Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 62 of 103
Found at i:23492137 original size:22 final size:22
Alignment explanation
Indices: 23492112--23492155 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23492102 TTTGATTGGT
* *
23492112 ATCAGAGCCTTTGGTTTTAAAG
1 ATCAAAGCCTTTAGTTTTAAAG
**
23492134 ATCAAAGTTTTTAGTTTTAAAG
1 ATCAAAGCCTTTAGTTTTAAAG
23492156 TTGTTTTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
ATCAAAGCCTTTAGTTTTAAAG
Found at i:23497606 original size:28 final size:28
Alignment explanation
Indices: 23497575--23497631 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
23497565 TGGAGTAAAA
23497575 GGGTAAAATGGTAATTTTGCCACC-TCAG
1 GGGTAAAATGGTAATTTT-CCACCATCAG
*
23497603 GGGTAAAATTGTAATTTTCCACCATCAG
1 GGGTAAAATGGTAATTTTCCACCATCAG
23497631 G
1 G
23497632 ACATTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTCCACCATCAG
Found at i:23507862 original size:16 final size:17
Alignment explanation
Indices: 23507836--23507867 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23507826 AAATAACCAT
23507836 GTTATGGGATTTTGAAA
1 GTTATGGGATTTTGAAA
23507853 GTTA-GGGATTTTGAA
1 GTTATGGGATTTTGAA
23507868 GGCTATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (17 bp):
GTTATGGGATTTTGAAA
Found at i:23516333 original size:19 final size:18
Alignment explanation
Indices: 23516309--23516364 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 18
23516299 AAATCAATAA
23516309 ATTCATGTATCATTATTG
1 ATTCATGTATCATTATTG
* *
23516327 TATTCATGAATCAGTA--G
1 -ATTCATGTATCATTATTG
*
23516344 ATTCATGTACCATTATTG
1 ATTCATGTATCATTATTG
23516362 ATT
1 ATT
23516365 ACATACACGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 12 0.40
17 1 0.03
18 4 0.13
19 13 0.43
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
ATTCATGTATCATTATTG
Found at i:23517553 original size:59 final size:59
Alignment explanation
Indices: 23517480--23517593 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 59
23517470 TATATATAGG
* *
23517480 GAAAAAATAGCTGTTGAAAATCATTAAATACGTTGATTGGAAATAAGAGAAATAAGTGA
1 GAAAAAATAACTGTTGAAAATCATTAAATACGTTGATTGAAAATAAGAGAAATAAGTGA
* *
23517539 GAAAAAATAACTGTTGGAAATCATTAAATATGTTGATTGAAAATAAGAGAAATAA
1 GAAAAAATAACTGTTGAAAATCATTAAATACGTTGATTGAAAATAAGAGAAATAA
23517594 ATAGCTGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.26
Consensus pattern (59 bp):
GAAAAAATAACTGTTGAAAATCATTAAATACGTTGATTGAAAATAAGAGAAATAAGTGA
Found at i:23526681 original size:27 final size:27
Alignment explanation
Indices: 23526643--23526730 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
23526633 AGAGCTATTA
23526643 ATGAATACATTTAACCACAAAAAGTGG
1 ATGAATACATTTAACCACAAAAAGTGG
** *
23526670 ATGAATACATTTAGTCACAAAAAGTAG
1 ATGAATACATTTAACCACAAAAAGTGG
* * * **
23526697 ATGAATACTTTTAACTACTAGTAGTGG
1 ATGAATACATTTAACCACAAAAAGTGG
23526724 ATGAATA
1 ATGAATA
23526731 GTGAAGAGAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (27 bp):
ATGAATACATTTAACCACAAAAAGTGG
Found at i:23534246 original size:35 final size:35
Alignment explanation
Indices: 23534207--23534279 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
23534197 CTTTCTCAGC
*
23534207 TCATGTGCACTCCTTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
***
23534242 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
23534277 TCA
1 TCA
23534280 CACGCACTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.26
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACAAGGCAATATCA
Found at i:23534287 original size:35 final size:35
Alignment explanation
Indices: 23534213--23534288 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
23534203 CAGCTCATGT
* ***
23534213 GCACTCCTTACACGCACAAGGCAATATCATCATGT
1 GCACTCCCTACACGCACAAGGCAATATCATCACAC
***
23534248 GCACTCCCTACACGCACATTTCAATATCATCACAC
1 GCACTCCCTACACGCACAAGGCAATATCATCACAC
23534283 GCACTC
1 GCACTC
23534289 TCGCCCACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.37, G:0.11, T:0.22
Consensus pattern (35 bp):
GCACTCCCTACACGCACAAGGCAATATCATCACAC
Found at i:23535571 original size:19 final size:19
Alignment explanation
Indices: 23535547--23535588 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23535537 GGTGGTAAGG
23535547 TGAAAATAGCATGGGAGCA
1 TGAAAATAGCATGGGAGCA
* * *
23535566 TGAAAATGGCGTTGGAGCA
1 TGAAAATAGCATGGGAGCA
23535585 TGAA
1 TGAA
23535589 GGAGAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.19
Consensus pattern (19 bp):
TGAAAATAGCATGGGAGCA
Found at i:23537754 original size:2 final size:2
Alignment explanation
Indices: 23537747--23537776 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23537737 TACTGTGTTG
23537747 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
23537777 NNNNNNNNNN
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:23543556 original size:30 final size:30
Alignment explanation
Indices: 23543522--23543581 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
23543512 TTAAGTAAAG
23543522 ATAGCGCGAGTAAATAAATATTTTAAATAT
1 ATAGCGCGAGTAAATAAATATTTTAAATAT
23543552 ATAGCGCGAGTAAATAAATATTTTAAATAT
1 ATAGCGCGAGTAAATAAATATTTTAAATAT
23543582 TACGGGGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (30 bp):
ATAGCGCGAGTAAATAAATATTTTAAATAT
Found at i:23543916 original size:23 final size:24
Alignment explanation
Indices: 23543890--23543935 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
23543880 ATGAAATCAA
23543890 GTTTTCTTTAC-TTTCTTTTCCAT
1 GTTTTCTTTACTTTTCTTTTCCAT
*
23543913 GTTTTCTTTTCTTTTCTTTTCCA
1 GTTTTCTTTACTTTTCTTTTCCA
23543936 AACTTCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (24 bp):
GTTTTCTTTACTTTTCTTTTCCAT
Found at i:23545275 original size:4 final size:4
Alignment explanation
Indices: 23545266--23545415 Score: 111
Period size: 4 Copynumber: 37.5 Consensus size: 4
23545256 ATGGTGATGG
* * * ** *
23545266 ATAT ATAT ATAT ATAT ATAT ATAT ATAC ATAT GTAG ATAT GCAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * *
23545314 ATAC ATAT ATAT CTAT ATAT CTAT ATAT GTAT ATAC ATAC ATAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * ** * * * *
23545362 ATAT GTAT ATAC ATCC ATAT CTAT ATAT GTAT ATAT ATAC ATAT ATAG
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
23545410 ATAT AT
1 ATAT AT
23545416 GTGTTACAGA
Statistics
Matches: 110, Mismatches: 36, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
4 110 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:23548853 original size:30 final size:30
Alignment explanation
Indices: 23548819--23548930 Score: 109
Period size: 30 Copynumber: 3.7 Consensus size: 30
23548809 AACAACCAAT
* * *
23548819 GAATTTTAGGCATTGCGTGTATCATCTTAG
1 GAATTTTAGGCATGGCGTGTAACATCTTAA
* * * *
23548849 GAATTATAAGG-ATGGTGTGTAGCATCTTAT
1 GAATT-TTAGGCATGGCGTGTAACATCTTAA
* *
23548879 GAATTTTAGGCATGGCGTGTAACAACATAA
1 GAATTTTAGGCATGGCGTGTAACATCTTAA
* *
23548909 GAATTTTAGGTATGGCATGTAA
1 GAATTTTAGGCATGGCGTGTAA
23548931 AAACTTATTC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 4 0.06
30 59 0.88
31 4 0.06
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (30 bp):
GAATTTTAGGCATGGCGTGTAACATCTTAA
Found at i:23550572 original size:12 final size:12
Alignment explanation
Indices: 23550555--23550582 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23550545 CTTGAAGGCA
23550555 ACAGTAGCATTG
1 ACAGTAGCATTG
23550567 ACAGTAGCATTG
1 ACAGTAGCATTG
23550579 ACAG
1 ACAG
23550583 ACTTAGCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (12 bp):
ACAGTAGCATTG
Found at i:23555392 original size:63 final size:62
Alignment explanation
Indices: 23555324--23555473 Score: 178
Period size: 63 Copynumber: 2.4 Consensus size: 62
23555314 AACCGTACAT
* * *
23555324 GTGCAGAGTGGGCAGTGCATATGTCGGTTGAATGGCGATGTTGTGACAAC-TACAACCATGCATA
1 GTGCAGAGTGGGCAGTGCATATG-CGGTCGAATGACAATGTTGTGAC-ACTTACAACCATGCA-A
* **
23555388 -TGCAGAGTGGGCAGTGCATATGCTGGTCGAATGACAATGTTGTGACACTTATAACTGTGCAA
1 GTGCAGAGTGGGCAGTGCATATGC-GGTCGAATGACAATGTTGTGACACTTACAACCATGCAA
* *
23555450 GTGCAGAGTGGGTAGTGCACATGC
1 GTGCAGAGTGGGCAGTGCATATGC
23555474 CGGTAATGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
62 4 0.05
63 71 0.95
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (62 bp):
GTGCAGAGTGGGCAGTGCATATGCGGTCGAATGACAATGTTGTGACACTTACAACCATGCAA
Found at i:23555541 original size:2 final size:2
Alignment explanation
Indices: 23555534--23555569 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23555524 TATTCGTGTT
23555534 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23555570 GTAGGTAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23556428 original size:2 final size:2
Alignment explanation
Indices: 23556421--23556463 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23556411 TTTTAGGGTA
23556421 AT AT AT AT 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 AT AT AT AT
23556463 A
1 A
23556464 CTGAAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23557105 original size:19 final size:19
Alignment explanation
Indices: 23557081--23557122 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23557071 GGTGGCAAGG
23557081 TGAAAATGGCA-TGGAAGCT
1 TGAAAATGG-AGTGGAAGCT
*
23557100 TGAAAATGGAGTGGGAGCT
1 TGAAAATGGAGTGGAAGCT
23557119 TGAA
1 TGAA
23557123 GGAGCAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (19 bp):
TGAAAATGGAGTGGAAGCT
Found at i:23558339 original size:60 final size:60
Alignment explanation
Indices: 23558231--23558343 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
23558221 GATAGGAGAT
* *
23558231 AAAAACAGAAGGTTTTTCGCTGCAGCGAGATTCAATCTCACTGCAGTGAAATTGTAACCC
1 AAAAACAGAAGGTTTCTCGCTGCAACGAGATTCAATCTCACTGCAGTGAAATTGTAACCC
* * ** * *
23558291 AAAAATAGAAGGTTTCTCGCTGCAATGAGATTCTTTCTCGCTGTAGTGAAATT
1 AAAAACAGAAGGTTTCTCGCTGCAACGAGATTCAATCTCACTGCAGTGAAATT
23558344 TAGCTGATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (60 bp):
AAAAACAGAAGGTTTCTCGCTGCAACGAGATTCAATCTCACTGCAGTGAAATTGTAACCC
Found at i:23560964 original size:32 final size:32
Alignment explanation
Indices: 23560901--23560983 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
23560891 ACAATGTATA
*
23560901 TAACTGACAATATATATA-G--GCATGGCATG
1 TAACTAACAATATATATAGGCAGCATGGCATG
*
23560930 TAACTAACAATATATATAGGCAGCATGGCGTG
1 TAACTAACAATATATATAGGCAGCATGGCATG
*
23560962 TAACTAACAATATATATTGGCA
1 TAACTAACAATATATATAGGCA
23560984 TGGAGTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 17 0.35
30 1 0.02
32 30 0.62
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (32 bp):
TAACTAACAATATATATAGGCAGCATGGCATG
Found at i:23566209 original size:21 final size:21
Alignment explanation
Indices: 23566180--23566220 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23566170 TCTACGCTGC
*
23566180 CATGTCCTCAAATGCATACGA
1 CATGGCCTCAAATGCATACGA
*
23566201 CATGGCCTCAGATGCATACG
1 CATGGCCTCAAATGCATACG
23566221 CCAATACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
CATGGCCTCAAATGCATACGA
Found at i:23572201 original size:30 final size:30
Alignment explanation
Indices: 23572131--23572201 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
23572121 GCTTCGAACG
* *
23572131 TTAGGCATGGCACGTAGCATCTTATAATTT
1 TTAGGCATGGCACATAGCATCTTAGAATTT
* * **
23572161 TAAGGCATGGCATATAGCATCTTAGGGTTT
1 TTAGGCATGGCACATAGCATCTTAGAATTT
*
23572191 TTAGGTATGGC
1 TTAGGCATGGC
23572202 GTGTAACAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (30 bp):
TTAGGCATGGCACATAGCATCTTAGAATTT
Found at i:23573051 original size:41 final size:41
Alignment explanation
Indices: 23573006--23573085 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
23572996 CATATTGGGT
*
23573006 TATTGGGTTGAACTATTGAA-ATATAATATGTTATGATAGAC
1 TATTGGGTTGAACTATT-AAGATATAATATGTTATAATAGAC
* *
23573047 TATTGGGTTGGATTATTAAGATATAATATGTTATAATAG
1 TATTGGGTTGAACTATTAAGATATAATATGTTATAATAG
23573086 GTTTAGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (41 bp):
TATTGGGTTGAACTATTAAGATATAATATGTTATAATAGAC
Found at i:23576048 original size:31 final size:32
Alignment explanation
Indices: 23576010--23576091 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 32
23576000 ATACATAATG
* *
23576010 TGTAACAATATTTAACTTGCTAG-ACATGGCA
1 TGTAACAACATTTAACTTGCTAGTAAATGGCA
*
23576041 TGTAACAACA-TCAA-TTGCCTAGTAAATGGCA
1 TGTAACAACATTTAACTTG-CTAGTAAATGGCA
23576072 TGTAACAACATTTAACTTGC
1 TGTAACAACATTTAACTTGC
23576092 CACGCATGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 3 0.07
30 7 0.16
31 26 0.60
32 4 0.09
33 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (32 bp):
TGTAACAACATTTAACTTGCTAGTAAATGGCA
Found at i:23576101 original size:31 final size:31
Alignment explanation
Indices: 23576010--23576101 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
23576000 ATACATAATG
* *
23576010 TGTAACAATATTTAACTTGCTAGACATGGCA
1 TGTAACAACATTTAACTTGCCAGACATGGCA
* *
23576041 TGTAACAACA-TCAA-TTGCCTAGTAAATGGCA
1 TGTAACAACATTTAACTTGCC-AG-ACATGGCA
23576072 TGTAACAACATTTAACTTGCCACG-CATGGC
1 TGTAACAACATTTAACTTGCCA-GACATGGC
23576102 GTTTAATAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
29 4 0.08
30 5 0.10
31 31 0.62
32 4 0.08
33 6 0.12
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (31 bp):
TGTAACAACATTTAACTTGCCAGACATGGCA
Found at i:23576113 original size:62 final size:61
Alignment explanation
Indices: 23576010--23576140 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 61
23576000 ATACATAATG
* *
23576010 TGTAACAATATTTAACTTGCTAGACATGGCATGTAACAACATCAA-TTGCCTAGTAAATGGCA
1 TGTAACAACATTTAACTTGCCAGACATGGCATGTAACAACATCAATTTG--TAGTAAATGGCA
* * * * *
23576072 TGTAACAACATTTAACTTGCCACG-CATGGCGTTTAATAACATTAATTTGTTGTAAATGGCA
1 TGTAACAACATTTAACTTGCCA-GACATGGCATGTAACAACATCAATTTGTAGTAAATGGCA
*
23576133 TGCAACAA
1 TGTAACAA
23576141 AAATAAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
61 18 0.31
62 37 0.63
63 4 0.07
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (61 bp):
TGTAACAACATTTAACTTGCCAGACATGGCATGTAACAACATCAATTTGTAGTAAATGGCA
Found at i:23578021 original size:25 final size:25
Alignment explanation
Indices: 23577987--23578035 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
23577977 CCTTCAATAT
*
23577987 TGTCAAGCATTAAATAAGCCAAAGC
1 TGTCAAGCATGAAATAAGCCAAAGC
* *
23578012 TGTCAAGCATGAAATTATCCAAAG
1 TGTCAAGCATGAAATAAGCCAAAG
23578036 ACCATTCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (25 bp):
TGTCAAGCATGAAATAAGCCAAAGC
Found at i:23592657 original size:32 final size:30
Alignment explanation
Indices: 23592613--23592674 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
23592603 TTTTTAAAGG
23592613 GAAAAAAATTAAAA-T-AAAATATATAATATA
1 GAAAAAAATTAAAAGTGAAAATA-A-AATATA
23592643 GAAAAATATATTAAAAGTGAAAATAAAATATA
1 GAAAAA-A-ATTAAAAGTGAAAATAAAATATA
23592675 TAAGATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
30 6 0.21
31 1 0.04
32 13 0.46
33 2 0.07
34 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (30 bp):
GAAAAAAATTAAAAGTGAAAATAAAATATA
Found at i:23593979 original size:22 final size:23
Alignment explanation
Indices: 23593941--23593984 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
23593931 ATGTGAAGCA
*
23593941 AGTTTTCTTTTGGCAAA-AATAG
1 AGTTTTCTTTTGACAAATAATAG
23593963 AGTTTTC-TTTGTACAAATAATA
1 AGTTTTCTTTTG-ACAAATAATA
23593985 TATGAGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (23 bp):
AGTTTTCTTTTGACAAATAATAG
Found at i:23596235 original size:16 final size:16
Alignment explanation
Indices: 23596216--23596247 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23596206 GTAATTTAAT
23596216 TTATAAAATTATGTCA
1 TTATAAAATTATGTCA
*
23596232 TTATAACATTATGTCA
1 TTATAAAATTATGTCA
23596248 ATGTTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (16 bp):
TTATAAAATTATGTCA
Found at i:23598231 original size:40 final size:38
Alignment explanation
Indices: 23598139--23598241 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
23598129 ATATTGCCCG
* *
23598139 TGTGCACGATGTGGGGGGATGTACACGACGGCATTAGA
1 TGTGCACGATGTGGGGGGATGCACACGACGACATTAGA
* * *
23598177 TGTGCATGATGTGGGGGGATGCACACGATGAC-TCTAACTA
1 TGTGCACGATGTGGGGGGATGCACACGACGACAT-T-A-GA
23598217 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
23598242 TGAGCTAGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
37 1 0.02
38 29 0.52
39 1 0.02
40 25 0.45
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGACGACATTAGA
Found at i:23601522 original size:42 final size:41
Alignment explanation
Indices: 23601475--23601599 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 41
23601465 TGTTGATGTG
* *
23601475 GACCCGGCTATATGCGAGTAGGAGTGCACATAGGCCGTTGCT
1 GACCCGGCTATGTGCGAGT-GGAGTGCACATAAGCCGTTGCT
**
23601517 GACCCGGCTATGTGCGAGTGAGAGTGCACATAAGTAGTTGCT
1 GACCCGGCTATGTGCGAGTG-GAGTGCACATAAGCCGTTGCT
*
23601559 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGC
1 GACCCGGCTATGTGCGAGT-GGAGTGCACATAAGCCGTTGC
23601600 ATATAAGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 72 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (41 bp):
GACCCGGCTATGTGCGAGTGGAGTGCACATAAGCCGTTGCT
Found at i:23626712 original size:2 final size:2
Alignment explanation
Indices: 23626705--23626755 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
23626695 TGATGATTAG
23626705 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
23626747 TA CA TA TA T
1 TA TA TA TA T
23626756 GGTATATGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23627888 original size:20 final size:21
Alignment explanation
Indices: 23627843--23627889 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
23627833 AGATGTCTAA
*
23627843 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
23627864 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
23627884 AATAAT
1 AATAAT
23627890 ATTCAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:23627904 original size:17 final size:18
Alignment explanation
Indices: 23627876--23627919 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
23627866 TAATTGTTTG
23627876 AATAAAATAATAATATTC
1 AATAAAATAATAATATTC
23627894 AATAAAA-AATAATATT-
1 AATAAAATAATAATATTC
*
23627910 TATAAAATAA
1 AATAAAATAA
23627920 GAAATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 11 0.46
18 7 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAATAATAATATTC
Found at i:23627941 original size:24 final size:21
Alignment explanation
Indices: 23627894--23627934 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23627884 AATAATATTC
23627894 AATAAAAAATAATATTTATAA
1 AATAAAAAATAATATTTATAA
*
23627915 AATAAGAAATAATATTTATA
1 AATAAAAAATAATATTTATA
23627935 GAGAAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAAAAAATAATATTTATAA
Found at i:23630027 original size:27 final size:27
Alignment explanation
Indices: 23629989--23630041 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
23629979 GTGTCTTGGT
**
23629989 GGTGGAAAATTACTGTTTTGCCCCTAG
1 GGTGGAAAATTACCATTTTGCCCCTAG
*
23630016 GGTGGCAAATTACCATTTTGCCCCTA
1 GGTGGAAAATTACCATTTTGCCCCTA
23630042 TGCTCCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTGCCCCTAG
Found at i:23635197 original size:15 final size:15
Alignment explanation
Indices: 23635177--23635214 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
23635167 GAGCTTTTGC
23635177 ATTTAACAACATACT
1 ATTTAACAACATACT
23635192 ATTTAACAACATACT
1 ATTTAACAACATACT
23635207 ATTTAACA
1 ATTTAACA
23635215 TATTTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTTAACAACATACT
Found at i:23636672 original size:142 final size:142
Alignment explanation
Indices: 23636432--23636713 Score: 492
Period size: 142 Copynumber: 2.0 Consensus size: 142
23636422 TGACCCTTTG
* * * *
23636432 TTTTGAAATGACAAAATTGAATGACCTAAATGTGTTTTAAAATTTAGTCCAAGTGGTTTTGAGCT
1 TTTTGAAATGACAAAATTGAATGACCTAAATATGTTTTAAAATTAAGTCAAAGTGGTTTTGAACT
* *
23636497 TGAAGAACAATTCTCAAAGAAGTTTGAAGTTAATTGTACAAAGAAAAATCTTTTAAACTTTTAAA
66 TGAAGAACAATTCTCAAAGAAGTTTGAAATTAATTGTACAAAGAAAAATCTTTTAAACTCTTAAA
23636562 ATCTCAAGTTGT
131 ATCTCAAGTTGT
* *
23636574 TTTTGAAATGACAAAATTGAATGACCTAAATATGTTTTGAAATTAAGTCAAAGTGTTTTTGAACT
1 TTTTGAAATGACAAAATTGAATGACCTAAATATGTTTTAAAATTAAGTCAAAGTGGTTTTGAACT
23636639 TGAAGAACAATTCTCAAAGAAGTTTGAAATTAATTGTACAAAGAAAAATCTTTTAAACTCTTAAA
66 TGAAGAACAATTCTCAAAGAAGTTTGAAATTAATTGTACAAAGAAAAATCTTTTAAACTCTTAAA
23636704 ATCTCAAGTT
131 ATCTCAAGTT
23636714 CCAACATAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 132 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (142 bp):
TTTTGAAATGACAAAATTGAATGACCTAAATATGTTTTAAAATTAAGTCAAAGTGGTTTTGAACT
TGAAGAACAATTCTCAAAGAAGTTTGAAATTAATTGTACAAAGAAAAATCTTTTAAACTCTTAAA
ATCTCAAGTTGT
Found at i:23637358 original size:74 final size:74
Alignment explanation
Indices: 23637181--23637359 Score: 202
Period size: 74 Copynumber: 2.4 Consensus size: 74
23637171 GTGCCAAATG
* * *
23637181 GACAAGCAGAATCGACACCTTAAGATACAAAGGTCAATTCTCAGAAAAACAAAAAGTTGCTACCT
1 GACAAGAAGAATCGACACCTTAAGATACAAAAGTCAATTCTCAGAAAAACAAAAAGATGCTACCT
23637246 TTAAGATGA
66 TTAAGATGA
* * * * * *
23637255 GACAAGAAGAATCAACGCATCAAGATACAAAAGTCAATTCTTAGAAAAACAAAATGATGCTACCT
1 GACAAGAAGAATCGACACCTTAAGATACAAAAGTCAATTCTCAGAAAAACAAAAAGATGCTACCT
23637320 TCT-AGATGA
66 T-TAAGATGA
* * *
23637329 GGTA-AAG-AGATTTGACACCTTAAGCTACAAA
1 -G-ACAAGAAGAATCGACACCTTAAGATACAAA
23637360 GGTTGATTCC
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
74 80 0.93
75 5 0.06
76 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (74 bp):
GACAAGAAGAATCGACACCTTAAGATACAAAAGTCAATTCTCAGAAAAACAAAAAGATGCTACCT
TTAAGATGA
Found at i:23637562 original size:16 final size:16
Alignment explanation
Indices: 23637541--23637572 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23637531 ACATCATTTG
23637541 GAGAAAATAAAAGAAA
1 GAGAAAATAAAAGAAA
*
23637557 GAGAAAGTAAAAGAAA
1 GAGAAAATAAAAGAAA
23637573 AAGATGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
GAGAAAATAAAAGAAA
Found at i:23639209 original size:30 final size:30
Alignment explanation
Indices: 23639138--23639211 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
23639128 AATACGTTAC
*
23639138 TATAAGAGCTTATTTGGCTCAAAATAAAAA
1 TATAAGAGCTTATTGGGCTCAAAATAAAAA
* * *
23639168 TA-AAAAGGCTTATTGGGCTCAAAATGAAAG
1 TATAAGA-GCTTATTGGGCTCAAAATAAAAA
23639198 TATAAGAGCTTATT
1 TATAAGAGCTTATT
23639212 TGAATTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.08
30 31 0.84
31 3 0.08
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (30 bp):
TATAAGAGCTTATTGGGCTCAAAATAAAAA
Found at i:23639423 original size:2 final size:2
Alignment explanation
Indices: 23639410--23639479 Score: 94
Period size: 2 Copynumber: 37.0 Consensus size: 2
23639400 GTTCATTCTT
* *
23639410 TA TA TA TG TA TA TA TA -A TA TA TA TA T- TA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23639450 TA TA TA TA TA TA TA T- TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23639480 CTTTGAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
1 4 0.07
2 56 0.93
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23640829 original size:15 final size:15
Alignment explanation
Indices: 23640787--23640834 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
23640777 ATTTGACTAA
* *
23640787 TTTAAATAATAATCA
1 TTTAAATAAAAATCT
**
23640802 TTTAAATGTAAATCT
1 TTTAAATAAAAATCT
23640817 TTTAAATAAAAAT-T
1 TTTAAATAAAAATCT
23640831 TTTA
1 TTTA
23640835 GGAAGGTTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (15 bp):
TTTAAATAAAAATCT
Found at i:23642814 original size:73 final size:73
Alignment explanation
Indices: 23642689--23642847 Score: 174
Period size: 73 Copynumber: 2.2 Consensus size: 73
23642679 GTAGTGAGCA
* * ** * * * * *
23642689 CTTAGTCAACTAACTTCCTTTTTAATCGATTAAGTTGTTTTTGTCTTGAAGTCTAGATTTTTGGC
1 CTTAGTCAACTAACTTACTTCTTAATCGATTAAGTTAATTCTATCTTGAAGTCCAGATTTCTGAC
23642754 AGTAGACT
66 AGTAGACT
* ** * *
23642762 CTTAGTCAACTAATTTACTTCTTGGTCGATTAAGTTAATTCTATCTTTAAGTCCAGATTTCTGAT
1 CTTAGTCAACTAACTTACTTCTTAATCGATTAAGTTAATTCTATCTTGAAGTCCAGATTTCTGAC
23642827 AGTAGACT
66 AGTAGACT
* *
23642835 CTTGGTCGACTAA
1 CTTAGTCAACTAA
23642848 GTCTTTTCTA
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (73 bp):
CTTAGTCAACTAACTTACTTCTTAATCGATTAAGTTAATTCTATCTTGAAGTCCAGATTTCTGAC
AGTAGACT
Found at i:23650221 original size:17 final size:19
Alignment explanation
Indices: 23650180--23650221 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
23650170 GTTTATATAT
23650180 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
23650201 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
23650218 ATGA
1 ATGA
23650222 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:23650258 original size:37 final size:37
Alignment explanation
Indices: 23650216--23650297 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
23650206 TAATGTTGTG
*
23650216 TGATGATGTT-GAAGTGTGCGATTAGGGAGTGCACACA
1 TGATGATGTTAG-AGTGTGCGAGTAGGGAGTGCACACA
23650253 TGATGATGTTAGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTAGAGTGTGCGAGTAGGGAGTGCACACA
23650290 TGATGATG
1 TGATGATG
23650298 ATATTGCATT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 42 0.98
38 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (37 bp):
TGATGATGTTAGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:23655414 original size:35 final size:33
Alignment explanation
Indices: 23655324--23655424 Score: 98
Period size: 35 Copynumber: 3.0 Consensus size: 33
23655314 AAATCTTTTC
*
23655324 ACAATGGTTTTTACCGAGATCAATCAAAACCCA
1 ACAATGGTTTTTACCGAGATCAACCAAAACCCA
* ** * * *
23655357 A-AATGGCTTTT-CAAAGGCTCAACCACAACCTATA
1 ACAATGGTTTTTACCGA-GATCAACCAAAACC--CA
23655391 ACAATGGTTTTTACCGAGATCAACCAAAACCCA
1 ACAATGGTTTTTACCGAGATCAACCAAAACCCA
23655424 A
1 A
23655425 ACTAACCTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
31 2 0.04
32 20 0.40
33 3 0.06
34 2 0.04
35 21 0.42
36 2 0.04
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.23
Consensus pattern (33 bp):
ACAATGGTTTTTACCGAGATCAACCAAAACCCA
Found at i:23655982 original size:73 final size:73
Alignment explanation
Indices: 23655905--23656056 Score: 250
Period size: 73 Copynumber: 2.1 Consensus size: 73
23655895 GCAGTGAGCA
* * * *
23655905 CTTAGTTGACTAACTTCCTTCTTAGTTGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTCTGAC
1 CTTAGTTGACTAACTTACTTCTTAGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAAC
23655970 AATAGACT
66 AATAGACT
*
23655978 CTTAGTTGACTAACTTACTTCTTGGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAAC
1 CTTAGTTGACTAACTTACTTCTTAGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAAC
*
23656043 AGTAGACT
66 AATAGACT
23656051 CTTAGT
1 CTTAGT
23656057 CAACTAATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (73 bp):
CTTAGTTGACTAACTTACTTCTTAGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAAC
AATAGACT
Found at i:23656076 original size:73 final size:73
Alignment explanation
Indices: 23655913--23656085 Score: 215
Period size: 73 Copynumber: 2.4 Consensus size: 73
23655903 CACTTAGTTG
* * * *
23655913 ACTAACTTC-CTTCTTAGTTGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTCTGACAATAGAC
1 ACTAAC-TCACTTCTTGGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAACAATAGAC
**
23655977 TCTTAGTTG
65 TCTTAGTCA
* *
23655986 ACTAACTTACTTCTTGGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAACAGTAGACT
1 ACTAACTCACTTCTTGGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAACAATAGACT
23656051 CTTAGTCA
66 CTTAGTCA
* * *
23656059 ACTAA-TCCATTTTTTGGTCGACTAAGT
1 ACTAACT-CACTTCTTGGTCGATTAAGT
23656086 CTTTTCTATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
72 2 0.02
73 84 0.98
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (73 bp):
ACTAACTCACTTCTTGGTCGATTAAGTTGATTCTGTCTTGAAGTCCAAATTTCTAACAATAGACT
CTTAGTCA
Found at i:23661825 original size:44 final size:43
Alignment explanation
Indices: 23661749--23662042 Score: 242
Period size: 44 Copynumber: 6.7 Consensus size: 43
23661739 TTAAAAATCA
* * * * *
23661749 TTTTTAAAATTACGTTA-CCTCATGCCAGATGAGGAACTTACTCT
1 TTTTTAAAGTTACG-TAGTCTCATTCCAAATGAGGAGCTTA-TCT
* * *
23661793 TTTTTAAAGTTACGTAGTCTTACTCCAAATGAGGAGCTTATTT
1 TTTTTAAAGTTACGTAGTCTCATTCCAAATGAGGAGCTTATCT
* * *
23661836 CTTTTTAAAGTTACGTAG-CTTTAATCCAGATGAGCG-GCTTAT-T
1 -TTTTTAAAGTTACGTAGTC-TCATTCCAAATGAG-GAGCTTATCT
* * * * *
23661879 CCTTTTAAAGTTATGTAG-CTTCAATCCAGATGAGGGGCTTAT-T
1 -TTTTTAAAGTTACGTAGTC-TCATTCCAAATGAGGAGCTTATCT
* * * *
23661922 TCTTTTAAAGATACGTAGCCTCATTCCAAATAAAGAGCTTAT-T
1 T-TTTTAAAGTTACGTAGTCTCATTCCAAATGAGGAGCTTATCT
* *
23661965 TCTTTTCAAAGTTATGTAGTCTCATTCCAAATGAAGAGCTTATCT
1 T-TTTT-AAAGTTACGTAGTCTCATTCCAAATGAGGAGCTTATCT
23662010 CTTTTTAAAGTTACGTAGTCTCATTCCAAATGA
1 -TTTTTAAAGTTACGTAGTCTCATTCCAAATGA
23662043 AATGTTTATT
Statistics
Matches: 214, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.00
43 82 0.38
44 124 0.58
45 6 0.03
46 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (43 bp):
TTTTTAAAGTTACGTAGTCTCATTCCAAATGAGGAGCTTATCT
Found at i:23661898 original size:43 final size:42
Alignment explanation
Indices: 23661794--23662027 Score: 184
Period size: 43 Copynumber: 5.4 Consensus size: 42
23661784 ACTTACTCTT
* * *
23661794 TTTTAAAGTTACGTAG-TCTTACTCCAAATGAGGAGCTTATTTCT
1 TTTTAAAGTTACGTAGCT-TTAATCCAGATGAGG-GCTTA-TTCC
23661838 TTTTAAAGTTACGTAGCTTTAATCCAGATGAGCGGCTTATTCC
1 TTTTAAAGTTACGTAGCTTTAATCCAGATGAG-GGCTTATTCC
* * *
23661881 TTTTAAAGTTATGTAGCTTCAATCCAGATGAGGGGCTTATTTC
1 TTTTAAAGTTACGTAGCTTTAATCCAGATGA-GGGCTTATTCC
* * * * * * * *
23661924 TTTTAAAGATACGTAGCCTCATTCCAAATAAAGAGCTTATTTC
1 TTTTAAAGTTACGTAGCTTTAATCCAGAT-GAGGGCTTATTCC
* * * * * *
23661967 TTTTCAAAGTTATGTAG-TCTCATTCCAAATGAAGAGCTTATCTCT
1 TTTT-AAAGTTACGTAGCT-TTAATCCAGATG-AGGGCTTAT-TCC
23662012 TTTTAAAGTTACGTAG
1 TTTTAAAGTTACGTAG
23662028 TCTCATTCCA
Statistics
Matches: 162, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
43 79 0.49
44 76 0.47
45 7 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (42 bp):
TTTTAAAGTTACGTAGCTTTAATCCAGATGAGGGCTTATTCC
Found at i:23661920 original size:87 final size:87
Alignment explanation
Indices: 23661794--23662073 Score: 282
Period size: 87 Copynumber: 3.2 Consensus size: 87
23661784 ACTTACTCTT
* * * *
23661794 TTTTAAAGTTACGTAGTCTT-ACTCCAAATGAGGAGCTTATTTCTTTTTAAAGTTACGTAGCTTT
1 TTTTAAAGTTATGTAG-CTTCAATCCAAATGAGGAGCTTATTTCTTTTTAAAGTTACGTAGCCTC
* * *
23661858 AATCCAGAT-GAGCGGCTTATTCC
65 AATCCAAATAAAG-AGCTTATTCC
* * *
23661881 TTTTAAAGTTATGTAGCTTCAATCCAGATGAGGGGCTTATTTC-TTTTAAAGATACGTAGCCTCA
1 TTTTAAAGTTATGTAGCTTCAATCCAAATGAGGAGCTTATTTCTTTTTAAAGTTACGTAGCCTCA
* *
23661945 TTCCAAATAAAGAGCTTATTTC
66 ATCCAAATAAAGAGCTTATTCC
* * * *
23661967 TTTTCAAAGTTATGTAG-TCTCATTCCAAATGAAGAGCTTATCTCTTTTTAAAGTTACGTAGTCT
1 TTTT-AAAGTTATGTAGCT-TCAATCCAAATGAGGAGCTTATTTCTTTTTAAAGTTACGTAGCCT
* * *
23662031 CATTCCAAATGAAA-TGTTTATTCC
64 CAATCCAAAT-AAAGAGCTTATTCC
*
23662055 TTCTTTGAAGTTATGTAGC
1 -T-TTTAAAGTTATGTAGC
23662074 CTCATTCTAG
Statistics
Matches: 161, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
86 40 0.25
87 69 0.43
88 34 0.21
89 15 0.09
90 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (87 bp):
TTTTAAAGTTATGTAGCTTCAATCCAAATGAGGAGCTTATTTCTTTTTAAAGTTACGTAGCCTCA
ATCCAAATAAAGAGCTTATTCC
Found at i:23662043 original size:44 final size:44
Alignment explanation
Indices: 23661793--23662080 Score: 273
Period size: 44 Copynumber: 6.6 Consensus size: 44
23661783 AACTTACTCT
* * *
23661793 TTTTTAAAGTTACGTAGTCTTACTCCAAATGAGGAGCTTATTTC
1 TTTTTAAAGTTACGTAGTCTCATTCCAAATGAAGAGCTTATTTC
* * * *
23661837 TTTTTAAAGTTACGTAG-CTTTAATCCAGATG-AGCGGCTTA-TTC
1 TTTTTAAAGTTACGTAGTC-TCATTCCAAATGAAG-AGCTTATTTC
* * * * * *
23661880 CTTTTAAAGTTATGTAG-CTTCAATCCAGATGAGGGGCTTATTTC
1 TTTTTAAAGTTACGTAGTC-TCATTCCAAATGAAGAGCTTATTTC
* * *
23661924 -TTTTAAAGATACGTAGCCTCATTCCAAATAAAGAGCTTATTTC
1 TTTTTAAAGTTACGTAGTCTCATTCCAAATGAAGAGCTTATTTC
* * *
23661967 TTTTCAAAGTTATGTAGTCTCATTCCAAATGAAGAGCTTATCTC
1 TTTTTAAAGTTACGTAGTCTCATTCCAAATGAAGAGCTTATTTC
* *
23662011 TTTTTAAAGTTACGTAGTCTCATTCCAAATGAA-ATGTTTATTCC
1 TTTTTAAAGTTACGTAGTCTCATTCCAAATGAAGA-GCTTATTTC
* * *
23662055 TTCTTTGAAGTTATGTAGCCTCATTC
1 TT-TTTAAAGTTACGTAGTCTCATTC
23662081 TAGATTAAGA
Statistics
Matches: 207, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
43 74 0.36
44 113 0.55
45 20 0.10
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (44 bp):
TTTTTAAAGTTACGTAGTCTCATTCCAAATGAAGAGCTTATTTC
Found at i:23662238 original size:3 final size:3
Alignment explanation
Indices: 23662230--23662278 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
23662220 TTTGAAAATG
* * * *
23662230 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATC ATC ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23662278 A
1 A
23662279 ATATGAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23664648 original size:22 final size:22
Alignment explanation
Indices: 23664622--23664665 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23664612 AAAAAGGAAA
23664622 TTAAAAAGATATGGATAAATTT
1 TTAAAAAGATATGGATAAATTT
23664644 TTAAAAAGATATGGATAAATTT
1 TTAAAAAGATATGGATAAATTT
23664666 GAGTAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (22 bp):
TTAAAAAGATATGGATAAATTT
Found at i:23665596 original size:2 final size:2
Alignment explanation
Indices: 23665589--23665621 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23665579 TACTAGTAAC
23665589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23665622 TAAGCTAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23667850 original size:25 final size:23
Alignment explanation
Indices: 23667822--23667884 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 23
23667812 ATCATTTGAA
23667822 AAGAGAGAAGAAAAAAAGAGAAAG
1 AAGAGAGAAGAAAAAAAGA-AAAG
* **
23667846 TAAGAGGAAAAGAAAGCAAGAAAAG
1 -AAGA-GAGAAGAAAAAAAGAAAAG
23667871 AA-AGAGAAGAAAAA
1 AAGAGAGAAGAAAAA
23667885 CCTTCCAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.26
23 1 0.03
24 2 0.06
25 8 0.26
26 12 0.39
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (23 bp):
AAGAGAGAAGAAAAAAAGAAAAG
Found at i:23668148 original size:30 final size:31
Alignment explanation
Indices: 23668079--23668164 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
23668069 CATTATAGTT
* *
23668079 GGTTATACCTCTAGAGAAAAGGTAGATTAACA
1 GGTTATACCTCCATAGAAAAGGTAG-TTAACA
*
23668111 -ATTATACCTCCATAGAAAAGGTAGTTAA-A
1 GGTTATACCTCCATAGAAAAGGTAGTTAACA
*
23668140 GGTTATACCTCC-TACAAAAGGTAGT
1 GGTTATACCTCCATAGAAAAGGTAGT
23668165 GTGTGAAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
29 13 0.27
30 14 0.29
31 21 0.44
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (31 bp):
GGTTATACCTCCATAGAAAAGGTAGTTAACA
Found at i:23670971 original size:36 final size:36
Alignment explanation
Indices: 23670911--23670980 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
23670901 AAGGATTCTT
23670911 ACTTTTTAACGAGATCAAACGATAA-CTCTTACATCC
1 ACTTTTTAACGAGATCAAACGATAACCT-TTACATCC
**
23670947 ACTTTTTCAA-GAGATCAAGTGATAACCTTTACAT
1 ACTTTTT-AACGAGATCAAACGATAACCTTTACAT
23670981 AATCCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (36 bp):
ACTTTTTAACGAGATCAAACGATAACCTTTACATCC
Found at i:23671043 original size:89 final size:91
Alignment explanation
Indices: 23670891--23671073 Score: 223
Period size: 89 Copynumber: 2.0 Consensus size: 91
23670881 AGGAATTTCC
* *
23670891 AATCCAATAAAAGGATTCTTACTTTTTAACGAGATCAAACGATAACTCTTACATCCACTTTTTCA
1 AATCCAATAAAAAGATTCTTACTTTTTAACGAGATCAAACAATAACTCTTACATCCACTTTTTCA
*
23670956 -AGAGATCAAGTGATAACCTTTAC-AT
66 TAG-GATCAAGCGATAACCTTTACAAT
* ** **
23670981 AATCCAA-AAAAAGATTCTTACTTTTTAACGGGATCAAGTAATAA-TCCTTACAAT-GGCTTTTT
1 AATCCAATAAAAAGATTCTTACTTTTTAACGAGATCAAACAATAACT-CTTAC-ATCCACTTTTT
*
23671043 CATAGGATTAAGCGATAACCTTTACAAT
64 CATAGGATCAAGCGATAACCTTTACAAT
23671071 AAT
1 AAT
23671074 GGTTTTGCAA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
88 1 0.01
89 63 0.79
90 16 0.20
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (91 bp):
AATCCAATAAAAAGATTCTTACTTTTTAACGAGATCAAACAATAACTCTTACATCCACTTTTTCA
TAGGATCAAGCGATAACCTTTACAAT
Found at i:23676785 original size:21 final size:21
Alignment explanation
Indices: 23676745--23676786 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23676735 TTCAATTTTC
*
23676745 TTTTTTAATACATTTGCTTTA
1 TTTTCTAATACATTTGCTTTA
23676766 TTTTCTAA-ACATTTGACTTTA
1 TTTTCTAATACATTTG-CTTTA
23676787 CCTTCTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTCTAATACATTTGCTTTA
Found at i:23676792 original size:21 final size:20
Alignment explanation
Indices: 23676754--23676793 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23676744 CTTTTTTAAT
**
23676754 ACATTTGCTTTATTTTCTAA
1 ACATTTGCTTTACCTTCTAA
23676774 ACATTTGACTTTACCTTCTA
1 ACATTTG-CTTTACCTTCTA
23676794 GCTATATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (20 bp):
ACATTTGCTTTACCTTCTAA
Found at i:23678467 original size:35 final size:35
Alignment explanation
Indices: 23678428--23678595 Score: 131
Period size: 35 Copynumber: 4.8 Consensus size: 35
23678418 CAAACACTGT
* *
23678428 CTTTTCCAGAAGAGCAAGCATAACCTTTACACTAC
1 CTTTTCAAGAAGAGCAAGCATAACCTCTACACTAC
** * **
23678463 CTTTTCGTGAATAGCAAGCATAACCTCTACACTGT
1 CTTTTCAAGAAGAGCAAGCATAACCTCTACACTAC
* * * *
23678498 CTTTTTAAGAAGAGCAAGCATAACCTCTGCATTGC
1 CTTTTCAAGAAGAGCAAGCATAACCTCTACACTAC
* * * * * *
23678533 CTTTTTCAATAGGAACAAGCATAACCTATACATTGC
1 C-TTTTCAAGAAGAGCAAGCATAACCTCTACACTAC
* **
23678569 TTTTTCAAG-AGAAAAAAGCATAACCTC
1 CTTTTCAAGAAG-AGCAAGCATAACCTC
23678596 ATTACCTTTT
Statistics
Matches: 107, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 1 0.01
35 78 0.73
36 28 0.26
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.29
Consensus pattern (35 bp):
CTTTTCAAGAAGAGCAAGCATAACCTCTACACTAC
Found at i:23678559 original size:36 final size:35
Alignment explanation
Indices: 23678477--23678595 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
23678467 TCGTGAATAG
* * *
23678477 CAAGCATAACCTCTACACTGTCTTTTT-AAGAAGAG
1 CAAGCATAACCTCTACATTG-CTTTTTCAAGAGGAA
* *
23678512 CAAGCATAACCTCTGCATTGCCTTTTTCAATAGGAA
1 CAAGCATAACCTCTACATTG-CTTTTTCAAGAGGAA
* *
23678548 CAAGCATAACCTATACATTGCTTTTTCAAGAGAAA
1 CAAGCATAACCTCTACATTGCTTTTTCAAGAGGAA
*
23678583 AAAGCATAACCTC
1 CAAGCATAACCTC
23678596 ATTACCTTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 48 0.68
36 23 0.32
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (35 bp):
CAAGCATAACCTCTACATTGCTTTTTCAAGAGGAA
Found at i:23678693 original size:31 final size:30
Alignment explanation
Indices: 23678655--23678741 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
23678645 TATAACTTTT
*
23678655 ACTACCTTTACAAGGAGTTATAACCTTCAGC
1 ACTACCTTT-CAAGGAGGTATAACCTTCAGC
* * *
23678686 ACTACCTTCTCATGAAGGTGTAACCTTCAGC
1 ACTACCTT-TCAAGGAGGTATAACCTTCAGC
*
23678717 ACTACTTTTTCAAGGAGGTATAACC
1 ACTAC-CTTTCAAGGAGGTATAACC
23678742 ATTACAGTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 43 0.93
32 3 0.07
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (30 bp):
ACTACCTTTCAAGGAGGTATAACCTTCAGC
Found at i:23679536 original size:131 final size:132
Alignment explanation
Indices: 23679379--23679639 Score: 339
Period size: 131 Copynumber: 2.0 Consensus size: 132
23679369 TCTAATCTTA
* * *
23679379 TTTATAAGTCTTTTCTCTTTCTTGATC-TCCAAGTTTCTTGAATTTTATCCTTAGTGCTCTAGGA
1 TTTATAAGTCTTTTCTCTTTCTTGATCTTCCAAGGTTC-TGAATTTGATCCTTAGTGCTCTAAGA
* * ** * *
23679443 ATCGATTCTTTTTTTCCA-AAATTCGTTTCTTTGATCTTCAAAATTAGTGTGTTGACTTTTTGGC
65 ATCGATTCTTCTTTTCCAGAAATT-GGTTCTTTGATCTTCAAAATTAGCATCTTGACTTCTTGGC
23679507 TTTC
129 TTTC
* * * * * * *
23679511 TTTATATGTCTTTTCTCTTT-TTGATCTTCCAAGGTTCTGAATTTGGTCTTTTGTGTTTTAATAA
1 TTTATAAGTCTTTTCTCTTTCTTGATCTTCCAAGGTTCTGAATTTGATCCTTAGTGCTCTAAGAA
23679575 TCGATTCTTCTTTTCCAGAAATTGGTTCTTTGATCTTCAAAATTAGCATCTTGACTTCTTGGCTT
66 TCGATTCTTCTTTTCCAGAAATTGGTTCTTTGATCTTCAAAATTAGCATCTTGACTTCTTGGCTT
23679640 GGAGTTGATT
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
131 78 0.70
132 33 0.30
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (132 bp):
TTTATAAGTCTTTTCTCTTTCTTGATCTTCCAAGGTTCTGAATTTGATCCTTAGTGCTCTAAGAA
TCGATTCTTCTTTTCCAGAAATTGGTTCTTTGATCTTCAAAATTAGCATCTTGACTTCTTGGCTT
TC
Found at i:23682800 original size:29 final size:30
Alignment explanation
Indices: 23682738--23682811 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
23682728 TGTTGAATGC
*
23682738 TAGTTATTATGGATATTCAATATATCTTGCT
1 TAGTTATTGTGGATATT-AATATATCTTGCT
* *
23682769 TAGTTATTGTGGATATT-GTATATCTTGTT
1 TAGTTATTGTGGATATTAATATATCTTGCT
* *
23682798 TAGCTACTGTGGAT
1 TAGTTATTGTGGAT
23682812 GTTATAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 22 0.58
31 16 0.42
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (30 bp):
TAGTTATTGTGGATATTAATATATCTTGCT
Found at i:23685276 original size:42 final size:42
Alignment explanation
Indices: 23685212--23685348 Score: 184
Period size: 42 Copynumber: 3.3 Consensus size: 42
23685202 TTATGCGCAT
*
23685212 ATAGCCGGGTCAGCAATGGCTTATGTGCACTCCCACTCACAC
1 ATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
* * * * *
23685254 GTAGTCGGGTCAACAACGGCTTATGTGCACTCCTACTCGCAC
1 ATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
* ** *
23685296 ATAGCCGGGTCAGCAGCGGCTTATGTGCACTCTTACTCGCAC
1 ATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
23685338 ATAGCCGGGTC
1 ATAGCCGGGTC
23685349 CAAATCAACA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (42 bp):
ATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
Found at i:23689774 original size:42 final size:43
Alignment explanation
Indices: 23689716--23689804 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
23689706 TTATATGATA
23689716 ATGATGACCCAACTATGTAC-GTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTACGGTGTGGGAGTGCACATGAGCTG
* *
23689758 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTACGGTGTGGGAGTGCACATGAGCTG
23689801 ATGA
1 ATGA
23689805 CGATGGGATG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 18 0.41
43 26 0.59
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAACTATGTACGGTGTGGGAGTGCACATGAGCTG
Found at i:23690192 original size:39 final size:39
Alignment explanation
Indices: 23690138--23690227 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
23690128 TCACTGAAGT
* * *
23690138 GAGAAACTTTCTATTTTGCCTGTTGAATCTCGCTGTAAC
1 GAGAAACTTTCTATTTTGCCTCTTGAATCTCACTGCAAC
*
23690177 GAGAAACTTTCTATTTTGCCTCTTGAATCTCACTGCAGC
1 GAGAAACTTTCTATTTTGCCTCTTGAATCTCACTGCAAC
23690216 GAGAAACTTTCT
1 GAGAAACTTTCT
23690228 GTCTTGCATG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (39 bp):
GAGAAACTTTCTATTTTGCCTCTTGAATCTCACTGCAAC
Found at i:23691711 original size:57 final size:59
Alignment explanation
Indices: 23691633--23691790 Score: 160
Period size: 59 Copynumber: 2.7 Consensus size: 59
23691623 ATATACGTGC
* * * * *
23691633 CTAGCACCAAACCTTGTTAGATAAGCA-C-CAAGCATGTGTCTTAC-CACTTGCACATGT
1 CTAGCACCAAGCCTTGCTAGATAAGCATCACAAGCATGTGCCTGACTCA-TTACACATGT
* * * *
23691690 TTAGCACCAAGCTTTGCTAGATAGGCATCACATGCATGTGCCTGACTCATTACACATGT
1 CTAGCACCAAGCCTTGCTAGATAAGCATCACAAGCATGTGCCTGACTCATTACACATGT
* * * *
23691749 CTAGCACTAAGCCTTACTAGATAGGCATCAAAAGCATTGTGC
1 CTAGCACCAAGCCTTGCTAGATAAGCATCACAAGCA-TGTGC
23691791 TCCACTACCT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
57 22 0.27
58 1 0.01
59 52 0.63
60 7 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (59 bp):
CTAGCACCAAGCCTTGCTAGATAAGCATCACAAGCATGTGCCTGACTCATTACACATGT
Found at i:23698131 original size:12 final size:13
Alignment explanation
Indices: 23698096--23698125 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
23698086 ATCCCGATTT
23698096 TTTTTTTTTATGA
1 TTTTTTTTTATGA
23698109 TTTTTTTTTATGA
1 TTTTTTTTTATGA
23698122 TTTT
1 TTTT
23698126 ATTTATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTATGA
Found at i:23703495 original size:27 final size:25
Alignment explanation
Indices: 23703447--23703514 Score: 63
Period size: 27 Copynumber: 2.8 Consensus size: 25
23703437 NNNNNNNNAT
23703447 TATT-TTTATTT--TTTATTATTTA
1 TATTATTTATTTAATTTATTATTTA
*
23703469 -CTTATTTAATTTAATTTATATATTTTA
1 TATTATTT-ATTTAATTTAT-TA-TTTA
*
23703496 TATTATTTTTTTAATTTAT
1 TATTATTTATTTAATTTAT
23703515 GTGTCTACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.06
22 3 0.08
23 4 0.11
25 5 0.14
26 2 0.06
27 14 0.39
28 6 0.17
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (25 bp):
TATTATTTATTTAATTTATTATTTA
Found at i:23703503 original size:18 final size:17
Alignment explanation
Indices: 23703445--23703503 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
23703435 NNNNNNNNNN
*
23703445 ATTATTT-TTATTTTTT
1 ATTATTTATTATTTTAT
*
23703461 ATTATTTACTTATTTAAT
1 ATTATTTA-TTATTTTAT
23703479 -TTAATTTATATATTTTAT
1 ATT-ATTTAT-TATTTTAT
23703497 ATTATTT
1 ATTATTT
23703504 TTTTAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.20
17 3 0.09
18 23 0.66
19 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTATTTATTATTTTAT
Found at i:23703597 original size:32 final size:30
Alignment explanation
Indices: 23703559--23703639 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
23703549 ACGTTATATG
23703559 ATTAAAATATTAACAATTTTTATAATTTAAA
1 ATTAAAATATTAA-AATTTTTATAATTTAAA
* **
23703590 ATTTAAAATATT-AATTTTTTATAATTTGTA
1 A-TTAAAATATTAAAATTTTTATAATTTAAA
* *
23703620 ATGAAAATATTAAAAATTTT
1 ATTAAAATATTAAAATTTTT
23703640 GCTTTTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
29 9 0.21
30 21 0.50
31 2 0.05
32 10 0.24
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTAAAATATTAAAATTTTTATAATTTAAA
Found at i:23713146 original size:18 final size:19
Alignment explanation
Indices: 23713108--23713146 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23713098 ACATGTATTT
*
23713108 ATACAAGAGTTGGGTTGAG
1 ATACAAGAGTTGGGCTGAG
23713127 ATACAAGAGTT-GGCTGAG
1 ATACAAGAGTTGGGCTGAG
23713145 AT
1 AT
23713147 CGTCTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.26
Consensus pattern (19 bp):
ATACAAGAGTTGGGCTGAG
Found at i:23714160 original size:26 final size:26
Alignment explanation
Indices: 23714100--23714161 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
23714090 ACCATATACC
*
23714100 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
23714126 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
23714152 CATCATCATC
1 CATCATCATC
23714162 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:23714204 original size:30 final size:30
Alignment explanation
Indices: 23714168--23714244 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
23714158 CATCTCATAT
23714168 GCAACGGCTTATGTGCATATAGCCGGGTCA
1 GCAACGGCTTATGTGCATATAGCCGGGTCA
*
23714198 GCAACGGCTTATGCGCATATAGCCGGGTCA
1 GCAACGGCTTATGTGCATATAGCCGGGTCA
*
23714228 GCAACGACTTATGTGCA
1 GCAACGGCTTATGTGCA
23714245 CTCCCACTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (30 bp):
GCAACGGCTTATGTGCATATAGCCGGGTCA
Found at i:23714283 original size:42 final size:42
Alignment explanation
Indices: 23714211--23714436 Score: 389
Period size: 42 Copynumber: 5.4 Consensus size: 42
23714201 ACGGCTTATG
* *
23714211 CGCATATAGCCGGGTCAGCAACGACTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
* * * *
23714253 CACACATAGTCGAGTCAGCAACGGCTTATGTGCATTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
23714295 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
*
23714337 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
23714379 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
23714421 CGCACATAGCCGGGTC
1 CGCACATAGCCGGGTC
23714437 CAAATCAACA
Statistics
Matches: 172, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 172 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (42 bp):
CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
Found at i:23726398 original size:9 final size:9
Alignment explanation
Indices: 23726384--23726417 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
23726374 CTTTGTCTAG
23726384 GGAAAGAAA
1 GGAAAGAAA
*
23726393 GGAAAGGAA
1 GGAAAGAAA
23726402 GGAAAGAGAA
1 GGAAAGA-AA
23726412 GGAAAG
1 GGAAAG
23726418 GAGAAATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (9 bp):
GGAAAGAAA
Found at i:23736415 original size:22 final size:25
Alignment explanation
Indices: 23736390--23736435 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
23736380 TTTCGTTTTT
23736390 TAAAAA-AT-AAATTTT-ATTATAA
1 TAAAAAGATGAAATTTTAATTATAA
*
23736412 TAAAAAGTTGAAATTTTAATTATA
1 TAAAAAGATGAAATTTTAATTATA
23736436 TATTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 1 0.05
24 7 0.35
25 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
TAAAAAGATGAAATTTTAATTATAA
Found at i:23736456 original size:29 final size:28
Alignment explanation
Indices: 23736403--23736459 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
23736393 AAAATAAATT
*
23736403 TTATTATAATAAAAAGTTGAAATTTTAA
1 TTATTATAATAAAAAATTGAAATTTTAA
*
23736431 TTATATATTATAAAAAATT-AATATTTTAA
1 TTAT-TATAATAAAAAATTGAA-ATTTTAA
23736460 ATTTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTATTATAATAAAAAATTGAAATTTTAA
Found at i:23736521 original size:42 final size:42
Alignment explanation
Indices: 23736494--23736573 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
23736484 AATTTTTTTC
*
23736494 ATATTAAT-ATTTAAATTATAAATAAAATATTAGTATTTTAAA
1 ATATTAATGA-TTAAATTATAAATAAAATATTAATATTTTAAA
*
23736536 ATGTTAATGATTAAATTATAAATAAAATATTAATATTT
1 ATATTAATGATTAAATTATAAATAAAATATTAATATTT
23736574 AAGAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (42 bp):
ATATTAATGATTAAATTATAAATAAAATATTAATATTTTAAA
Found at i:23739093 original size:54 final size:55
Alignment explanation
Indices: 23739011--23739122 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 55
23739001 CTTTATAGGC
* * *
23739011 ATTACGTGACTGAATATATGTTAAGCATTGCGTGACAGGTAATA-GTGACTGAAT
1 ATTACCTGACTAAATATATGTTAAGCATTACGTGACAGGTAATACGTGACTGAAT
*
23739065 ATTACCTGACTAAATATATGTTGAGCATTACGTGACAGGTAATACGTGACTGAAT
1 ATTACCTGACTAAATATATGTTAAGCATTACGTGACAGGTAATACGTGACTGAAT
23739120 ATT
1 ATT
23739123 TATTAAGCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 40 0.75
55 13 0.25
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (55 bp):
ATTACCTGACTAAATATATGTTAAGCATTACGTGACAGGTAATACGTGACTGAAT
Found at i:23739666 original size:2 final size:2
Alignment explanation
Indices: 23739659--23739686 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23739649 ATTTGTGTCT
23739659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23739687 AGAAAATATC
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):
TA
Found at i:23741554 original size:20 final size:20
Alignment explanation
Indices: 23741529--23741572 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
23741519 CAATAATAAA
23741529 AAAATTAAAATAAATAACAT
1 AAAATTAAAATAAATAACAT
* *
23741549 AAAATTAAAATAACTAACTT
1 AAAATTAAAATAAATAACAT
23741569 AAAA
1 AAAA
23741573 GTAACCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATTAAAATAAATAACAT
Found at i:23745218 original size:22 final size:22
Alignment explanation
Indices: 23745190--23745254 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
23745180 CCACTTAATA
23745190 TATATTTTATTTTATTTTATTT
1 TATATTTTATTTTATTTTATTT
*
23745212 TATATTTT-TATTATTTTTATTT
1 TATATTTTATTTTA-TTTTATTT
*
23745234 TATTATTATTATGTTTTTTTT
1 TA-TATT-TTAT-TTTATTTT
23745255 CTTCTCCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 4 0.11
22 18 0.51
23 4 0.11
24 2 0.06
25 5 0.14
26 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (22 bp):
TATATTTTATTTTATTTTATTT
Found at i:23745219 original size:17 final size:16
Alignment explanation
Indices: 23745194--23745243 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
23745184 TTAATATATA
23745194 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
*
23745210 TTTATATTTT-TATTAT
1 TTT-TATTTTATTTTAT
23745226 TTTTATTTTATTATTAT
1 TTTTATTTTATT-TTAT
23745243 T
1 T
23745244 ATGTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:23745245 original size:6 final size:5
Alignment explanation
Indices: 23745192--23745243 Score: 61
Period size: 5 Copynumber: 9.8 Consensus size: 5
23745182 ACTTAATATA
23745192 TATTT TATTT TATTT TATTT TATATT T-TTAT TATTTT TATTT TATTAT
1 TATTT TATTT TATTT TATTT TAT-TT TATT-T TA-TTT TATTT TATT-T
23745240 TATT
1 TATT
23745244 ATGTTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.02
5 28 0.67
6 11 0.26
7 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:23745251 original size:17 final size:15
Alignment explanation
Indices: 23745192--23745243 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 15
23745182 ACTTAATATA
23745192 TATTTTATTTTATT-T
1 TATTTTATTTT-TTAT
23745207 TATTTTATATTTTTAT
1 TATTTTAT-TTTTTAT
23745223 TATTTTTATTTTATTAT
1 TA-TTTTATTTT-TTAT
23745240 TATT
1 TATT
23745244 ATGTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 10 0.30
16 11 0.33
17 12 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTATTTTTTAT
Found at i:23745474 original size:34 final size:34
Alignment explanation
Indices: 23745407--23745535 Score: 125
Period size: 34 Copynumber: 3.6 Consensus size: 34
23745397 AGCCCAGCTT
* *
23745407 CCTCTCTTTTCCTTCTCAAATATCCAACAGCACAAGG
1 CCTCTC-TTTCC-TCTCAAAAAT-CGACAGCACAAGG
* * *
23745444 CCTTTCTTTCCTCTCAAAAA-CTGGCAGCACAAAG
1 CCTCTCTTTCCTCTCAAAAATC-GACAGCACAAGG
* *
23745478 CCCCTCTTTCCTCTCAAAAATCGATAGCACAAGG
1 CCTCTCTTTCCTCTCAAAAATCGACAGCACAAGG
*
23745512 CCTCCCTTTCCTCTATCAAAAATC
1 CCTCTCTTTCCTC--TCAAAAATC
23745536 AGCTCCTTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
33 1 0.01
34 47 0.62
35 9 0.12
36 14 0.18
37 5 0.07
ACGTcount: A:0.28, C:0.36, G:0.09, T:0.28
Consensus pattern (34 bp):
CCTCTCTTTCCTCTCAAAAATCGACAGCACAAGG
Found at i:23747288 original size:30 final size:30
Alignment explanation
Indices: 23747252--23747310 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
23747242 GGAGTTACCT
*
23747252 TTGAGTGTGAGGGACCATTTGAACATATTC
1 TTGAGTGTGAGGGACCAGTTGAACATATTC
*
23747282 TTGAGTGTGAGGGACCAGTTGCACATATT
1 TTGAGTGTGAGGGACCAGTTGAACATATT
23747311 TCAACAGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAGTTGAACATATTC
Found at i:23748135 original size:112 final size:112
Alignment explanation
Indices: 23747948--23750051 Score: 1429
Period size: 111 Copynumber: 18.8 Consensus size: 112
23747938 GGTGCGTGAC
*
23747948 TGACTTGTGCAATTCATGTGTTGTTTTGATAGGCTTTTGTTCAGTAG-TTTTTAGGCTTTGCGTG
1 TGACTTGTGCAATTCATGTGTTGTTTTG--AGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTG
* * * * *
23748012 ATTGATTTTTATATATTGCGTTATCTGTTGTAGCAAGAGTGGGGGCGCT
64 ACTGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * * * * *
23748061 TGACTTGTGTAATTCATGTGTTATTTTGAAGCTTTTGTTTAGTAGGTTTTTAGGCAGTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* *
23748126 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGATGGTGCG
66 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
23748173 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAG-TTTTTAGGC-TTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* ** * *
23748236 TGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCA
66 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* **
23748283 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGG-ATTATGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * * * *
23748347 TGGTTTTTATATATTGCATTACCTGTTGTAGCGTGAGTGGTGCCACC
66 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * * * * * *
23748394 TGACTTCTGCAATTGATGTGTTATTTAGGGGCTTTTGTTCAGTAGTTTTTTAGGC-TTACATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * * *
23748458 TGGTTTTTATATATTGAGTTACCTGTTGTAGCTAGAATGGTGGCACG
66 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* *
23748505 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * *
23748570 TGATTTTTATATATTACGTTACTTGTTGTTATGTATTGCGAGAGTGGTTG-GCG
66 TGATTTTTATATATTGCGTTAC---CTG-T-TGTA--GCGAGAGTGGTGGCGCG
* * * * * *
23748623 TGACTTGTGCAATTCATGTTTTGTTTTAGGGGCTTTTGTTCA-AACATTTTTTAAG-ATTACGTG
1 TGACTTGTGCAATTCATGTGTTGTTTT-GAGGCTTTTGTTCAGTA-GTTTTTTAGGCATTGCGTG
* * * * * *
23748686 ACTGGTTTTTATATATTACGTTACCTATTTGTAACGTGAGTGGTGCCGCG
64 ACTGATTTTTATATATTGCGTTACCT-GTTGTAGCGAGAGTGGTGGCGCG
* * * * *
23748736 TGACTTGTGCAATTCATGTGTTGTTTAGGGGTTTTTGTTTAGTAGTTTTTTAGGC-TTGCATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * * **
23748800 TGATTTTTATGTATTGCGTTACATGCTATTATGTATTGCAATAGTGGTGGC-AN
66 TGATTTTTATATATTGCGTTAC---CT-GT-TGTA--GCGAGAGTGGTGGCGCG
* * * * * * * * **** * ** * ***
23748853 TG--TTGGGGCAGTACGTG-GATGGTTATGTTGGCATAACATGAGT-GGATATTAGGCATCAAGT
1 TGACTT-GTGCAATTCATGTG-TTGTTTTG-AGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGT
* * * * ** *
23748914 GACTTATTCTTA-AGTGTAGCG--A---G-ACT-G-GAG-GTGCGT-G-AC-
63 GACTGATTTTTATA-TATTGCGTTACCTGTTGTAGCGAGAGTG-GTGGCGCG
* * * * * * * * * * * * *
23748953 TGAGTTGTGCAATTTATCTCTTCTTTTAAGGCTTTTGGTCACTAGTTTTTGAAG-TTTTCGTGAT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * * *
23749017 TGGTTTTTATATATTGCGTGACCCGTTGTTA--TATA-T--T---GCG
66 TGATTTTTATATATTGCGTTACCTGTTG-TAGCGAGAGTGGTGGCGCG
* * * * *** * ** * * *
23749057 TGACATTGGGCCATTACGGAACTG-GTTATGTT--GGCATAACG-TGAGT-GGATATTAGGAATC
1 TGAC-TTGTGCAATT-C---A-TGTGTTGTTTTGAGGC-TTTTGTTCAGTAGTTTTTTAGGCATT
** * * ** * ** * *
23749117 AAGTGACTTATTATTAGGTATAGCG--A---G-ACT-GC-CG-GTGCGT-G-AC-
59 GCGTGACTGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTG-GTGGCGCG
* * *
23749160 TGACTTGTGTAATTCATGTTTTGTTTTGAGGCTTTTGTTCAGTGGTTTTTTAGGC-TTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * * * *
23749224 TGGTTTTTATATACTGCGTGACCTATTGTTATGTATTGCAAGAGTGGTTGCACG
66 TGATTTTTATATATTGCGTTACC---TG-T-TGTA--GCGAGAGTGGTGGCGCG
* * * *
23749278 TGACTTGTGCAATTCATGTGTTGTTTTGAGGTTTTTGTTTAGTAGTTTTTTAGGC-TTGCGTAAT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* *
23749342 TGGTTTTTATATATTACGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
66 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * *
23749389 TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTCAGTAGTTTTTTAGGCAGTACGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * ** * *
23749454 T-AGTTTTTATATACTACGTCACCTGTTGTAGCCTGAGTGGTGCCGCA
66 TGA-TTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * * * * *
23749501 TGACTTGTGCAATTCATGTATTATTTAGAGGCTTTTGTTCAGTAGATTTTT-GGGATTACGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * *
23749565 TGATTTTTATATATTACGTTACCTGTTGTAGCGTGAGTGGTGCCCCG
66 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * * * *
23749612 TGACTTGTGCAATTCTTGTGTTGTTTAGGGGCTTTTGGTCAGTAGTTTTTTAAGC-TTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* * * *
23749676 TGGTTTTTATATATTGTGTTACCTGTTGTTATGTATTGCGAGAGTGGTGGCACA
66 TGATTTTTATATATTGCGTTACC---TG-T-TGTA--GCGAGAGTGGTGGCGCG
* * * *
23749730 TGACTTGTGCAGTTCAAGTGTTGTTTTAAGGCTTTTGTTCAGTCA-TTTTTTAGG-ATTACGTGA
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGT-AGTTTTTTAGGCATTGCGTGA
* * * * *
23749793 CTGATTTTTATATATTGCGTTACCTATTGTAGTGTGAGTGGTGCCGCA
65 CTGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* *
23749841 TGACTTGTGCAATTCATGTGTTGTTTAG-GGCCTTTTGTTCAGTAGTTTTTTAGGC-TTGCATGA
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGG-CTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGA
* *
23749904 CT-AGTTTTTATATATTGCGTTACTTGTTGTTATGTATTGCGAGAGTGGTGGCACG
65 CTGA-TTTTTATATATTGCGTTAC---CTG-T-TGTA--GCGAGAGTGGTGGCGCG
* * * *
23749959 TGACTCGTGCAATTCATGTGTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTTGAC-TTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
* ** *
23750023 TGGTTTTTATATATTAAGTGACCTGTTGT
66 TGATTTTTATATATTGCGTTACCTGTTGT
23750052 TATGTATTGT
Statistics
Matches: 1556, Mismatches: 324, Indels: 222
0.74 0.15 0.11
Matches are distributed among these distances:
97 2 0.00
98 6 0.00
99 2 0.00
100 51 0.03
101 28 0.02
102 15 0.01
103 7 0.00
104 5 0.00
105 10 0.01
106 6 0.00
107 26 0.02
108 3 0.00
109 6 0.00
110 97 0.06
111 503 0.32
112 271 0.17
113 66 0.04
114 12 0.01
115 23 0.01
116 38 0.02
117 32 0.02
118 313 0.20
119 34 0.02
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (112 bp):
TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCGTGAC
TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
Found at i:23748446 original size:222 final size:221
Alignment explanation
Indices: 23747947--23750037 Score: 1335
Period size: 229 Copynumber: 9.4 Consensus size: 221
23747937 CGGTGCGTGA
* *
23747947 CTGACTTGTGCAATTCATGTGTTGTTTTGATAGGCTTTTGTTCAGTAGTTTTTAGGCTTTGCGTG
1 CTGACTTGTGCAATTCATGTGTTGTTTT-AGAGGCTTTTGTTCAGTAGTTTTTAGGC-TTACGTG
* * * ** * * * *
23748012 ATTGATTTTTATATATTGCGTTATCTGTTGTAGCAAGAGTGGGGGCGCTTGACTTGTGTAATTCA
64 ACTGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTCA
* * * * * *
23748077 TGTGTTATTTTGAAGCTTTTGTTTAGTAGGTTTTTAGGCAGTGCGTGACTGATTTTTATATATTG
129 TGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTG
*
23748142 CGTTACCTGTTGTAGCGAGAGTGATGGTGC
194 CGTTACCTGTTGTAGCGAGAGTGGT-G-GC
* *
23748172 GTGACTTGTGCAATTCATGTGTTGTTTT-GAGGCTTTTGTTCAGTAGTTTTTAGGCTTGCGTGAC
1 CTGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGCTTACGTGAC
*
23748236 TGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCATGACTTGTGCAATTCATG
66 TGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTCATG
* *** * *
23748301 TGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGG-ATTATGTGACTGGTTTTTATATATTGCA
131 TGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTGCG
* *
23748365 TTACCTGTTGTAGCGTGAGTGGTGCCAC
196 TTACCTGTTGTAGCGAGAGTGGTG--GC
* * * * *
23748393 CTGACTTCTGCAATTGATGTGTT-ATTTAGGGGCTTTTGTTCAGTAGTTTTTTAGGCTTACATGA
1 CTGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGGCTTACGTGA
* * * * * *
23748457 CTGGTTTTTATATATTGAGTTACCTGTTGTAG-CTAGAATGGTGGCACGTGACTTGTGCAATTCA
65 CTGATTTTTATATATTGCGTTACCTATTGTAGCCT-GAGTGGTGCCGCGTGACTTGTGCAATTCA
* *
23748521 TGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTA
129 TGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTG
*
23748586 CGTTACTTGTTGTTATGTATTGCGAGAGTGGTTGGC
194 CGTTAC---CTG-T-TGTA--GCGAGAGTGG-TGGC
* * * ** * * *
23748622 GTGACTTGTGCAATTCATGTTTTGTTTTAGGGGCTTTTGTTCAAACATTTTTTAAGATTACGTGA
1 CTGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTC-AGTAGTTTTTAGGCTTACGTGA
* * * *
23748687 CTGGTTTTTATATATTACGTTACCTATTTGTAACGTGAGTGGTGCCGCGTGACTTGTGCAATTCA
65 CTGATTTTTATATATTGCGTTACCTA-TTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTCA
* * * * *
23748752 TGTGTTGTTTAGGGGTTTTTGTTTAGTAGTTTTTTAGGC-TTGCATGACTGATTTTTATGTATTG
129 TGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTG
* * *
23748816 CGTTACATGCTATTATGTATTGCAATAGTGGTGGC
194 CGTTAC---CT-GT-TGTA--GCGAGAGTGGTGGC
* * * * * * * * * **** * * * * * *
23748851 ANTG--TTGGGGCAGTACGTG-GATG-GTTATGTTGGCATAACATGAGTGGATATTAGGCATCAA
1 -CTGACTT-GTGCAATTCATGTGTTGTTTTA-G-AGGCTTTTGTTCAGTAGTTTTTAGGC-TTAC
* * * * * * * *
23748912 GTGACTTA-TTCT-TA-A--GTG-TAGC----G-AGACTG-GAGGTG-CGTGACTGAGTTGTGCA
61 GTGACTGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCG--TGACTTGTGCA
* * * * * * * * ** * * * *
23748964 ATTTATCTCTTCTTTTA-AGGCTTTTGGTCACTAGTTTTTGAAG-TTTTCGTGATTGGTTTTTAT
124 ATTCATGTGTT-GTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTAT
* * * *
23749027 ATATTGCGTGACCCGTTGTTA--TATA-T--T-GC
188 ATATTGCGTTACCTGTTG-TAGCGAGAGTGGTGGC
* * * * * *** * * * * *
23749056 GTGACATTGGGCCATTACGGAACTG-GTTATGTT---GGCATAACG-TGAGTGGATATTAGGAAT
1 CTGAC-TTGTGCAATT-C---A-TGTGTTGTTTTAGAGGC-TTTTGTTCAGTAGTTTTTAGG-CT
* * * * ** * * * *
23749116 CAAGTGACTTATTATTAGGTATAGCG--A--GA--CT-GCC-G-GTGCGTG--AC-TGACTTGTG
58 TACGTGACTGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTG-GTGCCGCGTGACTTGTG
* * * * * * *
23749169 TAATTCATGTTTTGTTTTGAGGCTTTTGTTCAGTGGTTTTTTAGGC-TTGCGTGACTGGTTTTTA
122 CAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTA
* * * *
23749233 TATACTGCGTGACCTATTGTTATGTATTGCAAGAGTGGTTGC
187 TATATTGCGTTACC---TG-T-TGTA--GCGAGAGTGGTGGC
* * *
23749275 ACGTGACTTGTGCAATTCATGTGTTGTTTT-GAGGTTTTTGTTTAGTAGTTTTTTAGGCTTGCGT
1 -C-TGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGGCTTACGT
* * * * * ** *
23749339 AATTGGTTTTTATATATTACGTTACCTGTTGTAGCGAGAGTGGTGGCGCGTGACTTGTGCAATTC
63 GACTGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTC
* * * * *
23749404 ATGTGTTGTTTTGAGACTTTTGTTCAGTAGTTTTTTAGGCAGTACGTGACT-AGTTTTTATATAC
128 ATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGA-TTTTTATATAT
* * **
23749468 TACGTCACCTGTTGTAGCCTGAGTGGTGCCGC
192 TGCGTTACCTGTTGTAGCGAGAGTGGTG--GC
* * * * *
23749500 ATGACTTGTGCAATTCATGTATT-ATTTAGAGGCTTTTGTTCAGTAGATTTTTGGGATTACGTGA
1 CTGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGGCTTACGTGA
* * * * *
23749564 CTGATTTTTATATATTACGTTACCTGTTGTAGCGTGAGTGGTGCCCCGTGACTTGTGCAATTCTT
65 CTGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTCAT
* * * * * * *
23749629 GTGTTGTTTAGGGGCTTTTGGTCAGTAGTTTTTTAAGC-TTGCGTGACTGGTTTTTATATATTGT
130 GTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTGC
23749693 GTTACCTGTTGTTATGTATTGCGAGAGTGGTGGC
195 GTTACC---TG-T-TGTA--GCGAGAGTGGTGGC
* * * *
23749727 ACATGACTTGTGCAGTTCAAGTGTTGTTTTA-AGGCTTTTGTTCAGTCATTTTTTAGGATTACGT
1 -C-TGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGT-AGTTTTTAGGCTTACGT
** *
23749791 GACTGATTTTTATATATTGCGTTACCTATTGTAGTGTGAGTGGTGCCGCATGACTTGTGCAATTC
63 GACTGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTC
*
23749856 ATGTGTTGTTTAG-GGCCTTTTGTTCAGTAGTTTTTTAGGC-TTGCATGACT-AGTTTTTATATA
128 ATGTGTTGTTTAGAGG-CTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGA-TTTTTATATA
*
23749918 TTGCGTTACTTGTTGTTATGTATTGCGAGAGTGGTGGC
191 TTGCGTTAC---CTG-T-TGTA--GCGAGAGTGGTGGC
* * * *
23749956 ACGTGACTCGTGCAATTCATGTGTTGTTTTA-AGGCTTTTGTTCAGTAGTTTTTTTGACTTGCGT
1 -C-TGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGGCTTACGT
*
23750020 GACTGGTTTTTATATATT
63 GACTGATTTTTATATATT
23750038 AAGTGACCTG
Statistics
Matches: 1481, Mismatches: 280, Indels: 206
0.75 0.14 0.10
Matches are distributed among these distances:
204 2 0.00
205 2 0.00
206 9 0.01
207 100 0.07
208 4 0.00
209 3 0.00
210 5 0.00
211 13 0.01
212 9 0.01
213 3 0.00
214 1 0.00
215 7 0.00
216 13 0.01
217 67 0.05
218 28 0.02
219 9 0.01
220 13 0.01
221 88 0.06
222 229 0.15
223 205 0.14
224 2 0.00
225 37 0.02
226 9 0.01
227 17 0.01
228 22 0.01
229 370 0.25
230 143 0.10
231 70 0.05
232 1 0.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (221 bp):
CTGACTTGTGCAATTCATGTGTTGTTTTAGAGGCTTTTGTTCAGTAGTTTTTAGGCTTACGTGAC
TGATTTTTATATATTGCGTTACCTATTGTAGCCTGAGTGGTGCCGCGTGACTTGTGCAATTCATG
TGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACTGATTTTTATATATTGCG
TTACCTGTTGTAGCGAGAGTGGTGGC
Found at i:23748647 original size:118 final size:118
Alignment explanation
Indices: 23748394--23748847 Score: 449
Period size: 112 Copynumber: 3.9 Consensus size: 118
23748384 TGGTGCCACC
* * * * *
23748394 TGACTTCTGCAATTGATGTGTTATTTAGGGGCTTTTGTTCAGTAGTTTTTTAGGC-TTACATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGGGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCATGAC
* * * * * *
23748458 TGGTTTTTATATATTGA-GTTAC--CT-GT-TGTA--GCTAGAATGGTGGCACG
66 TGATTTTTATATATT-ACGTTACTGCTATTATGTATTGCGAGAGTGGTTGCGCG
* *
23748505 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGGGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCATGAC
* *
23748570 TGATTTTTATATATTACGTTACTTGTTGTTATGTATTGCGAGAGTGGTTG-GCG
66 TGATTTTTATATATTACGTTAC-TGCTATTATGTATTGCGAGAGTGGTTGCGCG
* * * * * *
23748623 TGACTTGTGCAATTCATGTTTTGTTTTAGGGGCTTTTGTTCA-AACATTTTTTAAG-ATTACGTG
1 TGACTTGTGCAATTCATGTGTTGTTTT-GGGGCTTTTGTTCAGTA-GTTTTTTAGGCATTGCATG
* * *
23748686 ACTGGTTTTTATATATTACGTTAC--CTATT-TGTA--ACGTGAGTGG-TGCCGCG
64 ACTGATTTTTATATATTACGTTACTGCTATTATGTATTGCGAGAGTGGTTG-CGCG
* * *
23748736 TGACTTGTGCAATTCATGTGTTGTTTAGGGGTTTTTGTTTAGTAGTTTTTTAGGC-TTGCATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGGGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCATGAC
* * * *
23748800 TGATTTTTATGTATTGCGTTACATGCTATTATGTATTGCAATAGTGGT
66 TGATTTTTATATATTACGTTAC-TGCTATTATGTATTGCGAGAGTGGT
23748848 GGCANTGTTG
Statistics
Matches: 278, Mismatches: 43, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
111 53 0.19
112 80 0.29
113 29 0.10
114 4 0.01
115 9 0.03
116 5 0.02
117 4 0.01
118 63 0.23
119 31 0.11
ACGTcount: A:0.19, C:0.11, G:0.24, T:0.45
Consensus pattern (118 bp):
TGACTTGTGCAATTCATGTGTTGTTTTGGGGCTTTTGTTCAGTAGTTTTTTAGGCATTGCATGAC
TGATTTTTATATATTACGTTACTGCTATTATGTATTGCGAGAGTGGTTGCGCG
Found at i:23749112 original size:207 final size:207
Alignment explanation
Indices: 23748872--23749262 Score: 548
Period size: 207 Copynumber: 1.9 Consensus size: 207
23748862 AGTACGTGGA
* * *
23748872 TGGTTATGTTGGCATAACATGAGTGGATATTAGGCATCAAGTGACTTATTCTTAAGTGTAGCGAG
1 TGGTTATGTTGGCATAACATGAGTGGATATTAGGAATCAAGTGACTTATTATTAAGTATAGCGAG
* * *
23748937 ACTGGAGGTGCGTGACTGAGTTGTGCAATTTATCTCTTCTTTTAAGGCTTTTGGTCACTAGTTTT
66 ACTGCAGGTGCGTGACTGACTTGTGCAATTCATCTCTTCTTTTAAGGCTTTTGGTCACTAGTTTT
* * * * *
23749002 TGAAGTTTTCGTGATTGGTTTTTATATATTGCGTGACCCGTTGTTATATATTGCGTGACATTGGG
131 TGAAGCTTGCGTGACTGGTTTTTATATACTGCGTGACCCATTGTTATATATTGCGTGACATTGGG
23749067 CCATTACGGAAC
196 CCATTACGGAAC
* *
23749079 TGGTTATGTTGGCATAACGTGAGTGGATATTAGGAATCAAGTGACTTATTATTAGGTATAGCGAG
1 TGGTTATGTTGGCATAACATGAGTGGATATTAGGAATCAAGTGACTTATTATTAAGTATAGCGAG
* * * * * * * * *
23749144 ACTGCCGGTGCGTGACTGACTTGTGTAATTCATGTTTTGTTTTGAGGCTTTTGTTCAGTGGTTTT
66 ACTGCAGGTGCGTGACTGACTTGTGCAATTCATCTCTTCTTTTAAGGCTTTTGGTCACTAGTTTT
* * * *
23749209 TTAGGCTTGCGTGACTGGTTTTTATATACTGCGTGACCTATTGTTATGTATTGC
131 TGAAGCTTGCGTGACTGGTTTTTATATACTGCGTGACCCATTGTTATATATTGC
23749263 AAGAGTGGTT
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
207 158 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (207 bp):
TGGTTATGTTGGCATAACATGAGTGGATATTAGGAATCAAGTGACTTATTATTAAGTATAGCGAG
ACTGCAGGTGCGTGACTGACTTGTGCAATTCATCTCTTCTTTTAAGGCTTTTGGTCACTAGTTTT
TGAAGCTTGCGTGACTGGTTTTTATATACTGCGTGACCCATTGTTATATATTGCGTGACATTGGG
CCATTACGGAAC
Found at i:23749304 original size:118 final size:114
Alignment explanation
Indices: 23749160--23750091 Score: 943
Period size: 118 Copynumber: 8.1 Consensus size: 114
23749150 GGTGCGTGAC
* * *
23749160 TGACTTGTGTAATTCATGTTTTGTTTTGAGGCTTTTGTTCAGTGGTTTTTTAGGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * *
23749225 GGTTTTTATATACTGCGTGACCTATTGTTATGTATTGCAAGAGTGGTTGCACG
66 GGTTTTTATATATTACGTTACCT-TTG-TATGTA-TGCGAGAGTGG-TGCACG
* * * *
23749278 TGACTTGTGCAATTCATGTGTTGTTTTGAGGTTTTTGTTTAGTAGTTTTTTAGGCTTGCGTAATT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
*
23749343 GGTTTTTATATATTACGTTACC--TGT-TGTA-GCGAGAGTGGTGGCGCG
66 GGTTTTTATATATTACGTTACCTTTGTATGTATGCGAGAGTGGT-GCACG
* * *
23749389 TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTCAGTAGTTTTTTAGGCAGTACGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGC-TTGCGTGAC
* * * **
23749454 TAGTTTTTATATACTACGTCACC--TGT-TGTA-GCCTGAGTGGTGC-CG
65 TGGTTTTTATATATTACGTTACCTTTGTATGTATGCGAGAGTGGTGCACG
* * * * * * *
23749499 CATGACTTGTGCAATTCATGTATTATTTAGAGGCTTTTGTTCAGTAGATTTTTGGGATTACGTGA
1 --TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGA
* * *
23749564 CTGATTTTTATATATTACGTTACC--TGT-TGTA-GCGTGAGTGGTGCCCCG
64 CTGGTTTTTATATATTACGTTACCTTTGTATGTATGCGAGAGTGGTG-CACG
* * * * *
23749612 TGACTTGTGCAATTCTTGTGTTGTTTAGGGGCTTTTGGTCAGTAGTTTTTTAAGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
** *
23749677 GGTTTTTATATATTGTGTTACCTGTTGTTATGTATTGCGAGAGTGGTGGCACA
66 GGTTTTTATATATTACGTTACCT-TTG-TATGTA-TGCGAGAGTGGT-GCACG
* * * * *
23749730 TGACTTGTGCAGTTCAAGTGTTGTTTTAAGGCTTTTGTTCAGTCA-TTTTTTAGGATTACGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGT-AGTTTTTTAGGCTTGCGTGAC
* * *
23749794 TGATTTTTATATATTGCGTTACCTATTGTA-G--T--GTGAGTGGTGC-CG
65 TGGTTTTTATATATTACGTTACCT-TTGTATGTATGCGAGAGTGGTGCACG
* *
23749839 CATGACTTGTGCAATTCATGTGTTGTTTAG-GGCCTTTTGTTCAGTAGTTTTTTAGGCTTGCATG
1 --TGACTTGTGCAATTCATGTGTTGTTTTGAGG-CTTTTGTTCAGTAGTTTTTTAGGCTTGCGTG
* * *
23749903 ACTAGTTTTTATATATTGCGTTACTTGTTGTTATGTATTGCGAGAGTGGTGGCACG
63 ACTGGTTTTTATATATTACGTTACCT-TTG-TATGTA-TGCGAGAGTGGT-GCACG
* * * *
23749959 TGACTCGTGCAATTCATGTGTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTTGACTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * * *
23750024 GGTTTTTATATATTAAGTGACCTGTTGTTATGTATTGTGAGAGCGGTGACGCG
66 GGTTTTTATATATTACGTTACCT-TTG-TATGTA-TGCGAGAGTGGTG-CACG
23750077 TGACTTGTGCAATTC
1 TGACTTGTGCAATTC
23750092 GCCTCTTGTT
Statistics
Matches: 689, Mismatches: 95, Indels: 60
0.82 0.11 0.07
Matches are distributed among these distances:
109 1 0.00
110 8 0.01
111 270 0.39
112 92 0.13
113 8 0.01
114 3 0.00
115 3 0.00
116 6 0.01
117 3 0.00
118 287 0.42
119 6 0.01
120 2 0.00
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (114 bp):
TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
GGTTTTTATATATTACGTTACCTTTGTATGTATGCGAGAGTGGTGCACG
Found at i:23750114 original size:118 final size:118
Alignment explanation
Indices: 23749832--23750123 Score: 361
Period size: 118 Copynumber: 2.5 Consensus size: 118
23749822 TAGTGTGAGT
* * * *
23749832 GGTGCCGCATGACTTGTGCAATTCATGTGTTGTTTAGGGCCTTTTGTTCAGTAGTTTTTTAGGCT
1 GGTGACGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTTAGACT
** * * *
23749897 TGCATGACTAGTTTTTATATATTGCGTTACTTGTTGTTATGTATTGCGAGAGT
66 TGCATGACTAGTTTTTATATATTAAGTGACCTGTTGTTATGTATTGCGAGAGC
* * * * *
23749950 GGTGGCACGTGACTCGTGCAATTCATGTGTTGTTTTA-AGGCTTTTGTTCAGTAGTTTTTTTGAC
1 GGTGACGCGTGACTTGTGCAATTCATGTGTTG-TTTAGGGGCTTTTGTTCAGTAGTTTTTTAGAC
* * *
23750014 TTGCGTGACTGGTTTTTATATATTAAGTGACCTGTTGTTATGTATTGTGAGAGC
65 TTGCATGACTAGTTTTTATATATTAAGTGACCTGTTGTTATGTATTGCGAGAGC
*** * * *
23750068 GGTGACGCGTGACTTGTGCAATTCGCCTCTTGTTTAGGGGCGTTTGTTCACTAGTT
1 GGTGACGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTT
23750124 ATTAGGCACT
Statistics
Matches: 146, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
117 4 0.03
118 138 0.95
119 4 0.03
ACGTcount: A:0.16, C:0.14, G:0.27, T:0.43
Consensus pattern (118 bp):
GGTGACGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTTAGACT
TGCATGACTAGTTTTTATATATTAAGTGACCTGTTGTTATGTATTGCGAGAGC
Found at i:23753607 original size:78 final size:78
Alignment explanation
Indices: 23753389--23753610 Score: 336
Period size: 78 Copynumber: 2.8 Consensus size: 78
23753379 ATATTTACAG
* *
23753389 CACAAGATGTTGCAGCAGCTGTGACCAGAACAACGAAGCAAAATAACTGCTGTGATTGGGGGACA
1 CACAAGATGTTGCAACAGCTGTGACCAGAACAACGAAGCAAAATGACTGCTGTGATTGGGGGACA
23753454 AGCATATCTAAAA
66 AGCATATCTAAAA
*
23753467 CACAAGATGTTGCAACAGCTGTGACCAGAACAACGAAGCAAAATGACTGTTGTGATTGGGGGACA
1 CACAAGATGTTGCAACAGCTGTGACCAGAACAACGAAGCAAAATGACTGCTGTGATTGGGGGACA
23753532 AGCATATCTAAAA
66 AGCATATCTAAAA
* * * * * * * * *
23753545 CACAAGATGTTACAACAGTTGTGACCAGTACAATGAAGCAAACTGAGTGCGGTGACTAGGGGACA
1 CACAAGATGTTGCAACAGCTGTGACCAGAACAACGAAGCAAAATGACTGCTGTGATTGGGGGACA
23753610 A
66 A
23753611 AAGATGTGAA
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 131 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (78 bp):
CACAAGATGTTGCAACAGCTGTGACCAGAACAACGAAGCAAAATGACTGCTGTGATTGGGGGACA
AGCATATCTAAAA
Found at i:23759510 original size:13 final size:13
Alignment explanation
Indices: 23759492--23759516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23759482 TTTCAAAAAA
23759492 TTTATAAAATCAT
1 TTTATAAAATCAT
23759505 TTTATAAAATCA
1 TTTATAAAATCA
23759517 CAATTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23762304 original size:49 final size:49
Alignment explanation
Indices: 23762246--23762494 Score: 195
Period size: 49 Copynumber: 5.2 Consensus size: 49
23762236 ATGCGAGTCA
*
23762246 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGCTTCC
1 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
* * * * *** * * * * *
23762295 ATATTAACTAGTAACGCCACTCCAC-ATTTA-TTA-CTCACGCAAGTCA
1 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
* * *
23762341 ATATAAACTAGTGACGCGATTTCACGAAGAAGTCATGTCACGCGCTTCC
1 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
* * * * *** * * * * *
23762390 ATATTAACTAGTAACGCCACTCCAC-ATTTA-TTA-CTCACTCGAGTCA
1 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
23762436 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
1 ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
*
23762485 ATATTAACTA
1 ATATAAACTA
23762495 CCGACGTGAT
Statistics
Matches: 140, Mismatches: 54, Indels: 12
0.68 0.26 0.06
Matches are distributed among these distances:
46 57 0.41
47 8 0.06
48 8 0.06
49 67 0.48
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (49 bp):
ATATAAACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGATTCC
Found at i:23762351 original size:46 final size:46
Alignment explanation
Indices: 23762205--23762452 Score: 154
Period size: 46 Copynumber: 5.3 Consensus size: 46
23762195 ATTCCATAAT
* * * *
23762205 AACTACTAACGACACTCCACATTGATTACTCATGCGAGTCAATATA
1 AACTAGTAACGCCACTCCACATTAATTACTCACGCGAGTCAATATA
* * * ** * * ** * *
23762251 AACTAGTGACGCGATTCCACGAAAAAGTCATGTCACGCGCTTCCATATT
1 AACTAGTAACGCCACTCCAC-ATTAA-TTA-CTCACGCGAGTCAATATA
* *
23762300 AACTAGTAACGCCACTCCACATTTATTACTCACGCAAGTCAATATA
1 AACTAGTAACGCCACTCCACATTAATTACTCACGCGAGTCAATATA
* * * * ** * * ** * *
23762346 AACTAGTGACGCGATTTCACGAAGAAGTCATGTCACGCGCTTCCATATT
1 AACTAGTAACGCCACTCCAC-ATTAA-TTA-CTCACGCGAGTCAATATA
* *
23762395 AACTAGTAACGCCACTCCACATTTATTACTCACTCGAGTCAATATA
1 AACTAGTAACGCCACTCCACATTAATTACTCACGCGAGTCAATATA
*
23762441 AACTAGTGACGC
1 AACTAGTAACGC
23762453 GATTCCACGA
Statistics
Matches: 139, Mismatches: 57, Indels: 12
0.67 0.27 0.06
Matches are distributed among these distances:
46 66 0.47
47 8 0.06
48 8 0.06
49 57 0.41
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (46 bp):
AACTAGTAACGCCACTCCACATTAATTACTCACGCGAGTCAATATA
Found at i:23762359 original size:95 final size:95
Alignment explanation
Indices: 23762196--23762494 Score: 508
Period size: 95 Copynumber: 3.1 Consensus size: 95
23762186 ACTGATGCCA
* * * * *
23762196 TTCCATAATAACTACTAACGACACTCCACATTGATTACTCATGCGAGTCAATATAAACTAGTGAC
1 TTCCATATTAACTAGTAACGCCACTCCACATTTATTACTCACGCGAGTCAATATAAACTAGTGAC
23762261 GCGATTCCACGAAAAAGTCATGTCACGCGC
66 GCGATTCCACGAAAAAGTCATGTCACGCGC
*
23762291 TTCCATATTAACTAGTAACGCCACTCCACATTTATTACTCACGCAAGTCAATATAAACTAGTGAC
1 TTCCATATTAACTAGTAACGCCACTCCACATTTATTACTCACGCGAGTCAATATAAACTAGTGAC
* *
23762356 GCGATTTCACGAAGAAGTCATGTCACGCGC
66 GCGATTCCACGAAAAAGTCATGTCACGCGC
*
23762386 TTCCATATTAACTAGTAACGCCACTCCACATTTATTACTCACTCGAGTCAATATAAACTAGTGAC
1 TTCCATATTAACTAGTAACGCCACTCCACATTTATTACTCACGCGAGTCAATATAAACTAGTGAC
*
23762451 GCGATTCCACGAAAAAGTCATGTCACGCGA
66 GCGATTCCACGAAAAAGTCATGTCACGCGC
23762481 TTCCATATTAACTA
1 TTCCATATTAACTA
23762495 CCGACGTGAT
Statistics
Matches: 191, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 191 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (95 bp):
TTCCATATTAACTAGTAACGCCACTCCACATTTATTACTCACGCGAGTCAATATAAACTAGTGAC
GCGATTCCACGAAAAAGTCATGTCACGCGC
Found at i:23762708 original size:23 final size:23
Alignment explanation
Indices: 23762676--23762736 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 23
23762666 TTATCACATG
*
23762676 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
23762700 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
23762726 AATGATACAAA
1 AATGATACAAA
23762737 ATAATGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 4 0.12
26 22 0.67
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:23762714 original size:26 final size:26
Alignment explanation
Indices: 23762683--23762735 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23762673 ATGAATGAAT
*
23762683 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
23762709 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
23762735 A
1 A
23762736 AATAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:23764674 original size:68 final size:69
Alignment explanation
Indices: 23764590--23764748 Score: 241
Period size: 68 Copynumber: 2.3 Consensus size: 69
23764580 GCTCATGCAG
* *
23764590 TGACTGCGTCTGCATCTACATCGCCCGCTAGATCTCCAACTGCATTGACTGCTG-ATCTAC-AAC
1 TGACTGCATCTGCATCTGCATCGCCCGCTAGATCTCCAACTGCATTGACTGCTGAATCT-CTAAC
23764653 TACAT
65 TACAT
* * * *
23764658 TGACTGCTTCTGCATCTGCATAGCCCGTTGGATCTCCAACTGCATTGACTGCTGAATCTCTAACT
1 TGACTGCATCTGCATCTGCATCGCCCGCTAGATCTCCAACTGCATTGACTGCTGAATCTCTAACT
23764723 ACAT
66 ACAT
23764727 TGACTGCATCTGCATCTGCATC
1 TGACTGCATCTGCATCTGCATC
23764749 TGCATATTCG
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
68 50 0.61
69 32 0.39
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (69 bp):
TGACTGCATCTGCATCTGCATCGCCCGCTAGATCTCCAACTGCATTGACTGCTGAATCTCTAACT
ACAT
Found at i:23764716 original size:24 final size:23
Alignment explanation
Indices: 23764620--23764733 Score: 106
Period size: 24 Copynumber: 5.0 Consensus size: 23
23764610 TCGCCCGCTA
23764620 GATCTCCAACTGCATTGACTGCT
1 GATCTCCAACTGCATTGACTGCT
* *
23764643 GATCTACAACTACATTGACTGCT
1 GATCTCCAACTGCATTGACTGCT
* * * * * *
23764666 --TCTGCATCTGCATAGCCCGTT
1 GATCTCCAACTGCATTGACTGCT
23764687 GGATCTCCAACTGCATTGACTGCT
1 -GATCTCCAACTGCATTGACTGCT
* *
23764711 GAATCTCTAACTACATTGACTGC
1 G-ATCTCCAACTGCATTGACTGC
23764734 ATCTGCATCT
Statistics
Matches: 70, Mismatches: 17, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
21 14 0.20
23 22 0.31
24 34 0.49
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (23 bp):
GATCTCCAACTGCATTGACTGCT
Found at i:23776116 original size:15 final size:15
Alignment explanation
Indices: 23776096--23776128 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
23776086 TGATGTTGAT
23776096 GTGTGCGATTAGGGA
1 GTGTGCGATTAGGGA
23776111 GTGTGCGATTAGGGA
1 GTGTGCGATTAGGGA
23776126 GTG
1 GTG
23776129 CACACGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.48, T:0.27
Consensus pattern (15 bp):
GTGTGCGATTAGGGA
Found at i:23776124 original size:50 final size:50
Alignment explanation
Indices: 23776061--23776163 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
23776051 TGATGTTGAT
*
23776061 GTGTGCGAGTAGGGAGTGCACACGATGATGTTGATGTGTGCGATTAGGGA
1 GTGTGCGAGTAGGGAGTGCACACGATGATGTTGATGTGTGCGAGTAGGGA
*
23776111 GTGTGCGATTAGGGAGTGCACACGATGATGTTGATGTGTGCGAGTAGGGA
1 GTGTGCGAGTAGGGAGTGCACACGATGATGTTGATGTGTGCGAGTAGGGA
23776161 GTG
1 GTG
23776164 CACACAATGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.21, C:0.10, G:0.43, T:0.26
Consensus pattern (50 bp):
GTGTGCGAGTAGGGAGTGCACACGATGATGTTGATGTGTGCGAGTAGGGA
Found at i:23776159 original size:35 final size:35
Alignment explanation
Indices: 23776111--23776209 Score: 153
Period size: 35 Copynumber: 2.8 Consensus size: 35
23776101 CGATTAGGGA
*
23776111 GTGTGCGATTAGGGAGTGCACACGATGATGTTGAT
1 GTGTGCGAGTAGGGAGTGCACACGATGATGTTGAT
* *
23776146 GTGTGCGAGTAGGGAGTGCACACAATGTTGTTGAT
1 GTGTGCGAGTAGGGAGTGCACACGATGATGTTGAT
* *
23776181 GTGTGTGAGTAAGGAGTGCACACGATGAT
1 GTGTGCGAGTAGGGAGTGCACACGATGAT
23776210 ATTGCCTTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.24, C:0.11, G:0.37, T:0.27
Consensus pattern (35 bp):
GTGTGCGAGTAGGGAGTGCACACGATGATGTTGAT
Found at i:23778283 original size:2 final size:2
Alignment explanation
Indices: 23778272--23778354 Score: 99
Period size: 2 Copynumber: 44.5 Consensus size: 2
23778262 AAAAGTAATA
23778272 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
23778312 AN AT A- AT -T A- AT AT AT A- AT -T AT AT AGT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
23778350 AT AT A
1 AT AT A
23778355 AAAAAAAAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
1 7 0.10
2 62 0.87
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23778418 original size:1 final size:1
Alignment explanation
Indices: 23778354--23778403 Score: 100
Period size: 1 Copynumber: 50.0 Consensus size: 1
23778344 ATATATATAT
23778354 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23778404 GAAAGGAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23786006 original size:24 final size:23
Alignment explanation
Indices: 23785950--23786006 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
23785940 GTTAAGTGAG
23785950 TTTTATTTT-CTATTTAATTTTA
1 TTTTATTTTACTATTTAATTTTA
*
23785972 GTTTTAGTTTACTAGTTTTAATTTT-
1 -TTTTATTTTACTA--TTTAATTTTA
23785997 TTTTATTTTA
1 TTTTATTTTA
23786007 ATTGTTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 8 0.28
24 12 0.41
26 9 0.31
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTATTTTACTATTTAATTTTA
Found at i:23786013 original size:24 final size:25
Alignment explanation
Indices: 23785962--23786013 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
23785952 TTATTTTCTA
*
23785962 TTTAATTTTAGTTTTAGTTTACTAGT
1 TTTAATTTTA-TTTTAGTTTAATAGT
* *
23785988 TTTAATTTT-TTTTATTTTAATTGT
1 TTTAATTTTATTTTAGTTTAATAGT
23786012 TT
1 TT
23786014 GGATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
26 9 0.39
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTAATTTTATTTTAGTTTAATAGT
Found at i:23788244 original size:16 final size:17
Alignment explanation
Indices: 23788219--23788257 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
23788209 CAAGGGCTTT
* *
23788219 AGGCCCCCAATTTGGAG
1 AGGCCCCAAATTTGGAA
23788236 AGGCCCCAAATTTGGAA
1 AGGCCCCAAATTTGGAA
23788253 AGGCC
1 AGGCC
23788258 TTATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.15
Consensus pattern (17 bp):
AGGCCCCAAATTTGGAA
Found at i:23789079 original size:30 final size:30
Alignment explanation
Indices: 23789043--23789106 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
23789033 CAAGAAGTTA
23789043 ATGAAGAGATTCAAAATGATCATAGAAATC
1 ATGAAGAGATTCAAAATGATCATAGAAATC
*
23789073 ATGAAGAGATTCAAAATGATTATAGAAATC
1 ATGAAGAGATTCAAAATGATCATAGAAATC
23789103 ATGA
1 ATGA
23789107 TGAAGAGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (30 bp):
ATGAAGAGATTCAAAATGATCATAGAAATC
Found at i:23790548 original size:28 final size:29
Alignment explanation
Indices: 23790503--23790566 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
23790493 GTCTATGGGC
* * *
23790503 AATTTTTCAGTTT-TTGGGGTAAAAATGT
1 AATTTTTCACTTTATGGGGGCAAAAATGT
*
23790531 AATTTTTCACTTTATGGGGGCAAAAGTGT
1 AATTTTTCACTTTATGGGGGCAAAAATGT
23790560 AATTTTT
1 AATTTTT
23790567 AAAAATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.45
Consensus pattern (29 bp):
AATTTTTCACTTTATGGGGGCAAAAATGT
Found at i:23795100 original size:2 final size:2
Alignment explanation
Indices: 23795093--23795128 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
23795083 TGATGACAAC
23795093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23795129 CACATAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.