Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 61 of 222
Found at i:18483958 original size:18 final size:19
Alignment explanation
Indices: 18483923--18483960 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
18483913 TCTTGTGTTA
*
18483923 TCTTCTATTCTTCTGTTGC
1 TCTTCTATTCTTCAGTTGC
*
18483942 TCTTTTATT-TTCAGTTGC
1 TCTTCTATTCTTCAGTTGC
18483960 T
1 T
18483961 TCCATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.21, G:0.11, T:0.61
Consensus pattern (19 bp):
TCTTCTATTCTTCAGTTGC
Found at i:18490446 original size:29 final size:29
Alignment explanation
Indices: 18490410--18490484 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
18490400 ATGGGAAGCA
*
18490410 AAAATCAAAGAACCACTTCAATAGAAGAG
1 AAAATCAAGGAACCACTTCAATAGAAGAG
* ** * *
18490439 GAAATCAAGGAACTTCTTCAATATAAGAT
1 AAAATCAAGGAACCACTTCAATAGAAGAG
*
18490468 AAAATCAAGGAATCACT
1 AAAATCAAGGAACCACT
18490485 ACACCTAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (29 bp):
AAAATCAAGGAACCACTTCAATAGAAGAG
Found at i:18496941 original size:37 final size:37
Alignment explanation
Indices: 18496864--18496942 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
18496854 TTATTACGAA
* * * *
18496864 GTCTTACCCGGACATAATCTCCACACAAAGTTATCTG
1 GTCTTACCCGGACAAAATCCCCACACAAAGTCATCGG
**
18496901 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACAAAGTCATCGG
18496938 GTCTT
1 GTCTT
18496943 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACAAAGTCATCGG
Found at i:18497220 original size:47 final size:47
Alignment explanation
Indices: 18497060--18497471 Score: 720
Period size: 47 Copynumber: 8.7 Consensus size: 47
18497050 GCCCTTCGGG
*
18497060 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
18497110 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
18497159 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATAC
18497206 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
18497252 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
18497299 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
18497346 ACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
18497393 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
18497440 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
18497472 ATACAATCAT
Statistics
Matches: 355, Mismatches: 4, Indels: 9
0.96 0.01 0.02
Matches are distributed among these distances:
46 43 0.12
47 225 0.63
48 2 0.01
49 81 0.23
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:18497339 original size:22 final size:23
Alignment explanation
Indices: 18497306--18497386 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
18497296 TACACTTTCA
18497306 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** **
18497329 CATT-ATCACATATATACACTTTCG
1 CATTCATCACAT-CGGCCA-TTAGG
18497353 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
*
18497376 CCTT-ATCACAT
1 CATTCATCACAT
18497387 ATATACACTT
Statistics
Matches: 42, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
22 14 0.33
23 12 0.29
24 9 0.21
25 7 0.17
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:18511177 original size:74 final size:74
Alignment explanation
Indices: 18511006--18511177 Score: 242
Period size: 74 Copynumber: 2.3 Consensus size: 74
18510996 AGAATTATAT
18511006 TTTTCAATTT-TTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC
18511070 GCTGAGGTA
66 GCTGAGGTA
* * * *
18511079 TTTTAAATTGC-TGCTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTTGTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
* *
18511143 TC-TTGAGGTC
65 -CGCTGAGGTA
*
18511153 TTTTCAATTTCTTTTTTTTCAAAAA
1 TTTTCAATTTCTTGTTTTTCAAAAA
18511178 AAAAAATCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
73 15 0.18
74 63 0.74
75 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (74 bp):
TTTTCAATTTCTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC
GCTGAGGTA
Found at i:18511407 original size:78 final size:77
Alignment explanation
Indices: 18511290--18511475 Score: 220
Period size: 78 Copynumber: 2.4 Consensus size: 77
18511280 ATTTCATTTT
* *
18511290 CAAAAATTCGACTC-TATTG-CAGAGGTGAGTTAAGTCTCGGGTCACATACCGATGTATTT-TTT
1 CAAAAA-TCAACTCATATTGCCAGAGGTGAGTTAAGCCTCGGGTCACATACCGA-GTATTTCTTT
*
18511352 TAATTTCTGCTTTCA
64 AAATTTCTG-TTTCA
*
18511367 CAAAAATCAACTCATATTGCCAGAGGTGAGTTGAA-CCTCGGGTCACATATCGAGTATTTCTTTA
1 CAAAAATCAACTCATATTGCCAGAGGTGAGTT-AAGCCTCGGGTCACATACCGAGTATTTCTTTA
*
18511431 AATTTCTGTTTCT
65 AATTTCTGTTTCA
* * * *
18511444 C-CAAATCAACTCATAATGCGAGAGGCGAGTTA
1 CAAAAATCAACTCATATTGCCAGAGGTGAGTTA
18511476 GACTCGATCA
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
75 1 0.01
76 32 0.33
77 22 0.23
78 39 0.41
79 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (77 bp):
CAAAAATCAACTCATATTGCCAGAGGTGAGTTAAGCCTCGGGTCACATACCGAGTATTTCTTTAA
ATTTCTGTTTCA
Found at i:18511807 original size:6 final size:6
Alignment explanation
Indices: 18511796--18511827 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
18511786 GCTTTAGCCC
18511796 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
18511828 AATAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:18511835 original size:18 final size:18
Alignment explanation
Indices: 18511796--18511836 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
18511786 GCTTTAGCCC
** *
18511796 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTTATAATA
18511814 ATTTTTATTTTTATAATA
1 ATTTTTATTTTTATAATA
18511832 ATTTT
1 ATTTT
18511837 AAATATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTATAATA
Found at i:18511923 original size:30 final size:31
Alignment explanation
Indices: 18511885--18512030 Score: 133
Period size: 30 Copynumber: 4.9 Consensus size: 31
18511875 AGGCAAAAAA
* **
18511885 TAAAATTTACATTTTAACCCCTGTACTTTT-
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
*
18511915 TGAAATTTACATTTTGA-CCCTAAACTTTTC
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
*
18511945 TAAAATTTACATTTTGACCCC-AAAATTTTC
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
* ** ** *
18511975 TATAA-TTACATTTCAACCTTTAGAC-TTTC
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
*
18512004 TCAAAATTT-CACTTTGACCCCTAAACT
1 T-AAAATTTACATTTTGACCCCTAAACT
18512031 CTCAAGAAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
29 26 0.29
30 59 0.66
31 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (31 bp):
TAAAATTTACATTTTGACCCCTAAACTTTTC
Found at i:18512494 original size:13 final size:14
Alignment explanation
Indices: 18512476--18512504 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18512466 CCCAAAGGAA
18512476 AAGAGAAAA-AAAG
1 AAGAGAAAAGAAAG
18512489 AAGAGAAAAGAAAG
1 AAGAGAAAAGAAAG
18512503 AA
1 AA
18512505 AAAGGAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAGAAAG
Found at i:18512512 original size:21 final size:20
Alignment explanation
Indices: 18512473--18512516 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
18512463 CAACCCAAAG
18512473 GAAAAGAGAAAAAAAGAAGA
1 GAAAAGAGAAAAAAAGAAGA
18512493 GAAAAGA-AAGAAAAAGGAAGA
1 GAAAAGAGAA-AAAAA-GAAGA
18512514 GAA
1 GAA
18512517 GGAGAGGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
GAAAAGAGAAAAAAAGAAGA
Found at i:18512624 original size:14 final size:14
Alignment explanation
Indices: 18512597--18512644 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
18512587 CGGCCCGAAG
* *
18512597 AAGAAGAAGGGAGA
1 AAGAAAAAGAGAGA
18512611 AAGAAAAAGAGAGA
1 AAGAAAAAGAGAGA
* *
18512625 AA-AGAAAGAGAAA
1 AAGAAAAAGAGAGA
18512638 AAGAAAA
1 AAGAAAA
18512645 TAAAAAAGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAGAGA
Found at i:18512944 original size:19 final size:19
Alignment explanation
Indices: 18512920--18512958 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18512910 CTTTTGGGTA
* *
18512920 TTATTTTTTTTAATCTATT
1 TTATTTTATTTAATATATT
18512939 TTATTTTATTTAATATATT
1 TTATTTTATTTAATATATT
18512958 T
1 T
18512959 AAATGGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTAATATATT
Found at i:18513508 original size:17 final size:17
Alignment explanation
Indices: 18513471--18513519 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
18513461 AAAAAAATTA
18513471 TGTTTTC-AAACTTTCG
1 TGTTTTCAAAACTTTCG
* *
18513487 TGTTTTCAAAATTTTTG
1 TGTTTTCAAAACTTTCG
18513504 TGTTTTCAAAACTTTC
1 TGTTTTCAAAACTTTC
18513520 ATGTGTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (17 bp):
TGTTTTCAAAACTTTCG
Found at i:18513604 original size:17 final size:17
Alignment explanation
Indices: 18513584--18514110 Score: 84
Period size: 17 Copynumber: 30.6 Consensus size: 17
18513574 AAAAAATTCA
18513584 TGTTTTCAAAATTTTCG
1 TGTTTTCAAAATTTTCG
* *
18513601 TGTTTTTAAGATTTTCG
1 TGTTTTCAAAATTTTCG
*
18513618 TG---TCAAAATAATTCTCA
1 TGTTTTCAAAAT--TT-TCG
* *
18513635 TG-TATCGAAAATTTCCG
1 TGTTTTC-AAAATTTTCG
* *
18513652 TG-TTTCAAAAATTTCC
1 TGTTTTCAAAATTTTCG
* *
18513668 TCGTTTCCAAAA-ATTCAGG
1 T-GTTTTCAAAATTTTC--G
* * *
18513687 TGATTTAAAAATCTTCG
1 TGTTTTCAAAATTTTCG
** *
18513704 TGTTTTCAAAAACTCCG
1 TGTTTTCAAAATTTTCG
*
18513721 -G-TTTC-AAATTTTCA
1 TGTTTTCAAAATTTTCG
*
18513735 TGTTTTTCAAAAAATTCTCG
1 TG-TTTTC--AAAATTTTCG
* *
18513755 TG-TTTCAAAACTTCCG
1 TGTTTTCAAAATTTTCG
* *
18513771 -GTTCTCAAAAATTTCG
1 TGTTTTCAAAATTTTCG
*
18513787 T-ATTTCAAAAATCTTT-G
1 TGTTTTC-AAAAT-TTTCG
* *
18513804 TGCTTTT-AAAACTTTCA
1 TG-TTTTCAAAATTTTCG
*
18513821 TG-TTTCAAAAATTTTCT
1 TGTTTTC-AAAATTTTCG
* *
18513838 TGTTTTCAAAAAATTCCG
1 TGTTTTC-AAAATTTTCG
* ***
18513856 ATGATCAAAGAAATTTTCG
1 -TGTTTTCA-AAATTTTCG
* * * *
18513875 TGATTTCTAAAAACTTCCA
1 TG-TTT-TCAAAATTTTCG
18513894 TG-TTTCAAAAATTTTCG
1 TGTTTTC-AAAATTTTCG
* *
18513911 TG-TTT-AAGAGTTTTCT
1 TGTTTTCAA-AATTTTCG
*
18513927 TGCTTTCAACAATTCTT-G
1 TGTTTTCAA-AATT-TTCG
* *
18513945 T-ATTTCTTAAATTTTCG
1 TGTTTTC-AAAATTTTCG
* *
18513962 AG-TTTCAAAA--ATCG
1 TGTTTTCAAAATTTTCG
*
18513976 TG-TTTCAAAAAAAAATTCTCG
1 TGTTTTC----A-AAATTTTCG
**
18513997 TGTTTT-AAAATCCTCG
1 TGTTTTCAAAATTTTCG
*
18514013 TG-TTTCAAAATTGTCG
1 TGTTTTCAAAATTTTCG
*
18514029 TGTTTTCAAAAATTTTAG
1 TGTTTTC-AAAATTTTCG
*
18514047 TGTTTTTAAGAATTTTCG
1 TGTTTTCAA-AATTTTCG
* *
18514065 TG-TCTCTAAAATTCTCG
1 TGTTTTC-AAAATTTTCG
*
18514082 TGTTTTAAAAAAATTTT-G
1 TGTTTT--CAAAATTTTCG
*
18514100 TGTTCTCAAAA
1 TGTTTTCAAAA
18514111 ATAAAAATGT
Statistics
Matches: 367, Mismatches: 88, Indels: 111
0.65 0.16 0.20
Matches are distributed among these distances:
14 18 0.05
15 14 0.04
16 73 0.20
17 119 0.32
18 79 0.22
19 40 0.11
20 16 0.04
21 5 0.01
22 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:18513636 original size:51 final size:50
Alignment explanation
Indices: 18513540--18513666 Score: 132
Period size: 50 Copynumber: 2.5 Consensus size: 50
18513530 GTTTTCAAAA
* * *
18513540 AAAATTCTCGTGTCTTTTAAAAATTTCGTGTTAAAAAAAATTCATGTTTTC-
1 AAAATTTTCGTGT-TTTTAAAAATTTCGTGTCAAAAAAAATTCATG-TATCG
* * * *
18513591 AAAATTTTCGTGTTTTTAAGATTTTCGTGTCAAAATAATTCTCATGTATCG
1 AAAATTTTCGTGTTTTTAAAAATTTCGTGTCAAAAAAAAT-TCATGTATCG
* *
18513642 AAAATTTCCGTG-TTTCAAAAATTTC
1 AAAATTTTCGTGTTTTTAAAAATTTC
18513667 CTCGTTTCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
50 35 0.56
51 28 0.44
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (50 bp):
AAAATTTTCGTGTTTTTAAAAATTTCGTGTCAAAAAAAATTCATGTATCG
Found at i:18513680 original size:18 final size:17
Alignment explanation
Indices: 18513642--18513915 Score: 124
Period size: 17 Copynumber: 15.9 Consensus size: 17
18513632 TCATGTATCG
18513642 AAAATTTCCGTGTTTCA
1 AAAATTTCCGTGTTTCA
18513659 AAAATTTCC-TCGTTTCCA
1 AAAATTTCCGT-GTTT-CA
*
18513677 AAAA-TTCAGGTGATTT-A
1 AAAATTTC-CGTG-TTTCA
18513694 AAAATCTT-CGTGTTTTCA
1 AAAAT-TTCCGTG-TTTCA
*
18513712 AAAA-CTCCG-GTTTC-
1 AAAATTTCCGTGTTTCA
* * *
18513726 AAATTTTCATGTTTTTCA
1 AAAATTTC-CGTGTTTCA
*
18513744 AAAAATTCTCGTGTTTC-
1 AAAATTTC-CGTGTTTCA
*
18513761 AAAACTTCCG-GTTCTCA
1 AAAATTTCCGTGTT-TCA
*
18513778 AAAATTT-CGTATTTCA
1 AAAATTTCCGTGTTTCA
* *
18513794 AAAATCTT-TGTGCTTTTA
1 AAAAT-TTCCGTG-TTTCA
* *
18513812 AAACTTT-CATGTTTCA
1 AAAATTTCCGTGTTTCA
* *
18513828 AAAATTTTCTTGTTTTCA
1 AAAATTTCCGTG-TTTCA
* *
18513846 AAAAATTCCGATG-ATCAA
1 AAAATTTCCG-TGTTTC-A
*
18513864 AGAAATTTTCGTGATTTCTA
1 A-AAATTTCCGTG-TTTC-A
* *
18513884 AAAACTTCCATGTTTCA
1 AAAATTTCCGTGTTTCA
*
18513901 AAAATTTTCGTGTTT
1 AAAATTTCCGTGTTT
18513916 AAGAGTTTTC
Statistics
Matches: 193, Mismatches: 39, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
14 3 0.02
15 9 0.05
16 28 0.15
17 74 0.38
18 52 0.27
19 23 0.12
20 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAATTTCCGTGTTTCA
Found at i:18513682 original size:35 final size:33
Alignment explanation
Indices: 18513642--18513907 Score: 105
Period size: 35 Copynumber: 7.7 Consensus size: 33
18513632 TCATGTATCG
*
18513642 AAAATTTCCGTGTTTCAAAAATTTCCTCGTTTCC
1 AAAAATTCCGTGTTTCAAAAATTTCCT-GTTTCC
* * *
18513676 AAAAATTCAGGTGATTT-AAAAATCTTCGTGTTTTC
1 AAAAATTC-CGTG-TTTCAAAAAT-TTCCTGTTTCC
* * * *
18513711 AAAAACTCCG-GTTTC-AAATTTTCATGTTTTTCA
1 AAAAATTCCGTGTTTCAAAAATTTCCTG--TTTCC
* *
18513744 AAAAATTCTCGTGTTTC-AAAACTTCC-GGTTCTC
1 AAAAATTC-CGTGTTTCAAAAATTTCCTGTTTC-C
* * ** *
18513777 AAAAATTTCGTATTTCAAAAATCTTTGTGCTTT-T
1 AAAAATTCCGTGTTTCAAAAAT-TTCCTG-TTTCC
* * * * *
18513811 AAAACTTTCATGTTTCAAAAATTTTCTTGTTTTCA
1 AAAAATTCCGTGTTTCAAAAA-TTTCCTG-TTTCC
* * *
18513846 AAAAATTCCGATG-ATCAAAGAAATTTTCGTGATTTCT
1 AAAAATTCCG-TGTTTC-AA-AAA-TTTCCTG-TTTCC
*
18513883 AAAAACTTCCATGTTTCAAAAATTT
1 AAAAA-TTCCGTGTTTCAAAAATTT
18513908 TCGTGTTTAA
Statistics
Matches: 173, Mismatches: 39, Indels: 39
0.69 0.16 0.16
Matches are distributed among these distances:
31 5 0.03
32 17 0.10
33 22 0.13
34 38 0.22
35 46 0.27
36 16 0.09
37 23 0.13
38 6 0.03
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (33 bp):
AAAAATTCCGTGTTTCAAAAATTTCCTGTTTCC
Found at i:18513793 original size:50 final size:50
Alignment explanation
Indices: 18513693--18513814 Score: 121
Period size: 50 Copynumber: 2.4 Consensus size: 50
18513683 CAGGTGATTT
* *
18513693 AAAAATCTTCGTGTTTTCAAAAACTCCGGTTTCAAATTTTCATGTTTTTCA
1 AAAAATCTTCGTGTTTTCAAAAACTCCGGTTTCAAAATTTCA-GTATTTCA
18513744 AAAAAT-TCTCGTG-TTTC-AAAACTTCCGGTTCTCAAAAATTTC-GTATTTC-
1 AAAAATCT-TCGTGTTTTCAAAAAC-TCCGGTT-TC-AAAATTTCAGTATTTCA
*
18513793 AAAAATCTTTGTGCTTTT-AAAA
1 AAAAATCTTCGTG-TTTTCAAAA
18513815 CTTTCATGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
49 15 0.25
50 19 0.32
51 19 0.32
52 7 0.12
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (50 bp):
AAAAATCTTCGTGTTTTCAAAAACTCCGGTTTCAAAATTTCAGTATTTCA
Found at i:18513794 original size:16 final size:15
Alignment explanation
Indices: 18513738--18513849 Score: 53
Period size: 16 Copynumber: 6.7 Consensus size: 15
18513728 ATTTTCATGT
18513738 TTTTCAAAAAATTCTCG
1 TTTTC-AAAAATT-TCG
* *
18513755 TGTTTCAAAACTTCCGG
1 T-TTTCAAAAATTTC-G
*
18513772 TTCTCAAAAATTTCG
1 TTTTCAAAAATTTCG
*
18513787 TATTTCAAAAATCTTTG
1 T-TTTCAAAAAT-TTCG
* * *
18513804 TGCTTTTAAAACTTTCA
1 T--TTTCAAAAATTTCG
18513821 TGTTTCAAAAATTTTCTTG
1 T-TTTCAAAAA-TTTC--G
18513840 TTTTCAAAAA
1 TTTTCAAAAA
18513850 ATTCCGATGA
Statistics
Matches: 71, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
15 2 0.03
16 27 0.38
17 20 0.28
18 21 0.30
19 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (15 bp):
TTTTCAAAAATTTCG
Found at i:18513887 original size:37 final size:36
Alignment explanation
Indices: 18513811--18513912 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 36
18513801 TTGTGCTTTT
* * * *
18513811 AAAACTTTCATGTTTCAAAAATTTTCTTGTTTTCAA
1 AAAACTTCCATGTATCAAAAATTTTCGTGATTTCAA
*
18513847 AAAA-TTCCGATG-ATCAAAGAAATTTTCGTGATTTCTA
1 AAAACTTCC-ATGTATC-AA-AAATTTTCGTGATTTCAA
*
18513884 AAAACTTCCATGTTTCAAAAATTTTCGTG
1 AAAACTTCCATGTATCAAAAATTTTCGTG
18513913 TTTAAGAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
35 5 0.09
36 20 0.36
37 24 0.44
38 6 0.11
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (36 bp):
AAAACTTCCATGTATCAAAAATTTTCGTGATTTCAA
Found at i:18513992 original size:35 final size:36
Alignment explanation
Indices: 18513953--18514022 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
18513943 TGTATTTCTT
*
18513953 AAATTTTCGAGTTTCAAAA-ATCGTGTTTCAAAAAA
1 AAATTCTCGAGTTTCAAAACATCGTGTTTCAAAAAA
* * *
18513988 AAATTCTCGTGTTTTAAAATCCTCGTGTTTCAAAA
1 AAATTCTCGAGTTTCAAAA-CATCGTGTTTCAAAA
18514023 TTGTCGTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 16 0.55
37 13 0.45
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (36 bp):
AAATTCTCGAGTTTCAAAACATCGTGTTTCAAAAAA
Found at i:18514006 original size:16 final size:16
Alignment explanation
Indices: 18513987--18514091 Score: 102
Period size: 16 Copynumber: 6.2 Consensus size: 16
18513977 GTTTCAAAAA
18513987 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
18514003 AAAATCCTCGTGTTTC
1 AAAATTCTCGTGTTTT
*
18514019 AAAATTGTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
18514035 CAAAAATTTTAGTGTTTTT
1 --AAAATTCTCGTG-TTTT
* *
18514054 AAGAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
18514072 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
18514088 AAAA
1 AAAA
18514092 AAATTTTGTG
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
16 33 0.45
17 13 0.18
18 23 0.32
19 4 0.05
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:18515696 original size:9 final size:9
Alignment explanation
Indices: 18515683--18515785 Score: 143
Period size: 9 Copynumber: 11.4 Consensus size: 9
18515673 TTTTGATTAA
*
18515683 AATTAACCA
1 AATTAACCG
18515692 AATTAACCG
1 AATTAACCG
*
18515701 AAATAACCG
1 AATTAACCG
*
18515710 AATTACCCG
1 AATTAACCG
18515719 AATTAACCG
1 AATTAACCG
*
18515728 AATTACCCG
1 AATTAACCG
*
18515737 AATTACCCG
1 AATTAACCG
18515746 AATTAACCG
1 AATTAACCG
*
18515755 AATTACCCG
1 AATTAACCG
18515764 AATTAACCG
1 AATTAACCG
*
18515773 AATTAACCA
1 AATTAACCG
18515782 AATT
1 AATT
18515786 GAATCACTAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 84 1.00
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:18518259 original size:12 final size:12
Alignment explanation
Indices: 18518242--18518274 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18518232 GACACCACAC
18518242 GGCCATGTGCTA
1 GGCCATGTGCTA
*
18518254 GGCCATGTGGTA
1 GGCCATGTGCTA
18518266 GGCCATGTG
1 GGCCATGTG
18518275 AGCCAAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.39, T:0.24
Consensus pattern (12 bp):
GGCCATGTGCTA
Found at i:18522600 original size:17 final size:17
Alignment explanation
Indices: 18522578--18522613 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18522568 AAACCTGCAA
18522578 AGTATAATCAACCAACC
1 AGTATAATCAACCAACC
18522595 AGTATAATCAACCAACC
1 AGTATAATCAACCAACC
18522612 AG
1 AG
18522614 AATATCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.08, T:0.17
Consensus pattern (17 bp):
AGTATAATCAACCAACC
Found at i:18524858 original size:75 final size:75
Alignment explanation
Indices: 18524575--18525132 Score: 638
Period size: 75 Copynumber: 7.3 Consensus size: 75
18524565 AAATTATTTC
* * *
18524575 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTAGGTCGCAT
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
*
18524640 GCTAAGGTAT
66 GCTGAGGTAT
* * * *
18524650 TTTCAATTTATGTTTTTCAAAAAAATCAACTTATAATGCAAGAGGTGAGTTGAGCTTCAGGTCGC
1 TTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGC
18524715 ACGCTGAGGTAT
64 ACGCTGAGGTAT
*
18524727 TTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGC
* *
18524792 ACACTAAGGTAT
64 ACGCTGAGGTAT
* * *
18524804 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
18524869 G-TAGAGGTATT
66 GCT-GAGGTA-T
* * *
18524880 TTTCAATTTATGTTTTTTTTTTAAAAAAATCAACTCATAAATACGAGAGG-GAGGTGAGCCTCGG
1 TTTCAATTTATG-----TTTTT-CAAAAATCAACTCAT-AATACGAGAGGTGAGTTGAGCCTCAG
*
18524944 GTCGCACTCTGAGGTATT
59 GTCGCACGCTGAGGTA-T
* * * * *
18524962 TTTCAATTTTTGTTTTTTC-AAAATCAACTCATAATCCGAGATGTGAGTTGAGCCTCGGGTTGCA
1 TTTCAATTTATG-TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCA
18525026 CGCTGAGGTAT
65 CGCTGAGGTAT
* * * * *
18525037 TTTCAATTTCTGTTTTTCAAAGATCAACTCATAATTA-GAAAGATGAGTTGAGCTTCAGGTCGCA
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAA-TACGAGAGGTGAGTTGAGCCTCAGGTCGCA
* * * *
18525101 CACCGAGCTAG
65 CGCTGAGGTAT
* *
18525112 TTTCGATTTCTGTTTTTCAAA
1 TTTCAATTTATGTTTTTCAAA
18525133 TAAAAATAAA
Statistics
Matches: 425, Mismatches: 43, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
74 7 0.02
75 151 0.36
76 54 0.13
77 139 0.33
78 6 0.01
81 5 0.01
82 52 0.12
83 11 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (75 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
GCTGAGGTAT
Found at i:18525065 original size:233 final size:227
Alignment explanation
Indices: 18524575--18525097 Score: 674
Period size: 233 Copynumber: 2.3 Consensus size: 227
18524565 AAATTATTTC
* * * *
18524575 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTAGGTCGCAT
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
* * *
18524640 GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTTATAATGCAAGAGGTGAGTTGAGC
66 GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACAAGAGGTGAGGTGAGC
*
18524705 TTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACGAGA
131 CTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGA
18524770 GGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
194 GGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
*
18524804 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
* *
18524869 G-TAGAGGTATTTTTCAATTTATGTTTTTTTTTTAAAAAAATCAACTCATAAATACGAGAGG-GA
66 GCTA-AGGTA-TTTTCAATTTATG----TTTTTCAAAAAAATCAACTCAT-AATACAAGAGGTGA
* * *
18524932 GGTGAGCCTCGGGTCGCACTCTGAGGTATTTTTCAATTTTTGTTTTTTC-AAAATCAACTCATAA
124 GGTGAGCCTCAGGTCGCACGCTGAGGTA-TTTTCAATTTATG-TTTTTCAAAAATCAACTCATAA
* * * ** * *
18524996 TCCGAGATGTGAGTTGAGCCTCGGGTTGCACGCTGAGGTAT
187 TACGAGAGGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
* * ** * * *
18525037 TTTCAATTTCTGTTTTTCAAAGATCAACTCATAATTAGAAAGATGAGTTGAGCTTCAGGTC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTC
18525098 GCACACCGAG
Statistics
Matches: 256, Mismatches: 29, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
228 2 0.01
229 66 0.26
230 13 0.05
233 102 0.40
234 46 0.18
235 21 0.08
236 6 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (227 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACAAGAGGTGAGGTGAGC
CTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGG
TGAGTTGAGCCTCAGGTCACACACTAAGGTAT
Found at i:18525439 original size:30 final size:29
Alignment explanation
Indices: 18525376--18525476 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
18525366 AAAAAAATTT
* *
18525376 AAATTACATTTTGACCCAT-AACTTTTCA
1 AAATTACATTTTGACCCCTAAACTTTCCA
18525404 AAATTACATTTTGACCCCTAAACTTTCCTA
1 AAATTACATTTTGACCCCTAAACTTTCC-A
* *
18525434 AAATTACATTTTAACCCCTAAAATTTCCCA
1 AAATTACATTTTGACCCCTAAACTTT-CCA
*
18525464 AAATTACACTTTG
1 AAATTACATTTTG
18525477 GCTCCAAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
28 18 0.28
29 7 0.11
30 37 0.58
31 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTCCA
Found at i:18525681 original size:24 final size:25
Alignment explanation
Indices: 18525654--18525728 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
18525644 ATCGGCCAAC
* *
18525654 AATCAACAACAAAAA-AGAGGAAAA
1 AATCAAAAAAAAAAAGAGAGGAAAA
18525678 AATCAAAAAAAAAAAGAGAGGAAAGA
1 AATCAAAAAAAAAAAGAGAGGAAA-A
* *
18525704 AGAT-AGAAAAAAAGAGA-AGGAAAA
1 A-ATCAAAAAAAAAAAGAGAGGAAAA
18525728 A
1 A
18525729 GAGGGGAGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
24 15 0.34
25 14 0.32
26 13 0.30
27 2 0.05
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.04
Consensus pattern (25 bp):
AATCAAAAAAAAAAAGAGAGGAAAA
Found at i:18528331 original size:15 final size:13
Alignment explanation
Indices: 18528311--18528344 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
18528301 TAACATAAAA
18528311 TATTTTATTATTTT
1 TATTTTATT-TTTT
18528325 GTATTTTATTTTTT
1 -TATTTTATTTTTT
18528339 TATTTT
1 TATTTT
18528345 CGGTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 4 0.21
15 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTATTTTTT
Found at i:18530476 original size:14 final size:14
Alignment explanation
Indices: 18530457--18530491 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18530447 ACGGTTTCAC
18530457 AATAATAATATAAT
1 AATAATAATATAAT
*
18530471 AATAATAATATGAT
1 AATAATAATATAAT
18530485 AATAATA
1 AATAATA
18530492 GTTGTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AATAATAATATAAT
Found at i:18531295 original size:13 final size:13
Alignment explanation
Indices: 18531277--18531301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18531267 TGTTGGTGTA
18531277 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
18531290 AAAAAAAAAAAA
1 AAAAAAAAAAAA
18531302 ATAAAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:18531295 original size:14 final size:14
Alignment explanation
Indices: 18531276--18531307 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18531266 ATGTTGGTGT
18531276 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
18531290 AAAAAAAAAAAAAT
1 AAAAAAAAAAAAAC
18531304 AAAA
1 AAAA
18531308 TATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.94, C:0.03, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:18531548 original size:24 final size:25
Alignment explanation
Indices: 18531508--18531567 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
18531498 TCAAAATAAA
*
18531508 TAATTTAATCATATTTAACT-ATTAT
1 TAATTTAAT-ATATTTAACTAAATAT
*
18531533 T-ATTTAATATATTTTAATTAAATAT
1 TAATTTAATATA-TTTAACTAAATAT
18531558 TAATTTAATA
1 TAATTTAATA
18531568 AAATGGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.10
24 13 0.43
25 6 0.20
26 8 0.27
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTTAATATATTTAACTAAATAT
Found at i:18531571 original size:67 final size:67
Alignment explanation
Indices: 18531500--18531712 Score: 154
Period size: 67 Copynumber: 3.1 Consensus size: 67
18531490 ATTTATTATC
18531500 AAAATAAATAATTTAATCATATTTAACTATTATTATTTAATATATTTTAATTAAATATTAATTTA
1 AAAATAAATAATTTAATCATATTTAACTATTATTATTTAATATATTTTAATTAAATATTAATTTA
18531565 AT
66 AT
* * ** * *
18531567 AAAATGGTTAATAATTAGCAAAATTTGTTTTGGTAATTATT-TTATTT-A-A-ATTTTAA-T-AA
1 AAAA---TAAATAATT----TAA-TCATATT--TAACTATTATTATTTAATATATTTTAATTAAA
* *
18531626 GATTAATATCAAT
56 TATTAAT-TTAAT
*
18531639 --AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAATATATAA
1 AAAATAAATAATTTAATCATATTT-AAC-T-ATTATTATTTAATATATTTTAATTAAATAT-TAA
18531702 TTTAAT
62 TTTAAT
18531708 AAAAT
1 AAAAT
18531713 TCTTAATATT
Statistics
Matches: 106, Mismatches: 17, Indels: 42
0.64 0.10 0.25
Matches are distributed among these distances:
60 1 0.01
61 2 0.02
62 5 0.05
63 5 0.05
64 5 0.05
65 1 0.01
66 1 0.01
67 19 0.18
68 1 0.01
69 8 0.08
70 14 0.13
71 11 0.10
72 5 0.05
73 7 0.07
74 3 0.03
75 5 0.05
76 6 0.06
77 7 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (67 bp):
AAAATAAATAATTTAATCATATTTAACTATTATTATTTAATATATTTTAATTAAATATTAATTTA
AT
Found at i:18531708 original size:27 final size:27
Alignment explanation
Indices: 18531637--18531708 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
18531627 ATTAATATCA
*
18531637 ATAATAAATAATTTAATCATATTTAAAC
1 ATAATATATAATTTAAT-ATATTTAAAC
* * *
18531665 ATAAT-TATTATTAAATATATTTTAA-
1 ATAATATATAATTTAATATATTTAAAC
*
18531690 TTAAATATATAATTTAATA
1 AT-AATATATAATTTAATA
18531709 AAATTCTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 1 0.03
26 11 0.31
27 18 0.51
28 5 0.14
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
ATAATATATAATTTAATATATTTAAAC
Found at i:18531712 original size:17 final size:17
Alignment explanation
Indices: 18531679--18531712 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18531669 TTATTATTAA
* *
18531679 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
18531696 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18531713 TCTTAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18535669 original size:108 final size:108
Alignment explanation
Indices: 18535482--18535758 Score: 380
Period size: 108 Copynumber: 2.6 Consensus size: 108
18535472 GAATTTGGCA
* * **
18535482 ATTTGGTTAAACGAG-AAATCGAA-ACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGC
1 ATTTGGTTGAACGAGAAAATC-AACACCCAGCACCTTAGGGCATGTTTTTCGAATTTCCAAACGC
* * *
18535545 AAAATATTACCTTATTTTGAAATTTTTG-AAAGGATATTTAGCT
65 AAAACATTACCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
* *
18535588 ATTTGGTTGAGCGAGAAAAATCAACACCCAGCACCTTAAGGCATGTTTTTCGAATTTCCAAACGC
1 ATTTGGTTGAACGAG-AAAATCAACACCCAGCACCTTAGGGCATGTTTTTCGAATTTCCAAACGC
*
18535653 AAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
65 AAAACATTACCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
* * * *
18535697 ATTTGGTTGAACGAGAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTCAAATTTTCAAA
1 ATTTGGTTGAACGAGAAAATCAACACCCAGCACCTTAGGGCATGTTTT-TCGAATTTCCAAA
18535759 TGCCAAATAT
Statistics
Matches: 150, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
106 13 0.09
107 2 0.01
108 96 0.64
109 39 0.26
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (108 bp):
ATTTGGTTGAACGAGAAAATCAACACCCAGCACCTTAGGGCATGTTTTTCGAATTTCCAAACGCA
AAACATTACCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
Found at i:18536391 original size:3 final size:3
Alignment explanation
Indices: 18536383--18536422 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
18536373 AAAACCAATG
*
18536383 ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18536423 AATTGCTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18537153 original size:18 final size:17
Alignment explanation
Indices: 18537130--18537163 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
18537120 TAGAAGATAA
18537130 AAAATAAACAATAAAAAT
1 AAAATAAA-AATAAAAAT
18537148 AAAATAAAAATAAAAA
1 AAAATAAAAATAAAAA
18537164 GAGAAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:18537155 original size:11 final size:11
Alignment explanation
Indices: 18537129--18537162 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
18537119 GTAGAAGATA
18537129 AAAAATAAACAAT
1 AAAAAT-AA-AAT
18537142 AAAAATAAAAT
1 AAAAATAAAAT
18537153 AAAAATAAAA
1 AAAAATAAAA
18537163 AGAGAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 2 0.10
13 6 0.29
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:18537163 original size:7 final size:6
Alignment explanation
Indices: 18537129--18537163 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
18537119 GTAGAAGATA
18537129 AAAAAT AAACAAT AAAAAT -AAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAA
18537164 GAGAAGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:18538120 original size:44 final size:44
Alignment explanation
Indices: 18538064--18538742 Score: 291
Period size: 44 Copynumber: 15.6 Consensus size: 44
18538054 TTTAATCCGT
*
18538064 TCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
* * * * *
18538108 TCCGCTATAATCTCAGGGAGATAAGATT--TGA-C-ACGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCAATCTGC
* ** * * * *
18538149 TCTACTGTAA-CTTCAGAAAGATAAGATCATTTAT-TTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTA-CTATCTTCAATCTGC
* * * *
18538193 TCCACTATAATCTCAGGAAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
* * * * *
18538237 TCCGCTGTAATCTCAAGGAGATAAGA-T-CTGA-C-ACGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCAATCTGC
* * * * * *
18538278 TCTACTTTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT--TACTATCTTCAATCTGC
* * *
18538322 TCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
** * ** *
18538366 TCTGCTGTAATCTCAGGGAGATAAGATATGA-AATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTCAATCTGC
* * * * * *
18538412 TCCACTGTAATCTCAAGGAAATAAGA--CCTGA-C-GCTATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCAATCTGC
** * * * * **
18538453 TCTGCTATAA-CTTCAGAGAGATAAGA-TCCT-TCATTTTAATCCAC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATC--TTCAATCTGC
** * *
18538497 TCCACTGTAATCTCAAAGAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
* * * ** *
18538541 TCCGCTGTAATCTCAGGGAGATAAAATCTGA-AATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTCAATCTGC
* * * * * * *
18538587 TTCACTGTAATCTCAAGGAAATAAGA--CCTGA-C-GCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCAATCTGC
** * * * *
18538628 TCTGCTGTAA-CTTCAGAGAGATAAGA-TCCT-TCATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATC--TTCAATCTGC
*
18538672 TCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
18538716 TCCACTGTAATCTCAGGGAGATAAGAT
1 TCCACTGTAATCTCAGGGAGATAAGAT
18538743 CTGACACGAT
Statistics
Matches: 454, Mismatches: 134, Indels: 94
0.67 0.20 0.14
Matches are distributed among these distances:
40 4 0.01
41 98 0.22
42 14 0.03
43 9 0.02
44 252 0.56
45 13 0.03
46 64 0.14
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
Found at i:18538186 original size:129 final size:129
Alignment explanation
Indices: 18537950--18538392 Score: 652
Period size: 129 Copynumber: 3.4 Consensus size: 129
18537940 CGCAATGTCG
* * * * * * * * * * **
18537950 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGA
* * *
18538015 TCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTGTTTTAATCCGTTCCACTGTAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
* * *
18538079 GGGAGATAGGATTACTATCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTGACACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGA
* * *
18538144 TCTACTCTACTGTAACTTCAGAAAGATAAGATCATTTATTTTAATCCGCTCCACTATAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
* *
18538208 GGAAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGACACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGA
* *
18538273 TCTACTCTACTTTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATATCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
*
18538337 GGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGAT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
18538393 ATGAAATTCT
Statistics
Matches: 280, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 280 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (129 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGA
TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
Found at i:18538453 original size:175 final size:175
Alignment explanation
Indices: 18538232--18538742 Score: 842
Period size: 175 Copynumber: 2.9 Consensus size: 175
18538222 CTAGCTTCAA
* * * * * * *
18538232 TCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGACACGATCTACTCTACTTTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTATAACTTCAGAGA
* *
18538297 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
*
18538362 CTGCTCTGCTGTAATCTCAGGGAGATAAGATATGAAATTCTTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATATGAAATTCTTCGG
*
18538407 TCTGTTCCACTGTAATCTCAAGGAAATAAGACCTGACGCTATCTACTCTGCTATAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTATAACTTCAGAGA
* **
18538472 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAAAGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
* *
18538537 CTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATATGAAATTCTTCGG
* *
18538582 TCTGTTTCACTGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTATAACTTCAGAGA
*
18538647 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
*
18538712 CTGCTCCACTGTAATCTCAGGGAGATAAGAT
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGAT
18538743 CTGACACGAT
Statistics
Matches: 311, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 311 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (175 bp):
TCTGTTCCACTGTAATCTCAAGGAAATAAGACCTGACGCGATCTACTCTGCTATAACTTCAGAGA
GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
CTGCTCCGCTGTAATCTCAGGGAGATAAGATATGAAATTCTTCGG
Found at i:18538474 original size:87 final size:87
Alignment explanation
Indices: 18538360--18538655 Score: 282
Period size: 87 Copynumber: 3.4 Consensus size: 87
18538350 ACTAGCTTCA
* * *
18538360 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGATATGAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
18538425 CAAGGAAATAAGACCTGACGCT
66 CAAGGAAATAAGACCTGACGCT
* ** ** ***
18538447 ATCTACTCTGCTATAA-CTTCAGAGAGATAAGATCCT-TCATT-TT-AATCCACTCCACTGTAAT
1 ATCTACTCTGCTGTAATC-TCAGAGAGATAAGAT-CTGAAATTCTTCGGTCTGTTCCACTGTAAT
* * * *
18538508 CTCAAAGAGATAGGA--TTACTAGCTT
64 CTCAAGGAAATAAGACCTGAC--GC-T
* * * * *
18538533 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTTCACTGTAAT
1 --ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAAT
*
18538598 CTCAAGGAAATAAGACCTGACGCG
64 CTCAAGGAAATAAGACCTGACGCT
18538622 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATC
1 ATCTACTCTGCTGTAATC-TCAGAGAGATAAGATC
18538656 CTTCATTTTA
Statistics
Matches: 158, Mismatches: 37, Indels: 28
0.71 0.17 0.13
Matches are distributed among these distances:
83 3 0.02
85 27 0.17
86 5 0.03
87 61 0.39
88 30 0.19
89 3 0.02
90 26 0.16
92 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (87 bp):
ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
CAAGGAAATAAGACCTGACGCT
Found at i:18538903 original size:87 final size:87
Alignment explanation
Indices: 18538790--18539046 Score: 302
Period size: 87 Copynumber: 2.9 Consensus size: 87
18538780 AGATCATTTA
* * * * *
18538790 TTCAATCAGCAT-CACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCATTGTTAAT
1 TTCAATCAGC-TCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAAC
18538854 GCAGGAAGGCAAGATCTGCTATC
65 GCAGGAAGGCAAGATCTGCTATC
* * * *
18538877 TTCAATCAGCTCCACTACAACCGATGGAGACAATGCTTTGTTTTCAATCTGCTTCGCTGTTAACG
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAACG
** *
18538942 CAGGAAGGCCTGATTTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * * *
18538964 ATCAACCAGTTCCACCGCAACCGATGGAGACAAAGC-TTGTATCTTTGATCTGCTTCACTGTCAA
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGT-T-TTCGATCTGCTTCACTGTTAA
*
18539028 GGCAGGAAGGCAAGATCTG
64 CGCAGGAAGGCAAGATCTG
18539047 TTGTCTTTGA
Statistics
Matches: 142, Mismatches: 25, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
86 5 0.04
87 105 0.74
88 32 0.23
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAACG
CAGGAAGGCAAGATCTGCTATC
Found at i:18539079 original size:45 final size:45
Alignment explanation
Indices: 18539005--18539090 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
18538995 AAAGCTTGTA
* * *
18539005 TCTTTGATCTGCTTCACTGTCAAGGCAGGAAGGCAAGATCTGTTG
1 TCTTTGATCTGCTTCACAGTCAAGACAGGAAAGCAAGATCTGTTG
*
18539050 TCTTTGATCTGCTTCGCAGTC-AGTACAGGAAAGCAAGATCT
1 TCTTTGATCTGCTTCACAGTCAAG-ACAGGAAAGCAAGATCT
18539091 AATGTCTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (45 bp):
TCTTTGATCTGCTTCACAGTCAAGACAGGAAAGCAAGATCTGTTG
Found at i:18540203 original size:21 final size:21
Alignment explanation
Indices: 18540177--18540223 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18540167 GGTATAGCAG
*
18540177 GATCACCACATGCCCTAATCT
1 GATCACCACATGCCCCAATCT
** *
18540198 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
18540219 GATCA
1 GATCA
18540224 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:18541317 original size:47 final size:47
Alignment explanation
Indices: 18541247--18541343 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
18541237 CTCTTTTTCA
18541247 TTCTTCTTTCTTTTTCTCATTTTCATTTTGATCTTGA-TTTTGATTTT
1 TTCTTCTTTCTTTTTCTCATTTTC-TTTTGATCTTGATTTTTGATTTT
** * *
18541294 TTCTTCTTTCTTCTTT-TTGTTTTCTTTTTATTTTGATTTTTGATTTT
1 TTCTTCTTTCTT-TTTCTCATTTTCTTTTGATCTTGATTTTTGATTTT
18541341 TTC
1 TTC
18541344 ATTTTCATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 10 0.23
47 31 0.70
48 3 0.07
ACGTcount: A:0.08, C:0.13, G:0.06, T:0.72
Consensus pattern (47 bp):
TTCTTCTTTCTTTTTCTCATTTTCTTTTGATCTTGATTTTTGATTTT
Found at i:18541336 original size:7 final size:6
Alignment explanation
Indices: 18541318--18541378 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
18541308 TTTTGTTTTC
* * * *
18541318 TTTTTA TTTTGA TTTTTGA TTTTTTCA TTTTCA TTTTGA CTTTGA TTTTGA
1 TTTTGA TTTTGA -TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
18541369 TTTTGA TTTT
1 TTTTGA TTTT
18541379 TCTTTTTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 36 0.75
7 6 0.12
8 6 0.12
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:18543372 original size:19 final size:20
Alignment explanation
Indices: 18543343--18543391 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
18543333 CACTTCGTGA
* *
18543343 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
18543362 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
18543382 AAATG-AATGC
1 AAATGTAATGC
18543392 CTAAATAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:18544951 original size:109 final size:110
Alignment explanation
Indices: 18544772--18545050 Score: 458
Period size: 110 Copynumber: 2.6 Consensus size: 110
18544762 ATATTTGGTA
* * * *
18544772 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
18544834 CAAAACATTGCCTTATTTTGAAATTTTTG-AAAGGATATTTAGCT
66 CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
*
18544878 ATTTGGTTGAGCGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
18544943 CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
66 CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
*
18544988 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAA
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAA
18545051 TGCCAAATAT
Statistics
Matches: 160, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
106 13 0.08
108 26 0.16
109 46 0.29
110 75 0.47
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (110 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
Found at i:18545686 original size:3 final size:3
Alignment explanation
Indices: 18545672--18545741 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
18545662 AAAACCAATG
*
18545672 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18545720 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
18545742 AATTGCTAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18546475 original size:5 final size:6
Alignment explanation
Indices: 18546447--18546482 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
18546437 GTAGAAGATA
18546447 AAAAAT AAACAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAA
18546483 GAGAAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:18549601 original size:13 final size:13
Alignment explanation
Indices: 18549583--18549610 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18549573 TTTAACTATA
18549583 TAGAGTAAAAATT
1 TAGAGTAAAAATT
18549596 TAGAGTAAAAATT
1 TAGAGTAAAAATT
18549609 TA
1 TA
18549611 AAGATGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (13 bp):
TAGAGTAAAAATT
Found at i:18553753 original size:27 final size:26
Alignment explanation
Indices: 18553723--18553930 Score: 227
Period size: 27 Copynumber: 7.7 Consensus size: 26
18553713 GCAGGGTTCA
*
18553723 CCACAAAGGCCTTCCTTTCATAATTTT
1 CCACAAAGGCTTTCCTTTCAT-ATTTT
* *
18553750 CCACAAAGGCTTTCTTTTCATGATTCT
1 CCACAAAGGCTTTCCTTTCAT-ATTTT
* *
18553777 CCATAAAGGCTTTCCTTTCATATTTCA
1 CCACAAAGGCTTTCCTTTCATATTT-T
* *
18553804 CCATAAAGGATTTCCTTTCATATTTTT
1 CCACAAAGGCTTTCCTTTCATA-TTTT
* * * **
18553831 TCAAAAAGGATTTCCTTTCATAATTCG
1 CCACAAAGGCTTTCCTTTCAT-ATTTT
18553858 CCACAAAGGCTTTCCTTTCATATTTT
1 CCACAAAGGCTTTCCTTTCATATTTT
18553884 GCCACAAAGGCTTTCCTTTCATATTTT
1 -CCACAAAGGCTTTCCTTTCATATTTT
* *
18553911 GCCACAAAGGTTTTTCTTTC
1 -CCACAAAGGCTTTCCTTTC
18553931 TTAATGTGTT
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
26 6 0.04
27 146 0.94
28 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (26 bp):
CCACAAAGGCTTTCCTTTCATATTTT
Found at i:18553805 original size:81 final size:81
Alignment explanation
Indices: 18553719--18553929 Score: 271
Period size: 81 Copynumber: 2.6 Consensus size: 81
18553709 CATTGCAGGG
* * * * *
18553719 TTCACCACAAAGGCCTTCCTTTCATAATTTTCCACAAAGGCTTTCTTTTCATGATTCTCCATAAA
1 TTCACCACAAAGGCTTTCCTTTCATAATTTTCCACAAAGGATTTCTTTTCATAATTCGCCACAAA
18553784 GGCTTTCCTTTCATAT
66 GGCTTTCCTTTCATAT
* * * * * *
18553800 TTCACCATAAAGGATTTCCTTTCATATTTTTTCAAAAAGGATTTCCTTTCATAATTCGCCACAAA
1 TTCACCACAAAGGCTTTCCTTTCATAATTTTCCACAAAGGATTTCTTTTCATAATTCGCCACAAA
18553865 GGCTTTCCTTTCATAT
66 GGCTTTCCTTTCATAT
** *
18553881 TTTGCCACAAAGGCTTTCCTTTCAT-ATTTTGCCACAAAGGTTTTTCTTT
1 TTCACCACAAAGGCTTTCCTTTCATAATTTT-CCACAAAGG-ATTTCTTT
18553930 CTTAATGTGT
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
80 4 0.04
81 98 0.91
82 6 0.06
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.41
Consensus pattern (81 bp):
TTCACCACAAAGGCTTTCCTTTCATAATTTTCCACAAAGGATTTCTTTTCATAATTCGCCACAAA
GGCTTTCCTTTCATAT
Found at i:18556383 original size:25 final size:25
Alignment explanation
Indices: 18556355--18556439 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
18556345 CAATTCTCAA
18556355 CTCGTATGAGCTTACCGTTATTCAG
1 CTCGTATGAGCTTACCGTTATTCAG
* ** *
18556380 CTCGCACCAGTTTACCGTTACTT-AG
1 CTCGTATGAGCTTACCGTTA-TTCAG
* *
18556405 CTCGTATGAACTTATCG--ATTACAG
1 CTCGTATGAGCTTACCGTTATT-CAG
18556429 CTCGTATGAGC
1 CTCGTATGAGC
18556440 ATACATGTAC
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 12 0.26
25 29 0.63
26 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGTTATTCAG
Found at i:18586830 original size:42 final size:43
Alignment explanation
Indices: 18586783--18586868 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
18586773 TTTTTATGAT
*
18586783 TGTTACGATTT-GTGCTTGTACCTTAATTAGTCACTAATTCAG
1 TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
18586825 TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
1 TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
18586868 T
1 T
18586869 AAAATTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 11 0.26
43 31 0.74
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (43 bp):
TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
Found at i:18589470 original size:42 final size:42
Alignment explanation
Indices: 18589416--18589509 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
18589406 CTCGGTATCG
*
18589416 CACACTTAGTGCCCGTTATTCAACATCATCATTTTAATTTCA
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
* * *
18589458 CACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTTTCG
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
18589500 CACACTTAGT
1 CACACTTAGT
18589510 ACCATTCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (42 bp):
CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
Found at i:18590355 original size:4 final size:4
Alignment explanation
Indices: 18590346--18590379 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
18590336 ACATAATAGC
18590346 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
18590380 ATCACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:18591204 original size:9 final size:9
Alignment explanation
Indices: 18591190--18591236 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
18591180 ATACAAATTT
18591190 TTTATTTTA
1 TTTATTTTA
18591199 TTTATTTTA
1 TTTATTTTA
*
18591208 TTTA-TTCA
1 TTTATTTTA
18591216 TATTATTTTTAA
1 T-TTA-TTTT-A
18591228 TTTATTTTA
1 TTTATTTTA
18591237 ACTTCTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 4 0.12
9 17 0.53
10 4 0.12
11 5 0.16
12 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTTTA
Found at i:18596107 original size:21 final size:21
Alignment explanation
Indices: 18596083--18596134 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
18596073 TCTTTCAAAC
18596083 TTTTATGTTTTTCTTAGTTT-T
1 TTTTATGTTTTT-TTAGTTTGT
**
18596104 TTTTCA-GTTTTTTTTTTTTGT
1 TTTT-ATGTTTTTTTAGTTTGT
18596125 TTTTATGTTT
1 TTTTATGTTT
18596135 CATTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.08, C:0.04, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTATGTTTTTTTAGTTTGT
Found at i:18597329 original size:11 final size:11
Alignment explanation
Indices: 18597312--18597373 Score: 79
Period size: 11 Copynumber: 5.6 Consensus size: 11
18597302 AAATTTGAAA
18597312 CACCACCATAC
1 CACCACCATAC
* *
18597323 AACCACCATAT
1 CACCACCATAC
*
18597334 CACCACCACAC
1 CACCACCATAC
*
18597345 CACTACCATAC
1 CACCACCATAC
*
18597356 CACCACCATAT
1 CACCACCATAC
18597367 CACCACC
1 CACCACC
18597374 CTTGCACCAC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.37, C:0.52, G:0.00, T:0.11
Consensus pattern (11 bp):
CACCACCATAC
Found at i:18602822 original size:33 final size:31
Alignment explanation
Indices: 18602785--18602857 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
18602775 AGAAAAACTC
18602785 AAGAAAAATAGAAA-AAAATGAGTAAAAAAAAGA
1 AAGAAAAA-A-AAATAAAATGAGT-AAAAAAAGA
***
18602818 AAGAACAAAAAAATGTGATGAGTAAAAAAAGA
1 AAGAA-AAAAAAATAAAATGAGTAAAAAAAGA
18602850 AAGAAAAA
1 AAGAAAAA
18602858 GTCTAGCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 3 0.09
32 17 0.49
33 12 0.34
34 3 0.09
ACGTcount: A:0.73, C:0.01, G:0.16, T:0.10
Consensus pattern (31 bp):
AAGAAAAAAAAATAAAATGAGTAAAAAAAGA
Found at i:18606671 original size:17 final size:18
Alignment explanation
Indices: 18606645--18606680 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18606635 TGCAAGGACA
18606645 AGGGCAAAGG-AAAGCCT
1 AGGGCAAAGGCAAAGCCT
*
18606662 AGGGCTAAGGCAAAGCCT
1 AGGGCAAAGGCAAAGCCT
18606680 A
1 A
18606681 AGGAGAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.39, C:0.19, G:0.33, T:0.08
Consensus pattern (18 bp):
AGGGCAAAGGCAAAGCCT
Found at i:18611610 original size:14 final size:14
Alignment explanation
Indices: 18611593--18611622 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18611583 AGTGAGAGAG
*
18611593 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18611607 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18611621 GA
1 GA
18611623 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18612259 original size:19 final size:19
Alignment explanation
Indices: 18612235--18612277 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18612225 CATGTTCAAA
* * *
18612235 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAAAT
18612254 ATTTT-ATAAAAATTAAAT
1 ATTTTAATAAAAATTAAAT
18612272 ATTTTA
1 ATTTTA
18612278 TGACAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAATAAAAATTAAAT
Found at i:18613577 original size:15 final size:16
Alignment explanation
Indices: 18613548--18613577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18613538 CAAACATGTT
18613548 TTAACACATTATCAAA
1 TTAACACATTATCAAA
18613564 TTAACACA-TATCAA
1 TTAACACATTATCAA
18613578 TAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:18616793 original size:26 final size:26
Alignment explanation
Indices: 18616763--18616841 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
18616753 ACATACACAC
18616763 CAATATCGCAACAAAGCTGCCAGTAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* * *
18616789 TAATAACACAACAAAGCTGCCAGTAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* *
18616815 CAGTAAT-GCAGCAAAGCTGCCAGTAA
1 CAAT-ATCGCAACAAAGCTGCCAGTAA
18616841 C
1 C
18616842 GGTATATGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.15
Consensus pattern (26 bp):
CAATATCGCAACAAAGCTGCCAGTAA
Found at i:18617052 original size:27 final size:27
Alignment explanation
Indices: 18617022--18617136 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
18617012 GGTTATAACA
* * *
18617022 GTCATTTTACCGTATAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTAATTCG
*
18617049 GTCATTTTACCCTTTGGGGGTAATTCG
1 GTCATTTTACCCTTTAGGGGTAATTCG
*
18617076 GTCATTTTATCCTTT-GAGGGTAATTCG
1 GTCATTTTACCCTTTAG-GGGTAATTCG
* *
18617103 ATCATTTTACCCTTTAAGGGTAATTCG
1 GTCATTTTACCCTTTAGGGGTAATTCG
18617130 GTCATTT
1 GTCATTT
18617137 GTGGCCCATT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.99
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTAATTCG
Found at i:18624178 original size:26 final size:26
Alignment explanation
Indices: 18624149--18624199 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
18624139 GCACCAATAT
*
18624149 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAATAACAGTAA
18624175 CGCAGCAAAGCTGCCAATAACAGTA
1 CGCAGCAAAGCTGCCAATAACAGTA
18624200 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.22, T:0.12
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAATAACAGTAA
Found at i:18625473 original size:25 final size:25
Alignment explanation
Indices: 18625439--18625579 Score: 119
Period size: 25 Copynumber: 5.6 Consensus size: 25
18625429 GGTTGTTACA
18625439 CTTTTCATAAGATTAGCCACAAAGG
1 CTTTTCATAAGATTAGCCACAAAGG
*
18625464 CTTTTCATAATATTAGCCACAAAGG
1 CTTTTCATAAGATTAGCCACAAAGG
* *
18625489 CTTTCCAGATA-A-TATGCCACAAAGG
1 CTTTTCATA-AGATTA-GCCACAAAGG
* ** *
18625514 ATTTTCATAAGATTAATCATAAAGG
1 CTTTTCATAAGATTAGCCACAAAGG
* * * *
18625539 CTTTCCA-AATAATACTCCACCAAA-G
1 CTTTTCATAAGATTA-GCCA-CAAAGG
18625564 CTTTTCATAAGATTAG
1 CTTTTCATAAGATTAG
18625580 GGTTCAGTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
24 8 0.09
25 70 0.79
26 11 0.12
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (25 bp):
CTTTTCATAAGATTAGCCACAAAGG
Found at i:18625538 original size:50 final size:51
Alignment explanation
Indices: 18625454--18625578 Score: 166
Period size: 50 Copynumber: 2.5 Consensus size: 51
18625444 CATAAGATTA
* * *
18625454 GCCACAAAGGCTTTTCATAATATTAGCCACAAAGGCTTTCCAGATAATA-T
1 GCCACAAAGGCTTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACT
* * *
18625504 GCCACAAAGGATTTTCATAAGATTAATCATAAAGGCTTTCCAAATAATACT
1 GCCACAAAGGCTTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACT
18625555 -CCACCAAA-GCTTTTCATAAGATTA
1 GCCA-CAAAGGCTTTTCATAAGATTA
18625579 GGGTTCAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 61 0.92
51 5 0.08
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (51 bp):
GCCACAAAGGCTTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACT
Found at i:18625704 original size:5 final size:5
Alignment explanation
Indices: 18625694--18625720 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18625684 AGATACGAGT
18625694 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
18625721 CATATTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:18630121 original size:24 final size:25
Alignment explanation
Indices: 18630067--18630128 Score: 92
Period size: 24 Copynumber: 2.5 Consensus size: 25
18630057 ATCCGGGAAA
*
18630067 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGTAGCTCACAAAGAGCC
18630092 TATAACGGGTAGCTC-CAAAGAGCAC
1 TATAACGGGTAGCTCACAAAGAGC-C
18630117 T-TAACGGGTAGC
1 TATAACGGGTAGC
18630129 ACCGGATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (25 bp):
TATAACGGGTAGCTCACAAAGAGCC
Found at i:18636159 original size:101 final size:102
Alignment explanation
Indices: 18636031--18636215 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
18636021 AAAGTGATGG
* * *
18636031 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGAT-A-GGTCGCACGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG-AATGATAATGGCCACACGTGTAGT
18636094 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* *
18636132 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATAATGGCCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGCCACACGTGTAGTA
18636197 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
18636216 TGAATCGAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 39 0.51
102 32 0.42
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGCCACACGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:18636217 original size:26 final size:26
Alignment explanation
Indices: 18636137--18636217 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
18636127 TTCGATCACG
18636137 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
18636163 CGTGTA-T-CGAATGAT-AATGGCCAC-A
1 TGTGTAGTAC-TATG-TGCA-GGCTACTA
18636188 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
18636214 TGTG
1 TGTG
18636218 AATCGAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:18636224 original size:51 final size:50
Alignment explanation
Indices: 18636027--18636217 Score: 233
Period size: 51 Copynumber: 3.8 Consensus size: 50
18636017 AGTGAAAGTG
*
18636027 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG-AATGAT
* * * *
18636078 A-GGTCGCACGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGA-T
* * * * *
18636127 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGAT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGAT
*
18636178 AATGGCCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
18636218 AATCGAACAT
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 38 0.33
51 72 0.62
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGAT
Found at i:18640463 original size:75 final size:75
Alignment explanation
Indices: 18640340--18641039 Score: 581
Period size: 75 Copynumber: 9.3 Consensus size: 75
18640330 CAATTTGCTA
* *
18640340 ACCTATGTTCACAACTGATATTTTTAT-GGT-TCGCTGATTTAAGATCGCGACCCTTAGTTTTCT
1 ACCTACGTTCACAACTGATATTTTT-TCGGTCT-GCTGATTTAAGATCGCGACCCTCAGTTTTCT
* * *
18640403 ATCATCTCACTG
64 AACAGCTCGCTG
* * * ** *
18640415 ACCTACATTCATAGCTGATATTTTTTCGGTCTATTGATTTAAGATCGCGACCCTCAATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGCGACCCTCAGTTTTCTAA
*
18640480 CAGCTCGCTA
66 CAGCTCGCTG
* * * ** * * *
18640490 ACCTATGTTCACAATTGATATTTTTACAATCTGCTAATTTAAGATCGTGACCCTCAATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGCGACCCTCAGTTTTCTAA
*
18640555 CATCTCGCTG
66 CAGCTCGCTG
* * * * * * *
18640565 ACTTATGTTCACAACTGATATTTTTAT-GGT-T-CATTGATTTAAGATTGCAATCCTCGGCTTTC
1 ACCTACGTTCACAACTGATATTTTT-TCGGTCTGC--TGATTTAAGATCGCGACCCTCAGTTTTC
*
18640627 TAACAGCTCGCTA
63 TAACAGCTCGCTG
**
18640640 ACCTACGTTCACAACTGATATTTTTAT-GGTCTGCTGATTTAAGATCGTAACCCTC-GATTTTCT
1 ACCTACGTTCACAACTGATATTTTT-TCGGTCTGCTGATTTAAGATCGCGACCCTCAG-TTTTCT
*
18640703 AATAGCTCGCTG
64 AACAGCTCGCTG
* ** * ** * * *
18640715 ACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAGATTGTGACCCTC-GATTTTCTA
1 ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGCGACCCTCAG-TTTTCTA
18640779 ACAGCTCGCTG
65 ACAGCTCGCTG
* * * * * * * *
18640790 ACCTACGTTCACAACTAATATTTTTACGGTCCGCTAATTTCAGATTGCGACTCTCAATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGCGACCCTCAGTTTTCTAA
**
18640855 CAGCTTACTG
66 CAGCTCGCTG
* * * * * * *
18640865 ACCTACGTTCACAACTAAAACTTTTTCGATCTGTTGATTTAAGATC-CTGACCCTCAATTTGCTA
1 ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGC-GACCCTCAGTTTTCTA
* **
18640929 ACTGCTCATTG
65 ACAGCTCGCTG
** * * * * * * * *
18640940 ACCTACGTTCACATTTGATATTTTTACCGTTTGCTAATTTAAGATTGCAACCCTCAATTTTTTAA
1 ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGCGACCCTCAGTTTTCTAA
*
18641005 CAGCTCGTTG
66 CAGCTCGCTG
18641015 ACCTACTACGTTCACAACTGATATT
1 A-C--CTACGTTCACAACTGATATT
18641040 ATTAAGGTTT
Statistics
Matches: 506, Mismatches: 104, Indels: 27
0.79 0.16 0.04
Matches are distributed among these distances:
73 1 0.00
74 4 0.01
75 478 0.94
76 4 0.01
77 1 0.00
78 18 0.04
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (75 bp):
ACCTACGTTCACAACTGATATTTTTTCGGTCTGCTGATTTAAGATCGCGACCCTCAGTTTTCTAA
CAGCTCGCTG
Found at i:18640607 original size:150 final size:151
Alignment explanation
Indices: 18640336--18641048 Score: 684
Period size: 150 Copynumber: 4.7 Consensus size: 151
18640326 GAAACAATTT
* * * * *
18640336 GCTAACCTATGTTCACAACTGATATTTTTATGGT-TCGCTGATTTAAGATCGCGACCCTTAGTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCT-GCTAATTTAAGATCGCGACCCTCAATTT
* * * * * *
18640400 TCTATCATCTCACTGACCTACATTCATAGCTGATATTTTT-TCGG-TCTATTGATTTAAGATCGC
65 TCTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTAT-GGTTCTATTGATTTAAGATCGC
18640463 GACCCTCAATTTTCTAACAGCTC
129 GACCCTCAATTTTCTAACAGCTC
* * ** *
18640486 GCTAACCTATGTTCACAATTGATATTTTTACAATCTGCTAATTTAAGATCGTGACCCTCAATTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGCGACCCTCAATTTT
* * * * *
18640551 CTAACATCTCGCTGACTTATGTTCACAACTGATATTTTTATGGTTC-ATTGATTTAAGATTGCAA
66 CTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTATGGTTCTATTGATTTAAGATCGCGA
* ***
18640615 TCCTCGGCTTTCTAACAGCTC
131 CCCTCAATTTTCTAACAGCTC
* * ** *
18640636 GCTAACCTACGTTCACAACTGATATTTTTATGGTCTGCTGATTTAAGATCGTAACCCTCGATTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGCGACCCTCAATTTT
* * ** * * *** * *
18640701 CTAATAGCTCGCTGACCTACATTCACAGTTGACATTTTTAAGG-TCCGCTGATTTAAGATTGTGA
66 CTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTATGGTTCTATTGATTTAAGATCGCGA
*
18640765 CCCTCGATTTTCTAACAGCTC
131 CCCTCAATTTTCTAACAGCTC
* * * * * *
18640786 GCTGACCTACGTTCACAACTAATATTTTTACGGTCCGCTAATTTCAGATTGCGACTCTCAATTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGCGACCCTCAATTTT
** * * * * * *
18640851 CTAACAGCTTACTGACCTACGTTCACAACTAAAACTTTT-TCGATCTGTTGATTTAAGATC-CTG
66 CTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTATGGTTCTATTGATTTAAGATCGC-G
* *
18640914 ACCCTCAATTTGCTAACTGCTC
130 ACCCTCAATTTTCTAACAGCTC
** * ** * * * *
18640936 ATTGACCTACGTTCACATTTGATATTTTTACCGTTTGCTAATTTAAGATTGCAACCCTCAATTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGCGACCCTCAATTTT
* * * *
18641001 TTAACAGCTCGTTGACCTACTACGTTCACAACTGATATTATTAAGGTT
66 CTAACAGCTCGCTGA-C--CTACGTTCACAACTGATATTTTTATGGTT
18641049 TGCTCAATTT
Statistics
Matches: 457, Mismatches: 96, Indels: 16
0.80 0.17 0.03
Matches are distributed among these distances:
149 3 0.01
150 428 0.94
151 5 0.01
153 19 0.04
154 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (151 bp):
GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGCGACCCTCAATTTT
CTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTATGGTTCTATTGATTTAAGATCGCGA
CCCTCAATTTTCTAACAGCTC
Found at i:18640740 original size:225 final size:223
Alignment explanation
Indices: 18640346--18641071 Score: 790
Period size: 225 Copynumber: 3.2 Consensus size: 223
18640336 GCTAACCTAT
* * * *
18640346 GTTCACAACTGATATTTTTATGGTTCGCTGATTTAAGATCGCGACCCTTAGTTTTCTATCATCTC
1 GTTCACAACTGATATTTTTATGGTTCGCTGATTTAAGATTGCGA-CCTCAGTTTTCTAACAGCTC
* * * * *
18640411 ACTGACCTACATTCATAGCTGATATTTTTTCGGTCTATTGATTTAAGATCGCGACCCTCAATTTT
65 ACTGACCTACGTTCACAACTGATATTTTTT-GGTCTGTTGATTTAAGATCGTGACCCTCAATTTT
* * * * *
18640476 CTAACAGCTCGCTAACCTATGTTCACAATTGATATTTTTACAATCTGCTAATTTAAGATCGTGAC
129 CTAATAGCTCGCTGACCTACGTTCACAATTGATATTTTTACAGTCTGCTAATTTAAGATTGTGAC
* *
18640541 CCTCAATTTTCTAACATCTCGCTGACTTAT
194 CCTCAATTTTCTAACAGCTCGCTGACTTAC
** * * *
18640571 GTTCACAACTGATATTTTTATGGTTCATTGATTTAAGATTGCAATCCTCGGCTTTCTAACAGCTC
1 GTTCACAACTGATATTTTTATGGTTCGCTGATTTAAGATTGCGA-CCTCAGTTTTCTAACAGCTC
* * * * *
18640636 GCTAACCTACGTTCACAACTGATATTTTTATGGTCTGCTGATTTAAGATCGTAACCCTCGATTTT
65 ACTGACCTACGTTCACAACTGATATTTTT-TGGTCTGTTGATTTAAGATCGTGACCCTCAATTTT
* * * * *
18640701 CTAATAGCTCGCTGACCTACATTCACAGTTGACATTTTTA-AGGTCCGCTGATTTAAGATTGTGA
129 CTAATAGCTCGCTGACCTACGTTCACAATTGATATTTTTACA-GTCTGCTAATTTAAGATTGTGA
* *
18640765 CCCTCGATTTTCTAACAGCTCGCTGACCTAC
193 CCCTCAATTTTCTAACAGCTCGCTGACTTAC
* * * * * * *
18640796 GTTCACAACTAATATTTTTACGGTCCGCTAATTTCAGATTGCGACTCTCAATTTTCTAACAGCTT
1 GTTCACAACTGATATTTTTATGGTTCGCTGATTTAAGATTGCGAC-CTCAGTTTTCTAACAGCTC
* * * * * *
18640861 ACTGACCTACGTTCACAACTAAAACTTTTTCGATCTGTTGATTTAAGATCCTGACCCTCAATTTG
65 ACTGACCTACGTTCACAACTGATA-TTTTTTGGTCTGTTGATTTAAGATCGTGACCCTCAATTTT
** * * * **
18640926 CTAACT-GCTCATTGACCTACGTTCACATTTGATATTTTTACCGTTTGCTAATTTAAGATTGCAA
129 CTAA-TAGCTCGCTGACCTACGTTCACAATTGATATTTTTACAGTCTGCTAATTTAAGATTGTGA
* *
18640990 CCCTCAATTTTTTAACAGCTCGTTGACCTACTAC
193 CCCTCAATTTTCTAACAGCTCGCTGA-CT--TAC
* * * * *
18641024 GTTCACAACTGATATTATTAAGGTTTGCTCAATTTAAGATTGTGACCT
1 GTTCACAACTGATATTTTTATGGTTCGCT-GATTTAAGATTGCGACCT
18641072 TCGATATTTT
Statistics
Matches: 412, Mismatches: 79, Indels: 17
0.81 0.16 0.03
Matches are distributed among these distances:
224 2 0.00
225 359 0.87
226 8 0.02
228 29 0.07
229 14 0.03
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (223 bp):
GTTCACAACTGATATTTTTATGGTTCGCTGATTTAAGATTGCGACCTCAGTTTTCTAACAGCTCA
CTGACCTACGTTCACAACTGATATTTTTTGGTCTGTTGATTTAAGATCGTGACCCTCAATTTTCT
AATAGCTCGCTGACCTACGTTCACAATTGATATTTTTACAGTCTGCTAATTTAAGATTGTGACCC
TCAATTTTCTAACAGCTCGCTGACTTAC
Found at i:18649296 original size:41 final size:41
Alignment explanation
Indices: 18649243--18649463 Score: 277
Period size: 41 Copynumber: 5.4 Consensus size: 41
18649233 TTCAAAATTA
* * * *
18649243 GGGCACATATGTGCAACTCAAGGGTATCGAAGTACAAACAA
1 GGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACAG
* *
18649284 GAGCACGTATGTGCAATTCAAGGGTACCGAAGCACAAACAG
1 GGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACAG
* *
18649325 GGGCACGTATGTGTAATTC-AGGAGTACCGAAGCACAAACAG
1 GGGCACGTATGTGCAATTCAAGG-GTACCGAAGTACAAACAG
* * **
18649366 GGGCACATATGTGCAATT-TAGAGGTAGTGAAGTACAAACAG
1 GGGCACGTATGTGCAATTCAAG-GGTACCGAAGTACAAACAG
*
18649407 GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
1 GGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACAG
*
18649448 GGGCACG-CTGTGCAAT
1 GGGCACGTATGTGCAAT
18649464 CATACTATAA
Statistics
Matches: 157, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 11 0.07
41 144 0.92
42 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (41 bp):
GGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACAG
Found at i:18649450 original size:20 final size:19
Alignment explanation
Indices: 18649394--18649454 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
18649384 TAGAGGTAGT
18649394 GAAGTACAAACAGGGGCAC
1 GAAGTACAAACAGGGGCAC
* * * *
18649413 GTATGTGCAATTCAGGGGTACC
1 G-AAGTACAA-ACAGGGGCA-C
18649435 GAAGTACAAACAGGGGCAC
1 GAAGTACAAACAGGGGCAC
18649454 G
1 G
18649455 CTGTGCAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
19 3 0.10
20 13 0.42
21 13 0.42
22 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.33, T:0.13
Consensus pattern (19 bp):
GAAGTACAAACAGGGGCAC
Found at i:18650266 original size:16 final size:15
Alignment explanation
Indices: 18650223--18650266 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
18650213 AGATGATATA
*
18650223 TTTATTTTACTTATT
1 TTTAATTTACTTATT
*
18650238 TTTACTTTAACTTATT
1 TTTAATTT-ACTTATT
18650254 TATTAATTTACTT
1 T-TTAATTTACTT
18650267 TAATAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 12 0.48
17 6 0.24
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTTACTTATT
Found at i:18652579 original size:23 final size:23
Alignment explanation
Indices: 18652541--18652591 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
18652531 TTCCTAGCTA
* *
18652541 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
18652564 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
18652587 AGTAA
1 TGTAA
18652592 GAAAGTGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:18668799 original size:20 final size:20
Alignment explanation
Indices: 18668774--18668812 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18668764 TACTTTTTTC
18668774 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18668794 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18668813 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18669143 original size:50 final size:49
Alignment explanation
Indices: 18669016--18669151 Score: 150
Period size: 49 Copynumber: 2.8 Consensus size: 49
18669006 GATAATAACA
* * *
18669016 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATAC
* * * *
18669065 TGTCAATGCCATATCCCAGATATGGTCTTATATGGGA-GTTCTCATAT-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATATAC
* *
18669113 GGTGCCCATGCCATGTCCTAGACATGGTCTTACATGGGA
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
18669152 CCTTTCATCT
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
48 4 0.06
49 36 0.51
50 31 0.44
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATAC
Found at i:18669165 original size:50 final size:50
Alignment explanation
Indices: 18669023--18669210 Score: 166
Period size: 50 Copynumber: 3.8 Consensus size: 50
18669013 ACATGCCAAA
** * * *
18669023 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--TGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAT-CGGTGACAAT
* * * * * *
18669072 GCCATATCCCAGATATGGTCTTATATGGGA-GTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATATCGGTGACAAT
* * * *
18669122 GCCATGTCCTAGACATGGTCTTACATGGGACCTTTCATCTCGGTGAAAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATCGGTGACAAT
* * * *
18669172 ACCATGTCCCAGACATGGTCTTTCGTGGGACCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATA
18669211 ACCTCAATAA
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 4 0.04
49 31 0.28
50 75 0.67
51 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATCGGTGACAAT
Found at i:18674639 original size:30 final size:30
Alignment explanation
Indices: 18674605--18674691 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
18674595 AGAATCAGTC
* *
18674605 TGGGCCTGAGCCCCATACAG-AAGCA-ATGTG
1 TGGGCCTTAGCCCAATACAGTAA-CAGA-GTG
18674635 TGGGCCTTAGCCCAATACAGTAACAGAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
*
18674665 TGGGCCTTAGCCCAATGCAGTAACAGA
1 TGGGCCTTAGCCCAATACAGTAACAGA
18674692 CAAATGCAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (30 bp):
TGGGCCTTAGCCCAATACAGTAACAGAGTG
Found at i:18674827 original size:26 final size:26
Alignment explanation
Indices: 18674798--18674899 Score: 123
Period size: 26 Copynumber: 3.9 Consensus size: 26
18674788 CACTAATATA
* *
18674798 GCAGCAAAGTTGCCAGCAATAGTAAT
1 GCAGCAAAGCTGCCAGCAACAGTAAT
*
18674824 GCAGCAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGCAACAGTAAT
* * *
18674850 GCAGCAAAGCTGCCAGTATCAGTAAC
1 GCAGCAAAGCTGCCAGCAACAGTAAT
* * *
18674876 GTAGCAAAGCTTCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGCAACAGTA
18674900 TTTGTGGCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGCAACAGTAAT
Found at i:18674882 original size:52 final size:52
Alignment explanation
Indices: 18674798--18674899 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
18674788 CACTAATATA
* *
18674798 GCAGCAAAGTTGCCAGCAATAGTAATGCAGCAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGCAATAGTAACGCAGCAAAGCTGCCAGTAACAGTAAT
* * *
18674850 GCAGCAAAGCTGCCAG-TATCAGTAACGTAGCAAAGCTTCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGCAAT-AGTAACGCAGCAAAGCTGCCAGTAACAGTA
18674900 TTTGTGGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.05
52 42 0.95
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (52 bp):
GCAGCAAAGCTGCCAGCAATAGTAACGCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:18674925 original size:52 final size:52
Alignment explanation
Indices: 18674826--18674925 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
18674816 ATAGTAATGC
**
18674826 AGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCTGCCAGTATCAGTAACGT
1 AGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCCACCAGTATCAGTAACGT
* * ** *
18674878 AGCAAAGCTTCCAGTAACAGTATTTGTGGCAAAGCCACTAGTA-CAGTA
1 AGCAAAGCTGCCAGTAACAGTA-ATGCAGCAAAGCCACCAGTATCAGTA
18674926 TACTTCCCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 26 0.65
53 14 0.35
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (52 bp):
AGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCCACCAGTATCAGTAACGT
Found at i:18675124 original size:27 final size:27
Alignment explanation
Indices: 18675065--18675381 Score: 347
Period size: 27 Copynumber: 11.7 Consensus size: 27
18675055 TCAATTCCTA
** *
18675065 AGGGTATAGCAGTCATTTTACCCTATGG
1 AGGGTATTTCAGTCATTTTACCCT-TCG
*
18675093 A-GGTATTTCAGTCAATTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * *
18675119 GGGGTATTTC-GATCATTTTTCCTTTC-
1 AGGGTATTTCAG-TCATTTTACCCTTCG
* *
18675145 AGGGGTATTTCGGTCATTTTACCCATCG
1 A-GGGTATTTCAGTCATTTTACCCTTCG
* *
18675173 AGGGTATTTCGGTCATTTTACCCATCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* **
18675200 AGGGTATTTTAGTCATTTTACCCTTTA
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
18675227 AGGGTATTTCAGTCATTTTACCCATCA
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * * *
18675254 AAGGTATTTCGGTCATTTTATCCATCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
18675281 AAGGTATTTCAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
18675308 AGGGTATTTCGGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
18675335 AGGGTCTTTC-GATCATTTTACCCTTCG
1 AGGGTATTTCAG-TCATTTTACCCTTCG
18675362 AGGGTATTTC-GATCATTTTA
1 AGGGTATTTCAG-TCATTTTA
18675382 GAGGCCCATT
Statistics
Matches: 252, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
26 4 0.02
27 245 0.97
28 3 0.01
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTTCG
Found at i:18676973 original size:38 final size:39
Alignment explanation
Indices: 18676911--18677025 Score: 144
Period size: 38 Copynumber: 3.0 Consensus size: 39
18676901 AAGTAAAAAA
*
18676911 AGGGGCATATATATGCATTTAGGGGTACCAAAGTACAAT
1 AGGGGCACATATATGCATTTAGGGGTACCAAAGTACAAT
* * * *
18676950 A-GGGTACATATATGCATTCAGGGGTACCGAAGTGCAAT
1 AGGGGCACATATATGCATTTAGGGGTACCAAAGTACAAT
* *
18676988 AGGGGCACA-ATTGTGCATTTACGGGTACCAAAGTACAA
1 AGGGGCACATA-TATGCATTTAGGGGTACCAAAGTACAA
18677026 ACATGAGCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 34 0.54
39 29 0.46
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (39 bp):
AGGGGCACATATATGCATTTAGGGGTACCAAAGTACAAT
Found at i:18676991 original size:19 final size:19
Alignment explanation
Indices: 18676930--18676992 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
18676920 TATATGCATT
*
18676930 TAGGGGTACCAAAGTACAA
1 TAGGGGTACCAAAGTGCAA
*
18676949 TA-GGGTA-CATATA-TGCAT
1 TAGGGGTACCA-A-AGTGCAA
*
18676967 TCAGGGGTACCGAAGTGCAA
1 T-AGGGGTACCAAAGTGCAA
18676987 TAGGGG
1 TAGGGG
18676993 CACAATTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
17 2 0.06
18 10 0.29
19 10 0.29
20 11 0.32
21 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (19 bp):
TAGGGGTACCAAAGTGCAA
Found at i:18681859 original size:6 final size:6
Alignment explanation
Indices: 18681850--18681882 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
18681840 CAAGTTTCCA
*
18681850 TTTCAT TTTCAT TTTCAT TTTCAT TTCCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
18681883 TGAAAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:18690032 original size:10 final size:10
Alignment explanation
Indices: 18690017--18690063 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18690007 TAACGTGTTG
18690017 AATTTTAATT
1 AATTTTAATT
*
18690027 AATTTTATAATA
1 AA-TTT-TAATT
*
18690039 AATTTTGATT
1 AATTTTAATT
18690049 AATTTTAA-T
1 AATTTTAATT
18690058 AATTTT
1 AATTTT
18690064 TAATAGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 7 0.23
10 12 0.39
11 6 0.19
12 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:18690042 original size:22 final size:20
Alignment explanation
Indices: 18690017--18690067 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
18690007 TAACGTGTTG
18690017 AATTTTAATTAATTTTATAATA
1 AATTTTAATTAA-TTT-TAATA
*
18690039 AATTTTGATTAATTTTAATA
1 AATTTTAATTAATTTTAATA
*
18690059 ATTTTTAAT
1 AATTTTAAT
18690068 AGATTCGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.46
21 3 0.12
22 11 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
AATTTTAATTAATTTTAATA
Found at i:18693836 original size:50 final size:50
Alignment explanation
Indices: 18693712--18693844 Score: 176
Period size: 50 Copynumber: 2.7 Consensus size: 50
18693702 AAATGTCATA
* * * *
18693712 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTACCAACGCCATG
** *
18693762 TCCCAGACATGGTCTTACGGGGGACTTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTACCAACGCCATG
* * *
18693812 TCCCAGACATAGTCTTACTTGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGGGACTTCTCATA
18693845 ACCTCAATAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTACCAACGCCATG
Found at i:18696869 original size:41 final size:41
Alignment explanation
Indices: 18696793--18696951 Score: 158
Period size: 41 Copynumber: 3.9 Consensus size: 41
18696783 CTTACCTTTA
* * * * *
18696793 GGGGCTTTAGCGGCG-TTTTCAAGAAAGCGCTGCTAATGCTC
1 GGGGTTTTAGCGGTGTTTTTGAA-AAAGCACCGCTAATGCTC
* * *
18696834 GGGGCTTTAGCGGTGTTTTTGAAAATGTACCGCTAATGCTC
1 GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
* ** * *
18696875 GGGGTTTTCGCGGCATTTTTGAAAAAGCGCCACTAATGCTC
1 GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
* * *
18696916 GGTGTTTTAGCGTTGTTTTTTAAAAAGCACCGCTAA
1 GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAA
18696952 AATTTTTTTT
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 89 0.94
42 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (41 bp):
GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
Found at i:18697320 original size:15 final size:15
Alignment explanation
Indices: 18697300--18697341 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
18697290 TATTTTAAGG
*
18697300 TTTAGGGAGTATGAA
1 TTTAGGGATTATGAA
*
18697315 TTTAGGGATTATGGA
1 TTTAGGGATTATGAA
18697330 -TTAGGGATTATG
1 TTTAGGGATTATG
18697342 GTTTAAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGAA
Found at i:18697335 original size:14 final size:15
Alignment explanation
Indices: 18697300--18697346 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
18697290 TATTTTAAGG
* *
18697300 TTTAGGGAGTATGAA
1 TTTAGGGATTATGGA
18697315 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
18697330 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
18697343 TTTA
1 TTTA
18697347 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:18697360 original size:14 final size:14
Alignment explanation
Indices: 18697341--18697397 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
18697331 TAGGGATTAT
18697341 GGTTTAAGGGTT-G
1 GGTTTAAGGGTTAG
*
18697354 GGATTTAAGGTTTAG
1 GG-TTTAAGGGTTAG
*
18697369 GGGTTAAGGGTTAGG
1 GGTTTAAGGGTTA-G
*
18697384 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
18697398 ACATTAAGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.06
14 19 0.53
15 15 0.42
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:18697367 original size:21 final size:20
Alignment explanation
Indices: 18697333--18697373 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
18697323 TTATGGATTA
*
18697333 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
18697353 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
18697374 AAGGGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:18697408 original size:22 final size:22
Alignment explanation
Indices: 18697358--18697409 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
18697348 GGGTTGGGAT
**
18697358 TTAA-GGTTTAGGGGTTAAGGG
1 TTAAGGGTTTAGGGGTTAAGCA
*
18697379 TTAGGGGTTTAGGGGTT-AGACA
1 TTAAGGGTTTAGGGGTTAAG-CA
18697401 TTAAGGGTT
1 TTAAGGGTT
18697410 AAGAGTTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.23, C:0.02, G:0.40, T:0.35
Consensus pattern (22 bp):
TTAAGGGTTTAGGGGTTAAGCA
Found at i:18697629 original size:14 final size:15
Alignment explanation
Indices: 18697603--18697640 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
18697593 GTTTAGGGAG
18697603 TATGGATTTAGAGAT
1 TATGGATTTAGAGAT
18697618 TATGGA-TTAGAGAT
1 TATGGATTTAGAGAT
18697632 TATGG-TTTA
1 TATGGATTTA
18697641 AGGGTTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGAGAT
Found at i:18697661 original size:21 final size:21
Alignment explanation
Indices: 18697627--18697704 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
18697617 TTATGGATTA
*
18697627 GAGA-TTATGGTTTAAGGGTT
1 GAGATTTAAGGTTTAAGGGTT
*
18697647 GAGATTTAAGGTTTAGGGGTT
1 GAGATTTAAGGTTTAAGGGTT
* * * *
18697668 -AGACGTTAGGGGTTAAGAGTT
1 GAGA-TTTAAGGTTTAAGGGTT
*
18697689 AGGGATTTAAGGTTTA
1 -GAGATTTAAGGTTTA
18697705 GGAATTCAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
20 7 0.16
21 26 0.60
22 8 0.19
23 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.36, T:0.36
Consensus pattern (21 bp):
GAGATTTAAGGTTTAAGGGTT
Found at i:18697676 original size:14 final size:14
Alignment explanation
Indices: 18697659--18697692 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18697649 GATTTAAGGT
18697659 TTAGGGGTT-AGACG
1 TTAGGGGTTAAGA-G
18697673 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
18697687 TTAGGG
1 TTAGGG
18697693 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.44, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:18697833 original size:294 final size:289
Alignment explanation
Indices: 18697236--18697804 Score: 780
Period size: 294 Copynumber: 2.0 Consensus size: 289
18697226 AGTTTAGGAT
* *
18697236 TTTTGGTTTAAGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGT
1 TTTTAGTTTAAGGTATATGATTAATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGT
* * *
18697301 TTAGGGAGTATGAATTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGGGATTTAAGGTT
66 TTAGGGAGTATGAATTTAGAGATTATGGATTAGAGATTATGGTTTAAGGGTTGAGATTTAAGGTT
* * * * *
18697366 TAGGGGTTAAGGGTTAGGGGTTTAGGGGTTAGACATTAAGGGTTAAGAGTTAGGGATTTAGGGGC
131 TAGGGGTTAAGCGTTAGGGGTTTAAGAGTTAGACATTAAGGGTT---A-TTAGGAATTCAGGGGC
18697431 CGGGTTAGGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATA
192 CGGGTTAGGGTTTTAGGTTTAGATTAA-TATTTTTTAATTTATATTTTAAATATGTTCTTATATA
** * * **
18697496 ATTGTAAAGGAGATAATAATAAATTTGTTTAGGG
256 ATTAAAAAAGAGATAATAATAAATTTATTTAAAG
* *
18697530 TTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGAG-CGGTTTAGGAGTT-CATATTTTAAG
1 TTTTAGTTTAAGGTATATGATTAATTTAAGATTTAAG-GCCAGTTTAGGAGTTAC-TATTTTAAG
*
18697593 GTTTAGGGAGTATGGATTTAGAGATTATGGATTAGAGATTATGGTTTAAGGGTTGAGATTTAAGG
64 GTTTAGGGAGTATGAATTTAGAGATTATGGATTAGAGATTATGGTTTAAGGGTTGAGATTTAAGG
**
18697658 TTTAGGGGTT-AGACGTTAGGGG-TTAAGAGTTAGGGATTTAA-GG-T-TTAGGAATTCA-GGGC
129 TTTAGGGGTTAAG-CGTTAGGGGTTTAAGAGTTAGACA-TTAAGGGTTATTAGGAATTCAGGGGC
*
18697717 TCGGGTTAGGGTTTTGGGTTTAGATT-A-ATTTTTTAATTTATATTTTAAATATGTTCTTATATA
192 -CGGGTTAGGGTTTTAGGTTTAGATTAATATTTTTTAATTTATATTTTAAATATGTTCTTATATA
18697780 ATTAAAAAAGAGATAATAATAAATT
256 ATTAAAAAAGAGATAATAATAAATT
18697805 AAATATATTG
Statistics
Matches: 251, Mismatches: 19, Indels: 20
0.87 0.07 0.07
Matches are distributed among these distances:
284 58 0.23
286 5 0.02
287 33 0.13
292 1 0.00
293 15 0.06
294 138 0.55
295 1 0.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (289 bp):
TTTTAGTTTAAGGTATATGATTAATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGT
TTAGGGAGTATGAATTTAGAGATTATGGATTAGAGATTATGGTTTAAGGGTTGAGATTTAAGGTT
TAGGGGTTAAGCGTTAGGGGTTTAAGAGTTAGACATTAAGGGTTATTAGGAATTCAGGGGCCGGG
TTAGGGTTTTAGGTTTAGATTAATATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAA
AAAAGAGATAATAATAAATTTATTTAAAG
Found at i:18699631 original size:20 final size:21
Alignment explanation
Indices: 18699603--18699641 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18699593 ATTTTAGCAG
*
18699603 TTTAAATATTA-GCCTATGAT
1 TTTAAATATCATGCCTATGAT
*
18699623 TTTACATATCATGCCTATG
1 TTTAAATATCATGCCTATG
18699642 GGTGTCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTAAATATCATGCCTATGAT
Found at i:18702136 original size:14 final size:13
Alignment explanation
Indices: 18702109--18702146 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
18702099 AGTTTCCAAA
18702109 TTTTCAAATTAAG
1 TTTTCAAATTAAG
18702122 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
18702136 TTTTCAAATTA
1 TTTTCAAATTA
18702147 CAAATATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:18709317 original size:34 final size:34
Alignment explanation
Indices: 18709274--18709484 Score: 244
Period size: 34 Copynumber: 6.1 Consensus size: 34
18709264 AAATAATACC
** * *
18709274 AGAAATGATGTATGAACAAGAGAGATTCCCTGCA
1 AGAAATGATGCGTGAACAGGAAAGATTCCCTGCA
* *
18709308 AGAAATGATGTGTGAACAGGAGAA-ATTTCCTGCA
1 AGAAATGATGCGTGAACAGGA-AAGATTCCCTGCA
* * * *
18709342 ACAAAATAATACGTGAACAGGAAAGATTCCTTGCA
1 A-GAAATGATGCGTGAACAGGAAAGATTCCCTGCA
*
18709377 AGAAATGATGCATGAACAGGAAAGATTCCCTGCA
1 AGAAATGATGCGTGAACAGGAAAGATTCCCTGCA
* *
18709411 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGCGTGAACAGGAAAGATTCCCTGCA
* * *
18709445 ACAAAATAATGCGTGAACAGGAAATATTCCCTGCA
1 A-GAAATGATGCGTGAACAGGAAAGATTCCCTGCA
18709480 AGAAA
1 AGAAA
18709485 AGACAAGTGA
Statistics
Matches: 149, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
34 94 0.63
35 55 0.37
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (34 bp):
AGAAATGATGCGTGAACAGGAAAGATTCCCTGCA
Found at i:18709377 original size:69 final size:68
Alignment explanation
Indices: 18709286--18709485 Score: 240
Period size: 69 Copynumber: 2.9 Consensus size: 68
18709276 AAATGATGTA
* * *
18709286 TGAACAAGAGAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAA-ATTTCCTGCAACAAAATA
1 TGAACAGGAGAGATTCCCTGCAAGAAATGATGCGTGAACAGGA-AAGATTCCCTGCAA-AAAATA
18709350 ATACG
64 ATACG
* * * * *
18709355 TGAACAGGAAAGATTCCTTGCAAGAAATGATGCATGAACAGGAAAGATTCCCTGCAAGAAATGAT
1 TGAACAGGAGAGATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAAAAAATAAT
**
18709420 GTG
66 ACG
* * *
18709423 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAA-GAAATGATGCGTGAACAGGAAAGATTCCCTGCAA-AAAA
18709486 GACAAGTGAA
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
68 30 0.27
69 78 0.70
70 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.20
Consensus pattern (68 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAAAAAATAAT
ACG
Found at i:18709443 original size:103 final size:103
Alignment explanation
Indices: 18709274--18709484 Score: 350
Period size: 103 Copynumber: 2.0 Consensus size: 103
18709264 AAATAATACC
* * *
18709274 AGAAATGATGTATGAACAAGAGAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTTCCT
1 AGAAATGATGCATGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
*
18709339 GCAACAAAATAATACGTGAACAGGAAAGATTCCTTGCA
66 GCAACAAAATAATACGTGAACAGGAAAGATTCCCTGCA
* *
18709377 AGAAATGATGCATGAACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAGATTCCCT
1 AGAAATGATGCATGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
* *
18709442 GCAACAAAATAATGCGTGAACAGGAAATATTCCCTGCA
66 GCAACAAAATAATACGTGAACAGGAAAGATTCCCTGCA
18709480 AGAAA
1 AGAAA
18709485 AGACAAGTGA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (103 bp):
AGAAATGATGCATGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
GCAACAAAATAATACGTGAACAGGAAAGATTCCCTGCA
Found at i:18709740 original size:13 final size:13
Alignment explanation
Indices: 18709722--18709759 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
18709712 AGTTTCCAAA
18709722 TTTTCAAATTAAG
1 TTTTCAAATTAAG
*
18709735 TTTTCAGACTTAAG
1 TTTTCA-AATTAAG
18709749 TTTTCAAATTA
1 TTTTCAAATTA
18709760 CATATATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:18712090 original size:44 final size:43
Alignment explanation
Indices: 18711884--18712112 Score: 271
Period size: 43 Copynumber: 5.3 Consensus size: 43
18711874 AAATGGTACT
* *** *
18711884 TTTAGCGGCGTTTGT-GATAAAAGCGTTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAAGGCCATGTTC
18711927 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGGCCATGTTC
* * *
18711970 TTTAGCGGTGTTTGTGGGTAAAGCACCGTTAAAGGCCATGTTT
1 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGGCCATGTTC
*
18712013 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGGCCATGTTC
* * * *** *
18712056 TTTAGCGACATTTTTTTATAAAAGCGCCGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAAGGCCATGTTC
* *
18712100 TATAGCAGCGTTT
1 TTTAGCGGCGTTT
18712113 TTTCAAATAA
Statistics
Matches: 160, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
43 127 0.79
44 33 0.21
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGGCCATGTTC
Done.