Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 135 of 187
Found at i:40386094 original size:20 final size:19
Alignment explanation
Indices: 40386044--40386095 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
40386034 AATAGTTCTG
*
40386044 TCTCTTGATAAACAGTTGTA
1 TCTCTTG-TGAACAGTTGTA
*
40386064 TGT-TT-TGAACAGTTGTA
1 TCTCTTGTGAACAGTTGTA
40386081 TCTCTTGGTGAACAG
1 TCTCTT-GTGAACAG
40386096 ATTCATTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (19 bp):
TCTCTTGTGAACAGTTGTA
Found at i:40386671 original size:21 final size:20
Alignment explanation
Indices: 40386641--40386683 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
40386631 TTTTTGCTCT
*
40386641 GCTTTGCTTCTCTCGCTACA
1 GCTTTGCTTCCCTCGCTACA
*
40386661 GCTTTCGCTTCCCTCGCTGCA
1 GCTTT-GCTTCCCTCGCTACA
40386682 GC
1 GC
40386684 CGCTGCTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.07, C:0.40, G:0.19, T:0.35
Consensus pattern (20 bp):
GCTTTGCTTCCCTCGCTACA
Found at i:40392944 original size:42 final size:42
Alignment explanation
Indices: 40392885--40392968 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
40392875 ATAGAAACAA
40392885 ACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAAT
1 ACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAAT
*
40392927 ACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCTAAAT
1 ACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAAT
40392969 CGTAATGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (42 bp):
ACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAAT
Found at i:40400978 original size:11 final size:11
Alignment explanation
Indices: 40400962--40400993 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
40400952 CACTGCATAC
40400962 TTACCATAGCT
1 TTACCATAGCT
40400973 TTACCATAGCT
1 TTACCATAGCT
40400984 TTACCATAGC
1 TTACCATAGC
40400994 ATTAATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (11 bp):
TTACCATAGCT
Found at i:40402720 original size:34 final size:33
Alignment explanation
Indices: 40402677--40402757 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 33
40402667 TCAGTGAATA
*
40402677 TTATCCTTTCTTCTTATCTTTCCTTCCTTACACT
1 TTATCCTTTCTTCTTATCTTTCATTCCTTACA-T
*
40402711 TTATCCTTTCTTCTTTTCTTTCATTCCTTACAT
1 TTATCCTTTCTTCTTATCTTTCATTCCTTACAT
*
40402744 TT-TCCCTTC-TCTTA
1 TTATCCTTTCTTCTTA
40402758 GACTTGGCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 4 0.09
32 6 0.14
33 3 0.07
34 30 0.70
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.58
Consensus pattern (33 bp):
TTATCCTTTCTTCTTATCTTTCATTCCTTACAT
Found at i:40405940 original size:20 final size:20
Alignment explanation
Indices: 40405917--40405954 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
40405907 TAAATTTATT
*
40405917 ATAAGTGAATGAAATGGTAA
1 ATAAGTAAATGAAATGGTAA
40405937 ATAAGTAAATGAAATGGT
1 ATAAGTAAATGAAATGGT
40405955 TTATCGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (20 bp):
ATAAGTAAATGAAATGGTAA
Found at i:40407578 original size:28 final size:28
Alignment explanation
Indices: 40407522--40407578 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
40407512 ATACGGGGTG
* * *
40407522 TTACATCGTGTTTACTGTCCCGACGGAC
1 TTACATCGTCTTTACTGTCCCAACAGAC
*
40407550 TTACCTCGTCTTTACTGTCCCAACAGAC
1 TTACATCGTCTTTACTGTCCCAACAGAC
40407578 T
1 T
40407579 ATTTATGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (28 bp):
TTACATCGTCTTTACTGTCCCAACAGAC
Found at i:40407612 original size:33 final size:33
Alignment explanation
Indices: 40407560--40407648 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
40407550 TTACCTCGTC
40407560 TTTACTGTCCCAACAGACTAT-T-TATGTTCTGTG
1 TTTACTGTCCCAACAGACTATCTCTAT-TT-TGTG
* **
40407593 TTTATTGTCCCAATGGACTATCTCTATTTTGTG
1 TTTACTGTCCCAACAGACTATCTCTATTTTGTG
*
40407626 TTTACTGCCCCAACAGACTATCT
1 TTTACTGTCCCAACAGACTATCT
40407649 TTGTTATGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 41 0.87
34 3 0.06
35 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (33 bp):
TTTACTGTCCCAACAGACTATCTCTATTTTGTG
Found at i:40407832 original size:51 final size:51
Alignment explanation
Indices: 40407767--40407887 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
40407757 CATCATGACA
* * * * *
40407767 TCTTTCATCAATGGTCTTACGCTACGTACCTCATATCAGACTGCCATAGCC
1 TCTTTCATCTATGGTCTTACGCCACATACCTCAAACCAGACTGCCATAGCC
* * * * *
40407818 TCTTTCATCTATGGTCTTATGCCATATACCTTAAACCAGACTGTCATGGCC
1 TCTTTCATCTATGGTCTTACGCCACATACCTCAAACCAGACTGCCATAGCC
*
40407869 TCTTTCTTCTATGGTCTTA
1 TCTTTCATCTATGGTCTTA
40407888 TACCATATAC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (51 bp):
TCTTTCATCTATGGTCTTACGCCACATACCTCAAACCAGACTGCCATAGCC
Found at i:40417088 original size:33 final size:33
Alignment explanation
Indices: 40417046--40417419 Score: 352
Period size: 33 Copynumber: 11.3 Consensus size: 33
40417036 TAACATCAAT
* * * *
40417046 AGAGAAAGTCTGTTGGGATAGTAAACACAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* ** *
40417079 AAAGAAAGTCCATTGGGACAGTAAACACAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
** * *
40417112 AGAGAAAGTCTACTGGGACAATAAACACAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* * * * ** *
40417145 AAAAAAAGTCCACTGAGCCAACAAACACAGAAT
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* * *
40417178 AGAGAAAGTTCGCTGAGATAGTAAACATAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* *
40417211 AGAGAAAGTCTGCTGGGACAGTAAACACAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* * * * * *
40417244 AGAAAAAGTCCACTGAGCCATTAAATACAGAAT
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* * * *
40417277 AGAAAAAGTCCGCTGAGATAGTAAGCACAGAAT
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* * * *
40417310 AAAGAAAGTCCGCTAAGATAGTAAACATAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* *
40417343 AGAGAAAGTCCGCTGAGATAGTAAACACAGAAT
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
* ** *
40417376 AGAGATAGTCTACTGAGACAATAAACACAGAAC
1 AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
40417409 AGAGAAAGTCC
1 AGAGAAAGTCC
40417420 ACCAGGACAA
Statistics
Matches: 279, Mismatches: 62, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 279 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (33 bp):
AGAGAAAGTCCGCTGAGACAGTAAACACAGAAC
Found at i:40421408 original size:24 final size:24
Alignment explanation
Indices: 40421368--40421413 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
40421358 GTCAAGATTA
*
40421368 TTATTTAATTAATATAATATATTC
1 TTATTTAATTAATATAAAATATTC
*
40421392 TTATTTAAGTTTA-ATAAAATAT
1 TTATTTAA-TTAATATAAAATAT
40421414 GTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTTAATTAATATAAAATATTC
Found at i:40422688 original size:8 final size:8
Alignment explanation
Indices: 40422677--40422739 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
40422667 TATTATTAAA
40422677 TTATTATT
1 TTATTATT
40422685 TTATT-TT
1 TTATTATT
*
40422692 TAATGT-TT
1 TTAT-TATT
40422700 TTATTATT
1 TTATTATT
**
40422708 CCCATTATT
1 -TTATTATT
40422717 TTATTATT
1 TTATTATT
40422725 TTATTTATT
1 TTA-TTATT
40422734 TT-TTAT
1 TTATTAT
40422740 ACTTTCATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 10 0.22
8 22 0.49
9 13 0.29
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (8 bp):
TTATTATT
Found at i:40431914 original size:12 final size:12
Alignment explanation
Indices: 40431897--40431932 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
40431887 ATATCGCAAA
*
40431897 GTGGCGGCTGCG
1 GTGGCGGCGGCG
40431909 GTGGCGGCGGCG
1 GTGGCGGCGGCG
*
40431921 GTGGAGGCGGCG
1 GTGGCGGCGGCG
40431933 ACGGCCAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.22, G:0.64, T:0.11
Consensus pattern (12 bp):
GTGGCGGCGGCG
Found at i:40434593 original size:13 final size:13
Alignment explanation
Indices: 40434575--40434640 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
40434565 AGTCTTGAAC
40434575 TTTAAACTTAAAT
1 TTTAAACTTAAAT
40434588 TTTAAACTT-AA-
1 TTTAAACTTAAAT
*
40434599 ---AATCTTAAAT
1 TTTAAACTTAAAT
*
40434609 TTTAAACTCAAAT
1 TTTAAACTTAAAT
* *
40434622 TCTAACCTTAAAT
1 TTTAAACTTAAAT
*
40434635 ATTAAA
1 TTTAAA
40434641 TTTGGAAGTT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
8 5 0.13
9 2 0.05
12 2 0.05
13 30 0.77
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAAACTTAAAT
Found at i:40434614 original size:34 final size:33
Alignment explanation
Indices: 40434575--40434643 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 33
40434565 AGTCTTGAAC
* * *
40434575 TTTAAACTTAAATTTTAAACTTAAAATCTTAAAT
1 TTTAAACTCAAATTCTAAACTT-AAATATTAAAT
*
40434609 TTTAAACTCAAATTCTAACCTTAAATATTAAAT
1 TTTAAACTCAAATTCTAAACTTAAATATTAAAT
40434642 TT
1 TT
40434644 GGAAGTTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (33 bp):
TTTAAACTCAAATTCTAAACTTAAATATTAAAT
Found at i:40454040 original size:30 final size:30
Alignment explanation
Indices: 40454004--40454069 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
40453994 ATTTTATACA
* *
40454004 TCATCATTATCTCATTTTGCCATTACATTT
1 TCATCATTATCTCATTTTGCCACTACATTC
40454034 TCATCATTATCTCATTTTGCCACTACATTC
1 TCATCATTATCTCATTTTGCCACTACATTC
40454064 TCATCA
1 TCATCA
40454070 CGATATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.03, T:0.45
Consensus pattern (30 bp):
TCATCATTATCTCATTTTGCCACTACATTC
Found at i:40457030 original size:42 final size:42
Alignment explanation
Indices: 40456942--40457095 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 42
40456932 ATGCCGTTAT
* ** * *
40456942 AGAACATGACCTTTAACGGCATTTTACCCATAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTA-TCACAAACGCCGCTAA
*
40456985 AGAACATGACCTTTAGCGGCGCTTTATCACAAACGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTATCACAAACGCCGCTAA
* *
40457027 AGAACATGACATTTAGTGGCGCTTTTATCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGC-TTTATCACAAACGCCGCTAA
*
40457070 AGAACATGATCTTTAGCGGCG-TTTAT
1 AGAACATGACCTTTAGCGGCGCTTTAT
40457096 AAAAATATGC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
41 5 0.05
42 33 0.34
43 60 0.61
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGCGCTTTATCACAAACGCCGCTAA
Found at i:40463380 original size:44 final size:45
Alignment explanation
Indices: 40463317--40463413 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
40463307 CTATTACACC
* *
40463317 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTAAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
40463361 TCCATTACATTAAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTAAACCAAACAATAGAATTACTATTACGCCTCTAT
40463406 TCCATTAC
1 TCCATTAC
40463414 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (45 bp):
TCCATTACATTAAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:40463414 original size:16 final size:16
Alignment explanation
Indices: 40463393--40463425 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
40463383 TTGAATTGCT
40463393 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
40463409 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
40463425 A
1 A
40463426 ATACAGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:40465265 original size:7 final size:7
Alignment explanation
Indices: 40465225--40465465 Score: 80
Period size: 7 Copynumber: 33.9 Consensus size: 7
40465215 ACTAATTAAT
*
40465225 CTAAATC
1 CTAAACC
40465232 CTAAACCC
1 CTAAA-CC
*
40465240 CTAACCC
1 CTAAACC
*
40465247 CT-ATCTC
1 CTAAAC-C
40465254 CTAAACC
1 CTAAACC
*
40465261 CTAAATC
1 CTAAACC
* *
40465268 ATAAAAC
1 CTAAACC
*
40465275 TTAAACC
1 CTAAACC
*
40465282 ATAAACC
1 CTAAACC
*
40465289 TTAAATCC
1 CTAAA-CC
*
40465297 CT-AACA
1 CTAAACC
*
40465303 CTTAACC
1 CTAAACC
*
40465310 CTTAACCC
1 C-TAAACC
40465318 CTAAACC
1 CTAAACC
*
40465325 TTAAACC
1 CTAAACC
*
40465332 C-CAACTC
1 CTAAAC-C
*
40465339 TTAAACC
1 CTAAACC
*
40465346 ATAAACC
1 CTAAACC
*
40465353 ATAAACC
1 CTAAACC
*
40465360 AC-AATCC
1 -CTAAACC
40465367 CTAAACC
1 CTAAACC
* *
40465374 CATAATCT
1 C-TAAACC
*
40465382 ATAAACC
1 CTAAACC
*
40465389 TTAAA--
1 CTAAACC
*
40465394 ATAGTAACTC
1 CTA--AAC-C
*
40465404 TTAAACC
1 CTAAACC
*
40465411 TTAAACC
1 CTAAACC
*
40465418 TTAAACC
1 CTAAACC
*
40465425 TTAAACC
1 CTAAACC
40465432 CTAAACC
1 CTAAACC
* *
40465439 ATATACC
1 CTAAACC
40465446 CTAAACC
1 CTAAACC
*
40465453 ATAAACC
1 CTAAACC
40465460 CTAAAC
1 CTAAAC
40465466 TATAATGATA
Statistics
Matches: 177, Mismatches: 41, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.01
6 9 0.05
7 139 0.79
8 25 0.14
10 2 0.01
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:40465822 original size:40 final size:40
Alignment explanation
Indices: 40465778--40465870 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
40465768 TTTTTTGTGG
* * * *
40465778 CGTTTTTTATAAAGCGCTGCTAAAGCTCGATCTATAGCGA
1 CGTTTTTCAAAAAGCGCCGCTAAAGCTCAATCTATAGCGA
* * * *
40465818 CGTTTTTCAAAAAGTGCCGCTAATGCTTAATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAAAGCTCAATCTATAGCGA
40465858 CGTTTTTCAAAAA
1 CGTTTTTCAAAAA
40465871 ACACCACTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCGCCGCTAAAGCTCAATCTATAGCGA
Found at i:40465996 original size:40 final size:40
Alignment explanation
Indices: 40465952--40466038 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
40465942 AAAAGTGCCA
* *
40465952 CTAATGGTCGACCTATAGCGGCGTTATTCAAAAAGCACCG
1 CTAATGCTCGACCTATAACGGCGTTATTCAAAAAGCACCG
* * * * **
40465992 CTAATGCTCGATCTATAATGGTGTTTTTCAAAAAGTGCCG
1 CTAATGCTCGACCTATAACGGCGTTATTCAAAAAGCACCG
40466032 CTAATGC
1 CTAATGC
40466039 CACTAATGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
CTAATGCTCGACCTATAACGGCGTTATTCAAAAAGCACCG
Found at i:40466050 original size:155 final size:155
Alignment explanation
Indices: 40465804--40466193 Score: 528
Period size: 155 Copynumber: 2.5 Consensus size: 155
40465794 CTGCTAAAGC
* * * **
40465804 TCGATCTATAGCGACGTTTTTCAAAAAGTGCCGCTAATGCTTAATCTATAGCGGCGTTTTTCAAA
1 TCGACCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAA
* * * * * *
40465869 AAACACCACTAGTGCCACTAAAGCTCAACATAAAATGATGGCGTTGTGCTTAATTTTTTTGCCGC
66 AAGCACCACTAATGCCACTAAAGCTCAACATAAAACGACGACATTGTGCTTAATTTTTTTGCCGC
*
40465934 GTTTTCCAAAAAGTGCCACTAATGG
131 GTTTTCCAAAAAGCGCCACTAATGG
* * ** *
40465959 TCGACCTATAGCGGCGTTATTCAAAAAGCACCGCTAATGCTCGATCTATAATGGTGTTTTTCAAA
1 TCGACCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAA
** * * * *
40466024 AAGTGCCGCTAATGCCACTAATGCTCAACATAAAACGACGACATTGTGCTTAATTTTTTTTCGGC
66 AAGCACCACTAATGCCACTAAAGCTCAACATAAAACGACGACATTGTGCTTAATTTTTTTGCCGC
*
40466089 GTTTTTCAAAAAGCGCCACTAATGG
131 GTTTTCCAAAAAGCGCCACTAATGG
* * *
40466114 TCGACATATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTAAAA
1 TCGACCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAA
*
40466179 AAGCACCACAAATGC
66 AAGCACCACTAATGC
40466194 TTAATCTATA
Statistics
Matches: 199, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
155 199 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (155 bp):
TCGACCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAA
AAGCACCACTAATGCCACTAAAGCTCAACATAAAACGACGACATTGTGCTTAATTTTTTTGCCGC
GTTTTCCAAAAAGCGCCACTAATGG
Found at i:40466140 original size:40 final size:40
Alignment explanation
Indices: 40466085--40466273 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
40466075 AATTTTTTTT
* *
40466085 CGGCGTTTTTCAAAAAGCGCCACTAATGGTCGA-CATATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATAG
*
40466125 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
* * * * **
40466165 CGGCGTTTTTAAAAAAGCACCACAAATGCTTAATCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
* * *
40466205 CAGAGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
* *
40466245 CGGTGTTTTTCAAAAAGCACCGCTAATGC
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGC
40466274 CACTACAGCT
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 125 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (40 bp):
CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
Found at i:40474320 original size:365 final size:368
Alignment explanation
Indices: 40473646--40474333 Score: 1087
Period size: 365 Copynumber: 1.9 Consensus size: 368
40473636 CAAATTCTAG
*
40473646 TTATTTTGTGTAAAATTAACATTTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
1 TTATTTTGTGTAAAATTAACATCTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
* * *
40473711 AATAATGGATTTTGTAAAAAAAAATAATTATTTTGCATGAGAAATGATTTGAACTTAGAACCTCA
66 AACAATGGATTTTGT-AAAAAAAATAATTATTTTGCATGAGAAAGGATTCGAACTTAGAACCTCA
*** * *
40473776 ATTTAATTTTTGTGCTTTTTCATTTATCAATTAACCACTAGGCTATTTCTTTATATTTGAAATAA
130 ATTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGGCTATTTCCTTATATTTGAAATAA
* *
40473841 TTTTACAATATTTAATTTAAAAATAAGGTGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAA
195 TTTTACAATATTTAATTTAAAAACAAGGCGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAA
*
40473906 ATAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACTAACACTT
260 ATAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACGAACACTT
40473971 ATCCAATAAAATAATATATTATTTATTCCTAAACCCTAAACTAA
325 ATCCAATAAAATAATATATTATTTATTCCTAAACCCTAAACTAA
* * *
40474015 TTATTTTGTGTAAAATTATCATCTATACCTAGGGTTACAAGGTTATGGATGGCATACACATTAAA
1 TTATTTTGTGTAAAATTAACATCTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
* * * * * *
40474080 AACAATGGATTTTGT-ATAAAAA-AGTTGTTTTGCATGGGAAAGGATTCGAACTTGGGACCTCAA
66 AACAATGGATTTTGTAAAAAAAATAATTATTTTGCATGAGAAAGGATTCGAACTTAGAACCTCAA
* *
40474143 TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGGCTATTTCCTTCTTTTTGAAATAAT
131 TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGGCTATTTCCTTATATTTGAAATAAT
* *
40474208 TTTGA-AATA-TTATTTTAAAAACAAGGCGTGTTACATACTAGGGTTTGAGGCAAAATTAACAAA
196 TTT-ACAATATTTAATTTAAAAACAAGGCGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAA
* *
40474271 ATATTAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTTCACGAACAC
260 ATAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACGAACAC
40474334 ATATTCAACA
Statistics
Matches: 291, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
365 110 0.38
366 99 0.34
367 7 0.02
369 75 0.26
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (368 bp):
TTATTTTGTGTAAAATTAACATCTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
AACAATGGATTTTGTAAAAAAAATAATTATTTTGCATGAGAAAGGATTCGAACTTAGAACCTCAA
TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGGCTATTTCCTTATATTTGAAATAAT
TTTACAATATTTAATTTAAAAACAAGGCGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAAA
TAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACGAACACTTA
TCCAATAAAATAATATATTATTTATTCCTAAACCCTAAACTAA
Found at i:40478114 original size:13 final size:13
Alignment explanation
Indices: 40478098--40478137 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
40478088 GGGGGTAGGA
40478098 TTCTGTATATCTG
1 TTCTGTATATCTG
*
40478111 TTCTGCATATCTG
1 TTCTGTATATCTG
40478124 ATTCTGT-TATCTG
1 -TTCTGTATATCTG
40478137 T
1 T
40478138 AACTGTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.75
14 5 0.21
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:40479065 original size:19 final size:20
Alignment explanation
Indices: 40479021--40479066 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
40479011 ACTGGAACTG
*
40479021 ATACG-TAAAATTTTATAAT
1 ATACGATAAAATTTGATAAT
*
40479040 GTA-GATAAAATTTGA-AAT
1 ATACGATAAAATTTGATAAT
40479058 ATACGATAA
1 ATACGATAA
40479067 GTACTCAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (20 bp):
ATACGATAAAATTTGATAAT
Found at i:40483698 original size:23 final size:23
Alignment explanation
Indices: 40483668--40483929 Score: 110
Period size: 23 Copynumber: 11.0 Consensus size: 23
40483658 CGATGTGATG
40483668 AATGTGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
40483691 AATGTGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
* * *** *
40483714 GATAAG-GCCTAA-TGGCCGATGTGATG-
1 -A-ATGTG--AAAGT-GTATATAT-ATGT
*
40483740 AATGGGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
40483763 AATGTGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
* * *** *
40483786 GATAAG-GCCTAA-TGGCCGATGTGATG-
1 -A-ATGTG--AAAGT-GTATATAT-ATGT
*
40483812 AATGGGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
40483835 AATGTGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
* * *** *
40483858 GATAAG-GCCTAA-TGGCCGATGTGATG-
1 -A-ATGTG--AAAGT-GTATATAT-ATGT
*
40483884 AATGGGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
40483907 AATGTGAAAGTGTATATATATGT
1 AATGTGAAAGTGTATATATATGT
40483930 GATAAGGCCT
Statistics
Matches: 173, Mismatches: 39, Indels: 54
0.65 0.15 0.20
Matches are distributed among these distances:
22 9 0.05
23 107 0.62
24 15 0.09
25 15 0.09
26 18 0.10
27 9 0.05
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (23 bp):
AATGTGAAAGTGTATATATATGT
Found at i:40483737 original size:72 final size:72
Alignment explanation
Indices: 40483634--40483974 Score: 655
Period size: 72 Copynumber: 4.7 Consensus size: 72
40483624 GTGAACATGC
*
40483634 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATGTGAA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
40483699 AGTGTAT
66 AGTGTAT
40483706 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
40483771 AGTGTAT
66 AGTGTAT
40483778 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
40483843 AGTGTAT
66 AGTGTAT
40483850 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
40483915 AGTGTAT
66 AGTGTAT
* *
40483922 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGGTATATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATAT
40483975 GTGACAGGGC
Statistics
Matches: 266, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 266 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (72 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTAATGTGAA
AGTGTAT
Found at i:40483962 original size:49 final size:49
Alignment explanation
Indices: 40483907--40484029 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 49
40483897 ATATATATGT
* * *
40483907 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATG
* * * *
40483956 AATGTGAAAG-G-GTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATG
* *
40484003 GATATGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
40484030 TCCCGAAGGG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
47 45 0.75
48 3 0.05
49 12 0.20
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATG
Found at i:40490380 original size:29 final size:28
Alignment explanation
Indices: 40490287--40490380 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
40490277 CAAAACCTAT
*
40490287 AAACGCATATATA-T-TATAT-AATA-A
1 AAACCCATATATATTATATATAAATACA
* * * *
40490311 AACCCACAGATATATTATATATAACTGCA
1 AAACC-CATATATATTATATATAAATACA
*
40490340 AAACCCATATATATTATCTATAAATAACA
1 AAACCCATATATATTATATATAAAT-ACA
*
40490369 AAACTCATATAT
1 AAACCCATATAT
40490381 GCATCTATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 3 0.06
25 7 0.13
26 1 0.02
27 5 0.09
28 19 0.36
29 18 0.34
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (28 bp):
AAACCCATATATATTATATATAAATACA
Found at i:40504137 original size:62 final size:59
Alignment explanation
Indices: 40504048--40504164 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 59
40504038 AGCGATTATC
* *
40504048 TTAATATTAAATTAAATTAAATTTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATTAAATATTTAT-TT-T-GATAAATATTATATTAATTTAATAAGAT
* *
40504110 TTAATATTAAATTTAATCT-CATATTTATTTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAAT-TAAATATTTATTTTGATAAATATTATATTAATTTAATA
40504165 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 23 0.46
60 1 0.02
61 2 0.04
62 23 0.46
63 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATTAAATATTTATTTTGATAAATATTATATTAATTTAATAAGAT
Found at i:40506368 original size:43 final size:43
Alignment explanation
Indices: 40506320--40506435 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
40506310 CCAATCAACA
* * * *
40506320 CAAATATACTTGCACACACAGTGCATCATCT-GACGAATCGAAG
1 CAAATATACTAGCACACATAGTGCATCAT-TAGACGAACCAAAG
*
40506363 CAAATATACTAACACACATAGTGCATCATTAGACGAACCAAAG
1 CAAATATACTAGCACACATAGTGCATCATTAGACGAACCAAAG
* *
40506406 TAAATATACTGGCACACATAGTGCATCATT
1 CAAATATACTAGCACACATAGTGCATCATT
40506436 GATCTACAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (43 bp):
CAAATATACTAGCACACATAGTGCATCATTAGACGAACCAAAG
Found at i:40513663 original size:88 final size:88
Alignment explanation
Indices: 40513552--40513814 Score: 517
Period size: 88 Copynumber: 3.0 Consensus size: 88
40513542 AATTTGGTAT
40513552 CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCTTAT
1 CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCTTAT
40513617 AAATCCTGTAAATGGTTGGTTAC
66 AAATCCTGTAAATGGTTGGTTAC
40513640 CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCTTAT
1 CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCTTAT
40513705 AAATCCTGTAAATGGTTGGTTAC
66 AAATCCTGTAAATGGTTGGTTAC
*
40513728 CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCGTAT
1 CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCTTAT
40513793 AAATCCTGTAAATGGTTGGTTA
66 AAATCCTGTAAATGGTTGGTTA
40513815 TTCTAATTAA
Statistics
Matches: 174, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 174 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (88 bp):
CATATGATGGATATCTGGTCCTATTCAACCTCAGATTTGTTTTTAGAGCTTTTGTGAGCTCTTAT
AAATCCTGTAAATGGTTGGTTAC
Found at i:40521936 original size:19 final size:19
Alignment explanation
Indices: 40521895--40521936 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
40521885 TCATGTCATG
* *
40521895 ATCTGCCAGTCCAGTCGTG
1 ATCTGCCAGTCCAATCGTC
*
40521914 ATCTGCCAGTCCAATCTTC
1 ATCTGCCAGTCCAATCGTC
40521933 ATCT
1 ATCT
40521937 TACTATATGT
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:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (19 bp):
ATCTGCCAGTCCAATCGTC
Found at i:40523576 original size:12 final size:13
Alignment explanation
Indices: 40523553--40523581 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
40523543 TTTTGTTTTA
40523553 TTTCCTTTTTCTT
1 TTTCCTTTTTCTT
40523566 TTTCC-TTTTCTT
1 TTTCCTTTTTCTT
40523578 TTTC
1 TTTC
40523582 ACTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCCTTTTTCTT
Found at i:40524575 original size:23 final size:23
Alignment explanation
Indices: 40524535--40524584 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
40524525 ATTTCCAAAC
*
40524535 AAAAATTAAAACATCCAAAATTT
1 AAAAATTAAAACATCCAAAAATT
*
40524558 AAAAATTAAAA-GTCCCAAAAATT
1 AAAAATTAAAACAT-CCAAAAATT
40524581 AAAA
1 AAAA
40524585 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAAAACATCCAAAAATT
Found at i:40526598 original size:25 final size:25
Alignment explanation
Indices: 40526568--40526620 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
40526558 TATTATACAT
40526568 TTGTTTTAAAATCTATTATGTATTA
1 TTGTTTTAAAATCTATTATGTATTA
* *
40526593 TTGTTTTGAAATTTATTATGTATTA
1 TTGTTTTAAAATCTATTATGTATTA
40526618 TTG
1 TTG
40526621 ACTGTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (25 bp):
TTGTTTTAAAATCTATTATGTATTA
Found at i:40526847 original size:4 final size:4
Alignment explanation
Indices: 40526840--40526866 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
40526830 TTCATTATAT
40526840 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
40526867 ATCTATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:40534208 original size:5 final size:5
Alignment explanation
Indices: 40534198--40534226 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
40534188 GGTAATTTGA
40534198 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
40534227 GCAAAAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:40536082 original size:20 final size:20
Alignment explanation
Indices: 40536029--40536082 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
40536019 TATTTAAGCT
*
40536029 AAAGTAAGTAAATAAAATGG
1 AAAGTAAGTAAATGAAATGG
*
40536049 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGAAATGG
*
40536069 AAATTAAGTAAATG
1 AAAGTAAGTAAATG
40536083 GAAGGGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (20 bp):
AAAGTAAGTAAATGAAATGG
Found at i:40538573 original size:20 final size:20
Alignment explanation
Indices: 40538548--40538589 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
40538538 TAAGCTACAG
40538548 AACTCCGAATTGAGATCCGA
1 AACTCCGAATTGAGATCCGA
40538568 AACTCCGAATTGAGATCCGA
1 AACTCCGAATTGAGATCCGA
40538588 AA
1 AA
40538590 ATTTTCTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
AACTCCGAATTGAGATCCGA
Found at i:40543864 original size:27 final size:27
Alignment explanation
Indices: 40543834--40544329 Score: 539
Period size: 27 Copynumber: 18.4 Consensus size: 27
40543824 TCATCTCCTA
** *
40543834 GGGGTATAACAGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40543861 GGGGTATTTCGGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40543888 GGGGTATTTCAGTCATTCTACACTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40543915 GGGCTATTT-TGATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
40543942 GGGGTATTTCGGTTAGTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40543969 AGGGTATTT-TGATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
40543996 TGGGTATTTTAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
40544023 GGGGTATTTCAGT-ATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40544049 GGGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40544076 GGGGTATTTCAGTCATTTTACTCAATA
1 GGGGTATTTCAGTCATTTTACCCTATG
** *
40544103 GGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
40544130 GGGGTATTTCGGTCATTCTATCCTCTG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40544157 GGGGTACTTCAGTCATTCTACTCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
40544184 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
40544211 AGGATATTTCAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40544238 AGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
40544265 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40544292 TGGGTTATTTTAGTCATTTTACCCTATG
1 -GGGGTATTTCAGTCATTTTACCCTATG
40544320 GGGGTATTTC
1 GGGGTATTTC
40544330 GGTCCAACAT
Statistics
Matches: 397, Mismatches: 66, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
26 27 0.07
27 344 0.87
28 26 0.07
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:40553189 original size:30 final size:30
Alignment explanation
Indices: 40553132--40553193 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
40553122 TATTTTTGAA
* *
40553132 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
40553162 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
40553192 AA
1 AA
40553194 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:40556094 original size:21 final size:20
Alignment explanation
Indices: 40556070--40556111 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
40556060 TGAAATGCAA
40556070 TCAACATAACA-TGAATTAAAT
1 TCAACATAA-ATTG-ATTAAAT
*
40556091 TCAAGATAAATTGATTAAAT
1 TCAACATAAATTGATTAAAT
40556111 T
1 T
40556112 AACCATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
TCAACATAAATTGATTAAAT
Found at i:40556826 original size:22 final size:22
Alignment explanation
Indices: 40556784--40556828 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
40556774 TTATTAACCC
*
40556784 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
40556806 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
40556828 A
1 A
40556829 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:40559904 original size:27 final size:27
Alignment explanation
Indices: 40559874--40560369 Score: 539
Period size: 27 Copynumber: 18.4 Consensus size: 27
40559864 TCATCTCCTA
** *
40559874 GGGGTATAACAGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40559901 GGGGTATTTCGGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40559928 GGGGTATTTCAGTCATTCTACACTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40559955 GGGCTATTT-TGATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
40559982 GGGGTATTTCGGTTAGTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40560009 AGGGTATTT-TGATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
40560036 TGGGTATTTTAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
40560063 GGGGTATTTCAGT-ATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40560089 GGGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40560116 GGGGTATTTCAGTCATTTTACTCAATA
1 GGGGTATTTCAGTCATTTTACCCTATG
** *
40560143 GGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
40560170 GGGGTATTTCGGTCATTCTATCCTCTG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40560197 GGGGTACTTCAGTCATTCTACTCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
40560224 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
40560251 AGGATATTTCAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
40560278 AGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
40560305 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
40560332 TGGGTTATTTTAGTCATTTTACCCTATG
1 -GGGGTATTTCAGTCATTTTACCCTATG
40560360 GGGGTATTTC
1 GGGGTATTTC
40560370 GGTCCAACAT
Statistics
Matches: 397, Mismatches: 66, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
26 27 0.07
27 344 0.87
28 26 0.07
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:40570583 original size:47 final size:47
Alignment explanation
Indices: 40570514--40570796 Score: 389
Period size: 47 Copynumber: 6.0 Consensus size: 47
40570504 AAATGATAGT
40570514 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
*
40570561 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATAAT-
1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT-GTG
*
40570608 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-
1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TG
40570655 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
*
40570700 ATACGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTG
1 A-A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
* * * * * *
40570749 ACAGGGTCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTG
1 A-A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
40570796 A
1 A
40570797 TAAGTCCCGA
Statistics
Matches: 215, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.00
45 8 0.04
46 1 0.00
47 161 0.75
48 2 0.01
49 42 0.20
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
Found at i:40570975 original size:37 final size:37
Alignment explanation
Indices: 40570919--40570997 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
40570909 CCGAGCTCTA
* * * *
40570919 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
*
40570956 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
40570993 AAGAC
1 AAGAC
40570998 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:40578664 original size:43 final size:42
Alignment explanation
Indices: 40578604--40578689 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 42
40578594 TAAAGCTATG
40578604 CGTTTTTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
1 CGTTTTTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
40578646 CGTTTATTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
1 CGTTT-TTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
40578689 C
1 C
40578690 CGGTTCTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (42 bp):
CGTTTTTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
Found at i:40580241 original size:18 final size:18
Alignment explanation
Indices: 40580190--40580315 Score: 77
Period size: 16 Copynumber: 6.9 Consensus size: 18
40580180 TTTTGTATTG
*
40580190 TATAA-AATGTATAAAAA
1 TATAATAATATATAAAAA
*
40580207 AATAGA-AATA-A-AAAAA
1 TATA-ATAATATATAAAAA
40580223 TATAATAATATATAAAAA
1 TATAATAATATATAAAAA
40580241 TA-ATATAATATAT--AAA
1 TATA-ATAATATATAAAAA
*
40580257 TATAAAAATATATAAAATA
1 TATAATAATATATAAAA-A
*
40580276 TTTAGAATATATATATAATAAAA
1 --TATAATA-ATATAT-A-AAAA
*
40580299 TAGATATAATATATAAA
1 TATA-ATAATATATAAA
40580316 TAAATTGAAC
Statistics
Matches: 88, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
15 1 0.01
16 25 0.28
17 7 0.08
18 22 0.25
19 3 0.03
20 1 0.01
21 15 0.17
22 9 0.10
23 2 0.02
24 3 0.03
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
TATAATAATATATAAAAA
Found at i:40580285 original size:34 final size:35
Alignment explanation
Indices: 40580193--40580314 Score: 108
Period size: 34 Copynumber: 3.5 Consensus size: 35
40580183 TGTATTGTAT
* * *
40580193 AAAATGTATAAAA-A-AATAGAAATAAAAAAATATA
1 AAAATATATAAAATATAATAG-AATATATAAATATA
* *
40580227 ATAATATATAAAA-ATAATATAATATATAAATATA
1 AAAATATATAAAATATAATAGAATATATAAATATA
* *
40580261 AAAATATATAAAATAT-TTAGAATATATATATAATA
1 AAAATATATAAAATATAATAGAATATATAAAT-ATA
* *
40580296 AAATAGATATAATATATAA
1 AAA-ATATATAAAATATAA
40580315 ATAAATTGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
34 48 0.68
35 12 0.17
36 11 0.15
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (35 bp):
AAAATATATAAAATATAATAGAATATATAAATATA
Found at i:40582430 original size:44 final size:42
Alignment explanation
Indices: 40582367--40582472 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 42
40582357 ATGTGTTTTT
* * * * *
40582367 GTGTAAGACCACGCCTGGGAAATTGGCATGGACT-TATGATTTAC
1 GTGTAAGACCATGTCTGGGAAATCGGCAT-CA-TATATAATTT-C
* *
40582411 GTGTAAGACCATGTCTGGGACATCGGCATCATATTTAATTTC
1 GTGTAAGACCATGTCTGGGAAATCGGCATCATATATAATTTC
*
40582453 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
40582473 CAGTGATATC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 21 0.40
43 7 0.13
44 25 0.47
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGAAATCGGCATCATATATAATTTC
Found at i:40582502 original size:43 final size:42
Alignment explanation
Indices: 40582407--40582516 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
40582397 GACTTATGAT
*
40582407 TTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTAA
1 TTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTAA
* * * *
40582449 TTTCGTGTAAGACCCTGTCTGGGACAGT-GATATCAATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACA-TCGACATC-ATATTTAA
* * *
40582492 TTACATGTAAGACCACGTTTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
40582517 TTGGCATTGT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTAA
Found at i:40590952 original size:28 final size:27
Alignment explanation
Indices: 40590895--40590991 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
40590885 TAAATTGTGC
*
40590895 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
40590922 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
40590950 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
40590977 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40590992 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 38 0.58
28 27 0.42
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:40591002 original size:27 final size:27
Alignment explanation
Indices: 40590895--40591004 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
40590885 TAAATTGTGC
* * *
40590895 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGACTTGAATATAT
* * *
40590922 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
40590950 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
40590977 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
40591004 A
1 A
40591005 TTCTTGAATC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 44 0.59
28 30 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:40597303 original size:20 final size:20
Alignment explanation
Indices: 40597280--40597337 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
40597270 TATAACCTAC
40597280 AGTTCATCTGTATAAACAGT
1 AGTTCATCTGTATAAACAGT
*
40597300 AGTTCATCAGTAGT-AACAGT
1 AGTTCATCTGTA-TAAACAGT
*
40597320 AATTCAT-TCGTATAAACA
1 AGTTCATCT-GTATAAACA
40597338 CATATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
AGTTCATCTGTATAAACAGT
Found at i:40597563 original size:26 final size:26
Alignment explanation
Indices: 40597499--40597569 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 26
40597489 CTCCGCCTAT
**
40597499 TGAGCTGA-AAA-GGTAAGCT-CTTT
1 TGAGCTGATAAACGGTAAGCTCCTCC
* *
40597522 TGAGC-CATAATCGGTAAGCTCCTCC
1 TGAGCTGATAAACGGTAAGCTCCTCC
*
40597547 TGAGCTGATAAACGGTATGCTCC
1 TGAGCTGATAAACGGTAAGCTCC
40597570 GAATAGCTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.03
23 7 0.19
24 8 0.22
25 7 0.19
26 14 0.38
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
TGAGCTGATAAACGGTAAGCTCCTCC
Found at i:40597805 original size:23 final size:24
Alignment explanation
Indices: 40597774--40597819 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
40597764 TCAATTTACG
*
40597774 AAATCATATATGTACAATTCAATC
1 AAATCATATATATACAATTCAATC
*
40597798 AAAT-ATATATATACATTTCAAT
1 AAATCATATATATACAATTCAAT
40597820 ACTCAATTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATCATATATATACAATTCAATC
Found at i:40601151 original size:94 final size:93
Alignment explanation
Indices: 40600992--40601210 Score: 235
Period size: 94 Copynumber: 2.3 Consensus size: 93
40600982 TATGTGTGCT
* * * *
40600992 AGTGTAAGACATGTCTGAGACATGCATCAACCACAGTATGAGAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATC-AGCACAGTATGAGAGCTAGTGTAAGAAATATCTGGG
* **
40601057 ACATGCATCAG-CTTCGAGATATTTAAGCC
65 ACAGGCATCAGCCTT-GAGATATACAAGCC
* * * *
40601086 AGTGTAAGACATGTTTGGGACATGCATCAGCATTGAG-ATGAGAGTTAGTGTAAGAAATATTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGTATGAGAGCTAGTGTAAGAAATATCTGG
* * *
40601150 GACAGGCATCGGCCTTGTGATATACAAGCT
64 GACAGGCATCAGCCTTGAGATATACAAGCC
* *
40601180 AGTGTAAGACCTATCTGGGACATGGCATCAG
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG
40601211 TTTGTGATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
93 3 0.03
94 89 0.86
95 12 0.12
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAGTATGAGAGCTAGTGTAAGAAATATCTGGGA
CAGGCATCAGCCTTGAGATATACAAGCC
Found at i:40601218 original size:48 final size:47
Alignment explanation
Indices: 40600989--40601214 Score: 172
Period size: 46 Copynumber: 4.8 Consensus size: 47
40600979 TGATATGTGT
* * * *** *
40600989 GCTAGTGTAAGACATGTCTGAGACATGCATCAAC-CACAG-TATGAGA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATAT-AAA
* * *
40601035 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTTCGAGATATTTAA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATA-TAAA
* * * * * *
40601083 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCATTGAGAT-GAGA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATATAAA
* * * * * * *
40601129 GTTAGTGTAAGAAATATTTGGGACAGGCATCGGCCTTGTGATATACAA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATATA-AA
*
40601177 GCTAGTGTAAGACCTATCTGGGACATGGCATCAG-TTTG
1 GCTAGTGTAAGACATATCTGGGACAT-GCATCAGCTTTG
40601215 TGATGTGTCA
Statistics
Matches: 143, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
46 67 0.47
47 3 0.02
48 66 0.46
49 7 0.05
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATATAAA
Found at i:40603554 original size:28 final size:28
Alignment explanation
Indices: 40603502--40603557 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
40603492 AAATATGCGC
* *
40603502 AGGAATGCGTATCTACAAAATCCATCAT
1 AGGAATGCATATCTACAAAAGCCATCAT
* *
40603530 AGGAATGCATATCTACAGAGGCCATCAT
1 AGGAATGCATATCTACAAAAGCCATCAT
40603558 GTGTAAGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (28 bp):
AGGAATGCATATCTACAAAAGCCATCAT
Found at i:40608417 original size:48 final size:48
Alignment explanation
Indices: 40608346--40608438 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
40608336 TTCTACTAAA
* *
40608346 CCGAAGCACTTTCTTCTATGGAGACACTTTCAAAAACACTTTGTCGCT
1 CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTCGCT
40608394 CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTC
1 CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTC
40608439 ACTGACCTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (48 bp):
CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTCGCT
Found at i:40612134 original size:55 final size:55
Alignment explanation
Indices: 40612050--40612161 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
40612040 ACTCAACCTT
40612050 ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
1 ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
* *
40612105 ACAAATTCCTGCTTGTATTCTGTGACAAACATACGGCCTTGTTTAAGCTCGAGAA
1 ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
40612160 AC
1 AC
40612162 TCTTTGCATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (55 bp):
ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
Found at i:40616976 original size:39 final size:39
Alignment explanation
Indices: 40616922--40616999 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
40616912 ATGTGAAATA
*
40616922 CTACCGAGTATCGGTATCGGCATTCCATAGAAGATGGTT
1 CTACCGAGTATCGGTAACGGCATTCCATAGAAGATGGTT
*
40616961 CTACCGAGTATCGGTAACGGCATTCCGTAGAAGATGGTT
1 CTACCGAGTATCGGTAACGGCATTCCATAGAAGATGGTT
40617000 GAGACACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CTACCGAGTATCGGTAACGGCATTCCATAGAAGATGGTT
Found at i:40620154 original size:15 final size:15
Alignment explanation
Indices: 40620134--40620202 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
40620124 GTATCTTAGG
40620134 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
40620149 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
40620164 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
40620179 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
40620194 TTTCTTTAT
1 TTTCTTTAT
40620203 TCAGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:40620203 original size:30 final size:30
Alignment explanation
Indices: 40620125--40620204 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
40620115 CATAGTATCG
* *
40620125 TATCTTAGG-TTTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTTCTTTATTCTGGATCTCTC
* *
40620155 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
40620185 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
40620205 AGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 3 0.07
30 39 0.91
31 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:40624431 original size:18 final size:18
Alignment explanation
Indices: 40624408--40624443 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
40624398 GAGATGGCTG
40624408 GAGTTGATAAAAGACTAT
1 GAGTTGATAAAAGACTAT
*
40624426 GAGTTGATAATAGACTAT
1 GAGTTGATAAAAGACTAT
40624444 CACTCGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
GAGTTGATAAAAGACTAT
Found at i:40627366 original size:48 final size:47
Alignment explanation
Indices: 40627250--40627415 Score: 140
Period size: 48 Copynumber: 3.5 Consensus size: 47
40627240 TATTTGTGCT
* * * * *
40627250 AGTGTAAGACATGTCTGGGACATGCATTAGCCAC-CG-TATGA-GAGAC
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTCGAGATAT-ACAAGCC
* * **
40627296 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGGTATTTAAGCC
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTCGAGATATACAAGCC
* * *
40627344 AGTGTAAGACATGTCATGGACATGTATCAGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTC-TGGACATGCATCAGCCTCGAGATATACAAGCC
* *
40627392 AGTGTAAGACCTGTCCGGGACATG
1 AGTGTAAGACATGT-CTGGACATG
40627416 GGGTCAGCTT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
46 31 0.31
47 1 0.01
48 65 0.66
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGACATGCATCAGCCTCGAGATATACAAGCC
Found at i:40632833 original size:19 final size:20
Alignment explanation
Indices: 40632809--40632855 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
40632799 ATAACCTGTG
40632809 GTTCATCCGT-ATAACAGTA
1 GTTCATCCGTAATAACAGTA
*
40632828 GTTCATCGGTAATAACAGTA
1 GTTCATCCGTAATAACAGTA
*
40632848 ATTCATCC
1 GTTCATCC
40632856 ACATAAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (20 bp):
GTTCATCCGTAATAACAGTA
Found at i:40633134 original size:22 final size:23
Alignment explanation
Indices: 40633106--40633149 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
40633096 ACGGTTAGCT
40633106 CTGAAGAGCTG-AATGGTAAGCC
1 CTGAAGAGCTGAAATGGTAAGCC
40633128 CTGAAGAGCTGAAATGGTAAGC
1 CTGAAGAGCTGAAATGGTAAGC
40633150 TTATATGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (23 bp):
CTGAAGAGCTGAAATGGTAAGCC
Found at i:40639205 original size:20 final size:20
Alignment explanation
Indices: 40639182--40639238 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
40639172 ATAACCTGTG
*
40639182 GTTCATCCGTATAAATAGTA
1 GTTCATCCGTATAAACAGTA
**
40639202 GTTCATTAGTA-ATAACAGTA
1 GTTCATCCGTATA-AACAGTA
*
40639222 ATTCATCCGTATAAACA
1 GTTCATCCGTATAAACA
40639239 CATATTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
GTTCATCCGTATAAACAGTA
Found at i:40641426 original size:81 final size:81
Alignment explanation
Indices: 40641311--40641577 Score: 376
Period size: 81 Copynumber: 3.3 Consensus size: 81
40641301 CTTAACATAA
* * * *
40641311 AAGGGCAAAATAGTCATCTTACCACAAAAGGGCAAAACAATCATTTTACCTCATAAAGGG-AAAA
1 AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACAT-AAGGGCAAAA
40641375 CAATCATTTTACCTCAT
65 CAATCATTTTACCTCAT
* * * * *
40641392 ATGGGCAAAATAGTCATTTTACCTTAAAAAGGCAAAACAATCATTTTACCACGTAAGGGCAAAAC
1 AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAC
40641457 AATCATTTTACCAT-AT
66 AATCATTTTACC-TCAT
* * *
40641473 AAGGGTAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAAC
1 AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAC
* *
40641538 AATCATTTTCCCACAT
66 AATCATTTTACCTCAT
40641554 AAGGGCAAAACAGTCATTTTACCA
1 AAGGGCAAAACAGTCATTTTACCA
40641578 ATTAGGGGTC
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 5 0.03
81 159 0.96
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (81 bp):
AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAC
AATCATTTTACCTCAT
Found at i:40641570 original size:27 final size:27
Alignment explanation
Indices: 40641311--40641577 Score: 329
Period size: 27 Copynumber: 9.9 Consensus size: 27
40641301 CTTAACATAA
* * * *
40641311 AAGGGCAAAATAGTCATCTTACCACAA
1 AAGGGCAAAACAATCATTTTACCACAT
*
40641338 AAGGGCAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
40641365 AAAGGG-AAAACAATCATTTTACCTCAT
1 -AAGGGCAAAACAATCATTTTACCACAT
* * * ** *
40641392 ATGGGCAAAATAGTCATTTTACCTTAA
1 AAGGGCAAAACAATCATTTTACCACAT
* *
40641419 AAAGGCAAAACAATCATTTTACCACGT
1 AAGGGCAAAACAATCATTTTACCACAT
*
40641446 AAGGGCAAAACAATCATTTTACCATAT
1 AAGGGCAAAACAATCATTTTACCACAT
* * *
40641473 AAGGGTAAAACAGTCATTTTACCATAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
40641500 AAGGGCAAAACAGTCATTTTACCACAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
40641527 AAGGGCAAAACAATCATTTTCCCACAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
40641554 AAGGGCAAAACAGTCATTTTACCA
1 AAGGGCAAAACAATCATTTTACCA
40641578 ATTAGGGGTC
Statistics
Matches: 209, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.02
27 200 0.96
28 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (27 bp):
AAGGGCAAAACAATCATTTTACCACAT
Found at i:40641577 original size:54 final size:54
Alignment explanation
Indices: 40641279--40641577 Score: 350
Period size: 54 Copynumber: 5.5 Consensus size: 54
40641269 AAACATATAT
* * ** * * * * *
40641279 CACATAGGGGTAAAACAGTCACCTTAACATAAAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* *
40641333 CACAAAAGGGCAAAACAATCATTTTACC-TCATAAAGGG-AAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCAT-AT-AAGGGCAAAACAATCATTTTAC
* * * * * *
40641387 CTCATATGGGCAAAATAGTCATTTTACCTTAAAAAGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* * * *
40641441 CACGTAAGGGCAAAACAATCATTTTACCATATAAGGGTAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* * *
40641495 CATATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTCC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
40641549 CACATAAGGGCAAAACAGTCATTTTACCA
1 CACATAAGGGCAAAACAGTCATTTTACCA
40641578 ATTAGGGGTC
Statistics
Matches: 205, Mismatches: 36, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
53 5 0.02
54 194 0.95
55 6 0.03
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
Found at i:40643432 original size:21 final size:20
Alignment explanation
Indices: 40643394--40643432 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40643384 TGGGCCCGTA
*
40643394 AGCCTATTGGGCCAAATTTC
1 AGCCTATCGGGCCAAATTTC
*
40643414 AGCCTATCGAGGCCCAATT
1 AGCCTATCG-GGCCAAATT
40643433 ACCGAAGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
AGCCTATCGGGCCAAATTTC
Found at i:40645219 original size:42 final size:42
Alignment explanation
Indices: 40645058--40645221 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
40645048 TACCATACCA
* ** *
40645058 ATGCCATATCCCAGATATGGTCTTACATGTCA-TCTCGTATCG
1 ATGCCATATCCCAGATACGGTCTTACACAT-AGTCTCATATCG
* * * * *
40645100 ATGCCAATAGCCCAGCTACAGTCTTACACAAAATCTC-TCATCG
1 ATGCC-ATATCCCAGATACGGTCTTACACATAGTCTCAT-ATCG
40645143 ATGCCATATCCCAGATACGGTCTTACACGA-AGTCTCATATCG
1 ATGCCATATCCCAGATACGGTCTTACAC-ATAGTCTCATATCG
* *
40645185 ATGCCATATCCTAGATATGGTCTTACACATAGTCTCA
1 ATGCCATATCCCAGATACGGTCTTACACATAGTCTCA
40645222 GTAACCCTAA
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 69 0.67
43 33 0.32
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATACGGTCTTACACATAGTCTCATATCG
Found at i:40647517 original size:21 final size:20
Alignment explanation
Indices: 40647493--40647532 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
40647483 ACTTGTATAT
*
40647493 CTATCAACAAGCATTCAAAAC
1 CTATCAACAAACA-TCAAAAC
*
40647514 CTATCATCAAACATCAAAA
1 CTATCAACAAACATCAAAA
40647533 TACATGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (20 bp):
CTATCAACAAACATCAAAAC
Found at i:40649316 original size:29 final size:29
Alignment explanation
Indices: 40649256--40649388 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
40649246 CTGACTGATT
* * *
40649256 TCGCACACATAGT-ACTCGATTATAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
40649284 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
40649313 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
* * *
40649342 TCGCACACATAGCG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
*
40649370 TTGCACACATAGTGCCTCA
1 TCGCACACATAGTGCCTCA
40649389 TAATTCCAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.01
28 33 0.38
29 53 0.60
30 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:40649320 original size:57 final size:57
Alignment explanation
Indices: 40649256--40649388 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 57
40649246 CTGACTGATT
* * *
40649256 TCGCACACATAGT-ACTCGATTA-TAGAACTCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGACTCAATTACCA-AACTCGCACACATAGCG-CTCAATTAAAGAAC
* * * *
40649313 TCGCACACATAGTGCCTCAATTACCAATCTCGCACACATAGCGCTCGATTGAAGAAC
1 TCGCACACATAGTGACTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
* *
40649370 TTGCACACATAGTGCCTCA
1 TCGCACACATAGTGACTCA
40649389 TAATTCCAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 43 0.65
58 22 0.33
59 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (57 bp):
TCGCACACATAGTGACTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
Found at i:40649461 original size:40 final size:40
Alignment explanation
Indices: 40649394--40649544 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
40649384 CCTCATAATT
* * *
40649394 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGACATAACA
*
40649433 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
40649473 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
**
40649513 CCAGCACGAATGCTCTTCATGACTTAGCCCGG
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGG
40649545 CTATATAACT
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
Found at i:40650311 original size:48 final size:48
Alignment explanation
Indices: 40650258--40650473 Score: 369
Period size: 48 Copynumber: 4.5 Consensus size: 48
40650248 CTAGCCAAAT
* *
40650258 CACTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
40650306 CACTAGCCATTCGGGTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
40650354 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
40650402 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
40650450 CATTAGCCATTCGGCTTTACCACA
1 CACTAGCCATTCGGCTTTACCACA
40650474 CACATATATA
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:40656065 original size:26 final size:27
Alignment explanation
Indices: 40656036--40656107 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
40656026 TTTAGTTTAC
40656036 CAAATTACCAAAATACCCTCAATTAG-
1 CAAATTACCAAAATACCCTCAATTAGA
* * **
40656062 CAAAATTACC-AGATGCCCTTGATTAGA
1 C-AAATTACCAAAATACCCTCAATTAGA
*
40656089 AAAATTACCAAAAATACCC
1 CAAATTACC-AAAATACCC
40656108 CTGGTTTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
26 21 0.60
27 8 0.23
28 6 0.17
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (27 bp):
CAAATTACCAAAATACCCTCAATTAGA
Found at i:40656121 original size:54 final size:54
Alignment explanation
Indices: 40656037--40656353 Score: 365
Period size: 54 Copynumber: 5.9 Consensus size: 54
40656027 TTAGTTTACC
* * * * * * * *
40656037 AAATTACCAAAATA-CCCTCAATTAGCAAAATTACC-AGATGCCCTTGATTAGAA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* *
40656090 AAATTACCAAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACC-AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* *
40656145 AAATTACTAAAATACCCCTTGTTTGTAAAATTACCAAAATACCCCTTG-TTTGCT-
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC-TGATTTG-TA
* * *
40656199 AAATTACCAAAATCCCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * * *
40656253 AAATTACCAAAATA-CCCTTGATTAGTAAAATTACCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTTGTA
* *
40656307 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
40656354 TAAGGCAGAA
Statistics
Matches: 227, Mismatches: 28, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
53 15 0.07
54 182 0.80
55 30 0.13
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
Found at i:40656137 original size:27 final size:27
Alignment explanation
Indices: 40656089--40656353 Score: 370
Period size: 27 Copynumber: 9.8 Consensus size: 27
40656079 CTTGATTAGA
40656089 AAAATTACCAAAAATACCCCTGGTTTGT
1 AAAATTACC-AAAATACCCCTGGTTTGT
40656117 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
40656144 AAAATTACTAAAATACCCCTTGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
40656171 AAAATTACCAAAATACCCCTTGTTTGCT
1 AAAATTACCAAAATACCCCTGGTTTG-T
* *
40656199 -AAATTACCAAAATCCCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
40656225 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
40656252 GAAATTACCAAAATACCCTTGATTAGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
40656279 AAAATTACCAAAATAACCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
40656306 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
40656333 AAAATTACTAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
40656354 TAAGGCAGAA
Statistics
Matches: 214, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.00
27 203 0.95
28 10 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:40656365 original size:27 final size:27
Alignment explanation
Indices: 40656335--40656458 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
40656325 TAATTTGTAA
* * *
40656335 AATTACTAAAATACCCCTGTAAGGCAG
1 AATTACTGAAATACCCCTATAAGGTAG
* *
40656362 AATTAAC-GAAATACTCTTAT-AGGATAG
1 AATT-ACTGAAATACCCCTATAAGG-TAG
*
40656389 AATTACTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTATAAGGTAG
*
40656416 AATTACTTAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTATAAGGTAG
*
40656443 AATTACTGAGATACCC
1 AATTACTGAAATACCC
40656459 TCATCAACCA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAAGGTAG
Found at i:40656393 original size:81 final size:81
Alignment explanation
Indices: 40656119--40656447 Score: 245
Period size: 81 Copynumber: 4.1 Consensus size: 81
40656109 TGGTTTGTAA
* * * ** * ** *
40656119 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTTGTTTGTAAAATTACCAAAA
1 AATTAACAAAATAACCCTGATAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
** *
40656184 TACCCCTTGTTTGCTA-
66 TACCCC-TGTAAGGTAG
* ** ** * *
40656200 AATTACCAAAATCCCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCAAA
1 AATTAACAAAATAACCCTGA-TAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
* * *
40656264 ATACCCTTGATTA-GTAA
65 ATACCCCTG-TAAGGTAG
* * **
40656281 AATTACCAAAATAACCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
1 AATTAACAAAATAACCCTGATAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
*
40656346 TACCCCTGTAAGGCAG
66 TACCCCTGTAAGGTAG
* * * * ** * * *
40656362 AATTAACGAAAT-ACTCTTATAGGATAGAATTACTGAAATACCCCT-ATATGGTAGAATTACTTA
1 AATTAACAAAATAACCCTGATAGG-TAAAATTACCAAAATACCCCTAAT-TTGTAAAATTACTAA
*
40656425 AATACCCCTATAAGGTAG
64 AATACCCCTGTAAGGTAG
40656443 AATTA
1 AATTA
40656448 CTGAGATACC
Statistics
Matches: 208, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
80 14 0.07
81 194 0.93
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AATTAACAAAATAACCCTGATAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
TACCCCTGTAAGGTAG
Found at i:40660067 original size:42 final size:40
Alignment explanation
Indices: 40660009--40660108 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 40
40659999 GCCAGAATGT
* * *
40660009 TCTTACACAAAATCTCACATCGATGCCATATCCTAGATACGG
1 TCTTACAC-AAGTCTCACATCGATGCCATATCCCA-AAACGG
** * *
40660051 TCTTACACGAAGTCTCATTTTGATGCCATATCCCAAAATGG
1 TCTTACAC-AAGTCTCACATCGATGCCATATCCCAAAACGG
40660092 TCTTACACATAGTCTCA
1 TCTTACACA-AGTCTCA
40660109 GTAACCCTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 19 0.39
42 29 0.59
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (40 bp):
TCTTACACAAGTCTCACATCGATGCCATATCCCAAAACGG
Found at i:40660106 original size:41 final size:42
Alignment explanation
Indices: 40660030--40660108 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
40660020 ATCTCACATC
* *
40660030 GATGCCATATCCTAGATACGGTCTTACACGAAGTCTCATTTT
1 GATGCCATATCCCAGAAACGGTCTTACACGAAGTCTCATTTT
*
40660072 GATGCCATATCCCA-AAATGGTCTTACAC-ATAGTCTCA
1 GATGCCATATCCCAGAAACGGTCTTACACGA-AGTCTCA
40660109 GTAACCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 1 0.03
41 19 0.58
42 13 0.39
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
GATGCCATATCCCAGAAACGGTCTTACACGAAGTCTCATTTT
Found at i:40666317 original size:79 final size:80
Alignment explanation
Indices: 40666161--40666385 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 80
40666151 TTGAATGATG
* * * * * *
40666161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTACGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
40666223 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
* *
40666241 TCTGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTACGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
40666303 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * * * *
40666320 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
40666385 G
66 G
40666386 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 65 0.54
80 45 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:40666349 original size:40 final size:40
Alignment explanation
Indices: 40666161--40666385 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
40666151 TTGAATGATG
* * * *
40666161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
40666201 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
40666241 TCTGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40666281 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40666320 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40666361 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40666386 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40666404 original size:119 final size:120
Alignment explanation
Indices: 40666161--40666391 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
40666151 TTGAATGATG
*
40666161 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * *
40666226 GTGCGAGATACTAATTCTGGACTAAGATCCGAAGGCATTTGTACGAGATACTAAT
66 GTGCGAGATACTAATACCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * ** *
40666281 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
40666343 TTGTGCGAGTTACT-ATAACCGGGCTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGATACTAAT-ACCGGACTAAGAT-CCGAAGGCATTTGAACGAG
40666392 TAGCTATATC
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 4 0.04
119 72 0.77
120 18 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:40666407 original size:79 final size:79
Alignment explanation
Indices: 40666214--40666408 Score: 191
Period size: 79 Copynumber: 2.5 Consensus size: 79
40666204 GGACTAAGAT
** * * * **
40666214 CCGAAGGCATTTGTGCGAGATACTAATTCTGGACTAAGAT-CCGAAGGCATTTGTACGAGATACT
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGATACT
*
40666278 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * *
40666293 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
*
40666357 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
*
40666373 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAA
40666409 ATTTCGAAGG
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 71 0.72
80 25 0.25
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:40678049 original size:40 final size:40
Alignment explanation
Indices: 40678005--40678227 Score: 235
Period size: 39 Copynumber: 5.7 Consensus size: 40
40677995 GCTCCTCGTT
* * * *
40678005 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTTGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40678045 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40678085 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
40678124 CAAATACCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
40678163 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
40678204 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40678228 CATCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 85 0.53
40 63 0.40
41 9 0.06
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40680291 original size:50 final size:50
Alignment explanation
Indices: 40680213--40680309 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
40680203 AAGCTCAGGG
40680213 GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCATA
1 GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCATA
*
40680263 GGCAAAATCAATCTATACGCAACTGGACCAACTCGTTCGGAGATTTC
1 GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTC
40680310 GTACGGCCCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (50 bp):
GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCATA
Found at i:40686504 original size:40 final size:40
Alignment explanation
Indices: 40686459--40686577 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
40686449 GCAAACACAG
* * * *
40686459 TTGCCTTCGGGTCTCAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40686499 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40686539 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATA
40686578 TATCAATAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:40688502 original size:14 final size:16
Alignment explanation
Indices: 40688478--40688509 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
40688468 ATCCTCCTTC
40688478 TTCTCTTTTATTT-AA
1 TTCTCTTTTATTTCAA
40688493 TTCT-TTTTATTTCAA
1 TTCTCTTTTATTTCAA
40688508 TT
1 TT
40688510 ATTAAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCTCTTTTATTTCAA
Found at i:40689144 original size:40 final size:40
Alignment explanation
Indices: 40689053--40689222 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
40689043 TCCTTGTTCA
* * * * *
40689053 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
40689092 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
40689132 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
40689172 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCACACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
40689212 AAGGCCTTCGG
1 AATGCCTTCGG
40689223 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:40689154 original size:79 final size:80
Alignment explanation
Indices: 40689053--40689199 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
40689043 TCCTTGTTCA
* * * * *
40689053 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGGGACGTAACCCGGAT
40689117 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
40689132 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGGGACGTAACCCGGAT
40689197 TTA
66 TTA
40689200 GTATCTCACA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 34 0.58
80 25 0.42
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGGGACGTAACCCGGAT
TTAACAACTCGCACG
Found at i:40693729 original size:20 final size:19
Alignment explanation
Indices: 40693704--40693770 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
40693694 ACTGCCTTCA
40693704 AGCTCATTCAGCTCAATTTT
1 AGCTCATTCAGCTC-ATTTT
*
40693724 AGCTCA-ACGAGCTCATTTCT
1 AGCTCATTC-AGCTCATTT-T
40693744 AGCTCACTT-AGCTCATTTT
1 AGCTCA-TTCAGCTCATTTT
40693763 AGCTCATT
1 AGCTCATT
40693771 TTAGTTGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 2 0.05
19 12 0.29
20 27 0.66
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (19 bp):
AGCTCATTCAGCTCATTTT
Found at i:40693766 original size:10 final size:10
Alignment explanation
Indices: 40693733--40693774 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
40693723 TAGCTCAACG
40693733 AGCTCATTTCT
1 AGCTCATTT-T
*
40693744 AGCTCA-CTT
1 AGCTCATTTT
40693753 AGCTCATTTT
1 AGCTCATTTT
40693763 AGCTCATTTT
1 AGCTCATTTT
40693773 AG
1 AG
40693775 TTGCAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 7 0.25
10 15 0.54
11 6 0.21
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (10 bp):
AGCTCATTTT
Found at i:40699069 original size:21 final size:23
Alignment explanation
Indices: 40699024--40699070 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
40699014 TCACCTGCAA
* *
40699024 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
40699047 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
40699068 TAA
1 TAA
40699071 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:40704428 original size:16 final size:15
Alignment explanation
Indices: 40704407--40704447 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
40704397 TAGCTTCTTC
40704407 TTTTTTTTTCACAAA
1 TTTTTTTTTCACAAA
*
40704422 TTTTTTTTTCACGAA
1 TTTTTTTTTCACAAA
40704437 TTTTTTTTTCA
1 TTTTTTTTTCA
40704448 ACTTGATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTTTTTTTCACAAA
Found at i:40704505 original size:12 final size:12
Alignment explanation
Indices: 40704488--40704547 Score: 102
Period size: 12 Copynumber: 5.0 Consensus size: 12
40704478 GAAACCAAAT
40704488 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
40704500 TTTTTTTTTAAA
1 TTTTTTTTTGAA
40704512 TTTTTTTTTGAA
1 TTTTTTTTTGAA
40704524 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
40704536 ATTTTTTTTGAA
1 TTTTTTTTTGAA
40704548 GAAACTACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:40705582 original size:21 final size:23
Alignment explanation
Indices: 40705537--40705583 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
40705527 TCACCTGCAA
* *
40705537 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
40705560 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
40705581 TAA
1 TAA
40705584 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:40716192 original size:86 final size:86
Alignment explanation
Indices: 40716082--40716256 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
40716072 GAAAGGTAAT
40716082 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
40716147 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
40716168 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
40716233 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
40716254 GAA
1 GAA
40716257 TTCCTCTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (86 bp):
GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
TTCGAAAGGGGGTTAGCAAAA
Found at i:40716369 original size:6 final size:6
Alignment explanation
Indices: 40716360--40716464 Score: 75
Period size: 6 Copynumber: 17.0 Consensus size: 6
40716350 TCTTTTTTCG
* * * **
40716360 CTTTTT CTTTTT CAATTTT CATTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
40716411 CAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
40716459 GTTTTT
1 CTTTTT
40716465 TAATTGAGTC
Statistics
Matches: 74, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
6 61 0.82
7 10 0.14
8 3 0.04
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:40716372 original size:21 final size:21
Alignment explanation
Indices: 40716343--40716398 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
40716333 CAAGCTCTCT
* *
40716343 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-ATTTC
* **
40716364 TTCTTTTTCAATTTTCATTTC
1 TTCATTTTCTTTTTTCATTTC
40716385 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
40716399 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCATTTC
Found at i:40716426 original size:18 final size:18
Alignment explanation
Indices: 40716360--40716469 Score: 94
Period size: 18 Copynumber: 5.9 Consensus size: 18
40716350 TCTTTTTTCG
40716360 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
40716379 CATTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* **
40716399 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCAATTT
*
40716417 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
40716435 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
* *
40716453 CTTTTTGTTTTTTAATT
1 CTTTTTCTTTTTCAATT
40716470 GAGTCGTTTC
Statistics
Matches: 69, Mismatches: 20, Indels: 5
0.73 0.21 0.05
Matches are distributed among these distances:
18 51 0.74
19 3 0.04
20 7 0.10
21 8 0.12
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:40716462 original size:11 final size:12
Alignment explanation
Indices: 40716348--40716463 Score: 58
Period size: 12 Copynumber: 9.2 Consensus size: 12
40716338 TCTCTTTCAA
40716348 TTTCTTTTTTCGCTT
1 TTTC-TTTTTCG--T
*
40716363 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
40716376 TTTCATTTCTTCAT
1 TTTC-TTT-TTCGT
40716390 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** **
40716401 CTCACTTTTTCAA
1 -TTTCTTTTTCGT
40716414 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
40716425 TTTGCAATTTCTT
1 TTT-CTTTTTCGT
40716438 TTTCTTTTTCGT
1 TTTCTTTTTCGT
40716450 TTTCTTTTT-GT
1 TTTCTTTTTCGT
40716461 TTT
1 TTT
40716464 TTAATTGAGT
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
11 9 0.11
12 39 0.48
13 12 0.15
14 15 0.18
15 7 0.09
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:40718293 original size:19 final size:20
Alignment explanation
Indices: 40718271--40718310 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
40718261 ATGATTTGTT
*
40718271 GGAGCTAAAAT-GAGCTAAA
1 GGAGCTAAAATCGAACTAAA
40718290 GGAGCTAAAATCGAACTAAA
1 GGAGCTAAAATCGAACTAAA
40718310 G
1 G
40718311 TCAGCTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.15
Consensus pattern (20 bp):
GGAGCTAAAATCGAACTAAA
Found at i:40721063 original size:33 final size:34
Alignment explanation
Indices: 40721025--40721099 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
40721015 AGATTTAAAC
*
40721025 AAATTAATTACTAACACTTATTTGAGCTGAA-TA
1 AAATTAATTACTAACACTTATTTGAGCTAAACTA
40721058 AAATTAATTACTAACACTTATTTGAGCTAAACTA
1 AAATTAATTACTAACACTTATTTGAGCTAAACTA
*
40721092 AACTTAAT
1 AAATTAAT
40721100 AAACTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTGAGCTAAACTA
Found at i:40721104 original size:9 final size:9
Alignment explanation
Indices: 40721090--40721116 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
40721080 TGAGCTAAAC
40721090 TAAACTTAA
1 TAAACTTAA
40721099 TAAACTTAA
1 TAAACTTAA
40721108 TAAACTTAA
1 TAAACTTAA
40721117 ATAACAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAACTTAA
Found at i:40723058 original size:18 final size:18
Alignment explanation
Indices: 40723007--40723058 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
40722997 TGCAATTTCT
* *
40723007 TTTTCTTTTTCTTTTTCA
1 TTTTCTATTTCTTTTCCA
*
40723025 TTTTCTATATCTTTTCCA
1 TTTTCTATTTCTTTTCCA
40723043 CTTTT-TATTTCTTTTC
1 -TTTTCTATTTCTTTTC
40723059 TTCCTCTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTATTTCTTTTCCA
Found at i:40724895 original size:30 final size:30
Alignment explanation
Indices: 40724859--40724928 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
40724849 AAGGAAAAAT
40724859 AAAATCAAGATTCACTTTCTTGTTTTCAAG
1 AAAATCAAGATTCACTTTCTTGTTTTCAAG
40724889 AAAATCAAGATTCACTTTCTTGTTTTCAAG
1 AAAATCAAGATTCACTTTCTTGTTTTCAAG
40724919 AAAATCAAGA
1 AAAATCAAGA
40724929 AACCGAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (30 bp):
AAAATCAAGATTCACTTTCTTGTTTTCAAG
Found at i:40724940 original size:30 final size:30
Alignment explanation
Indices: 40724876--40724940 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
40724866 AGATTCACTT
** **
40724876 TCTTGTTTTCAAGAAAATCAAGATTCACTT
1 TCTTGTTTTCAAGAAAATCAAGAAACACAA
40724906 TCTTGTTTTCAAGAAAATCAAGAAAC-CGAA
1 TCTTGTTTTCAAGAAAATCAAGAAACAC-AA
40724936 TCTTG
1 TCTTG
40724941 GTCTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (30 bp):
TCTTGTTTTCAAGAAAATCAAGAAACACAA
Found at i:40734893 original size:34 final size:34
Alignment explanation
Indices: 40734855--40734964 Score: 195
Period size: 34 Copynumber: 3.2 Consensus size: 34
40734845 TGATTTAAAC
*
40734855 AAATTAATTACTAACACTTATTTGAGTTGAACTG
1 AAATTAATTACTAACACTTATTTGAGCTGAACTG
40734889 AAATTAATTACTAACACTTATTTGAGCTGAACTG
1 AAATTAATTACTAACACTTATTTGAGCTGAACTG
40734923 AAATTAATTACTAACACTTATTTGAGCTGAACT-
1 AAATTAATTACTAACACTTATTTGAGCTGAACTG
40734956 AAAGTTAAT
1 AAA-TTAAT
40734965 AAACTAACTC
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
33 3 0.04
34 71 0.96
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTGAGCTGAACTG
Found at i:40735546 original size:6 final size:6
Alignment explanation
Indices: 40735537--40735646 Score: 71
Period size: 6 Copynumber: 18.0 Consensus size: 6
40735527 TCAATCTCAA
* * * ** **
40735537 TTTCTT TTTCAAT TTTCTTT TCTTCGT TTTCTT TTT-TC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** *
40735587 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCTT TTTCACT TTT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT
40735635 TTTCTT TTTCTT
1 TTTCTT TTTCTT
40735647 CTTTTTCGTT
Statistics
Matches: 76, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
5 6 0.08
6 54 0.71
7 13 0.17
8 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:40735651 original size:18 final size:18
Alignment explanation
Indices: 40735605--40735652 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
40735595 TCTTTTGCAA
40735605 TTTCTT-TTTCTTTTTCTT
1 TTTCTTCTTT-TTTTTCTT
*
40735623 TTTC-ACTTTTTTTTTCTT
1 TTTCTTC-TTTTTTTTCTT
40735641 TTTCTTCTTTTT
1 TTTCTTCTTTTT
40735653 CGTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTCTTTTTTTTCTT
Found at i:40737947 original size:20 final size:20
Alignment explanation
Indices: 40737922--40737963 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
40737912 TGATTAGAAA
* *
40737922 CTAAATTGAGCTCGAATGAG
1 CTAAATTAAGCTCAAATGAG
40737942 CTAAATTAAGCTCAAATGAG
1 CTAAATTAAGCTCAAATGAG
40737962 CT
1 CT
40737964 GGTTGGAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (20 bp):
CTAAATTAAGCTCAAATGAG
Done.