACACTA-GCAC
* * * * *
37897961 ATATATCATCACTGATGCCGTGTCCCAGACATGGTTTTACACAGGCACA
1 ACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
37898010 TTAAGCACGG
Statistics
Matches: 129, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
94 3 0.02
95 76 0.59
96 50 0.39
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (96 bp):
ACATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCGATG
CCATGTCTCAGACATGGTCTTACACTAGCAC
Found at i:37899448 original size:39 final size:40
Alignment explanation
Indices: 37899394--37899553 Score: 200
Period size: 40 Copynumber: 4.0 Consensus size: 40
37899384 CAACCAAGTA
* * * *
37899394 CCTTCAGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
37899433 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37899473 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
37899513 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
37899553 C
1 C
37899554 TGGCAGGGCT
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37899471 original size:40 final size:40
Alignment explanation
Indices: 37899420--37899575 Score: 192
Period size: 40 Copynumber: 3.9 Consensus size: 40
37899410 GGACATAGCT
*
37899420 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
37899460 ACTCGCACAAATCCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
37899500 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
37899540 ACTAGCACAAATG-CTGGCAGGG-CTTAGCCCGGTTAT
1 ACTCGCACAAATGCCT-TC-GGGACTTAGCCCGGTTAT
37899576 CATCCGAATA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:37902572 original size:28 final size:28
Alignment explanation
Indices: 37902526--37902593 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
37902516 TTTAAAACCC
*
37902526 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
37902553 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
37902581 TA-GGGTAATTTCG
1 TAGGGGTAATTTCG
37902594 TGATCTACGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 18 0.46
28 21 0.54
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Done.