Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 32 of 203
Found at i:10689667 original size:35 final size:35
Alignment explanation
Indices: 10689625--10689691 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
10689615 CAAAATACGA
** * *
10689625 ATTTTTTTTTAAACAAGAAGATTTTTGAAACAAAT
1 ATTTTTTTAAAAACAAGAAAATTTTTAAAACAAAT
*
10689660 ATTTTTTTAAAAACATGAAAATTTTTAAAACA
1 ATTTTTTTAAAAACAAGAAAATTTTTAAAACA
10689692 CGAGAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (35 bp):
ATTTTTTTAAAAACAAGAAAATTTTTAAAACAAAT
Found at i:10689780 original size:18 final size:17
Alignment explanation
Indices: 10689664--10689956 Score: 102
Period size: 17 Copynumber: 16.5 Consensus size: 17
10689654 ACAAATATTT
* * *
10689664 TTTTAAAAACATGAAAA
1 TTTTGAAAACACGAGAA
*
10689681 TTTTTAAAACACGAGAA
1 TTTTGAAAACACGAGAA
10689698 TTTTG-AAACACGAGAA
1 TTTTGAAAACACGAGAA
***
10689714 TTTTTTTTGAAAACACGATTTT
1 ----TTTTGAAAACACGA-GAA
* *
10689736 TTTTG-AAACGC-AAAA
1 TTTTGAAAACACGAGAA
*
10689751 ATTTGTAAAACACGAGAA
1 TTTTG-AAAACACGAGAA
* *
10689769 TTGTTGAAAACACAAAAA
1 TT-TTGAAAACACGAGAA
10689787 TTTTTGAAAACACGA-AA
1 -TTTTGAAAACACGAGAA
*
10689804 GTTTTTAAAACACGAGAA
1 -TTTTGAAAACACGAGAA
*
10689822 TTTTTTTTTTGAAAACATGA-AA
1 ------TTTTGAAAACACGAGAA
* * *
10689844 ATTTG-AAACACTAGAGT
1 TTTTGAAAACACGAGA-A
*
10689861 TTTTGAAAACACGAAGAT
1 TTTTGAAAACACG-AGAA
* *
10689879 TTTTTAAATCACCG-GAA
1 TTTTGAAAACA-CGAGAA
* *
10689896 TTTTGGAAACGCG-GAAA
1 TTTTGAAAACACGAG-AA
10689913 TTTTTG-AAACATCGA-AA
1 -TTTTGAAAACA-CGAGAA
*
10689930 CTTTTGAAAACACGAAGAT
1 -TTTTGAAAACACG-AGAA
10689949 TTTTGAAA
1 TTTTGAAA
10689957 TGCGAAAATT
Statistics
Matches: 208, Mismatches: 39, Indels: 57
0.68 0.13 0.19
Matches are distributed among these distances:
15 10 0.05
16 20 0.10
17 71 0.34
18 69 0.33
19 11 0.05
20 5 0.02
21 8 0.04
22 2 0.01
23 12 0.06
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTGAAAACACGAGAA
Found at i:10689809 original size:71 final size:71
Alignment explanation
Indices: 10689677--10689809 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 71
10689667 TAAAAACATG
* ** **
10689677 AAAATTTTTAAAACACGAGAATTTTGAAACACGAGAATTTTTTTTGAAAACACGATTTTTTTTGA
1 AAAATTTGTAAAACACGAGAATTTTGAAACACGAGAATAATTTTTGAAAACACGAAGTTTTTTGA
10689742 AACGCA
66 AACGCA
10689748 AAAATTTGTAAAACACGAGAATTGTTGAAAACAC-A-AA-AATTTTTGAAAACACGAAAGTTTTT
1 AAAATTTGTAAAACACGAGAATT-TTG-AAACACGAGAATAATTTTTGAAAACACG-AAGTTTTT
10689810 AAAACACGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
70 14 0.26
71 30 0.56
72 4 0.07
73 6 0.11
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (71 bp):
AAAATTTGTAAAACACGAGAATTTTGAAACACGAGAATAATTTTTGAAAACACGAAGTTTTTTGA
AACGCA
Found at i:10689819 original size:53 final size:52
Alignment explanation
Indices: 10689677--10689823 Score: 138
Period size: 53 Copynumber: 2.8 Consensus size: 52
10689667 TAAAAACATG
* * *
10689677 AAAATTTTT-AAAACACGAGAA-TTTTGAAACACGAGAATTTTTTTTGAAAACACG
1 AAAATTTTTGAAAACACGA-AATTTTTAAAACACGAGAA---TTGTTGAAAACACA
*** * * *
10689731 ATTTTTTTTG-AAACGCAAAAATTTGTAAAACACGAGAATTGTTGAAAACACA
1 AAAATTTTTGAAAACAC-GAAATTTTTAAAACACGAGAATTGTTGAAAACACA
10689783 AAAATTTTTGAAAACACGAAAGTTTTTAAAACACGAGAATT
1 AAAATTTTTGAAAACACGAAA-TTTTTAAAACACGAGAATT
10689824 TTTTTTTTGA
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
52 22 0.30
53 23 0.32
54 13 0.18
55 15 0.21
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (52 bp):
AAAATTTTTGAAAACACGAAATTTTTAAAACACGAGAATTGTTGAAAACACA
Found at i:10689826 original size:17 final size:17
Alignment explanation
Indices: 10689663--10689826 Score: 116
Period size: 17 Copynumber: 9.3 Consensus size: 17
10689653 AACAAATATT
* *
10689663 TTTTTAAAAACATGAAAA
1 TTTTT-AAAACACGAGAA
10689681 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
*
10689698 -TTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
***
10689714 TTTTTTTTGAAAACACGATTT
1 ---TTTTT-AAAACACGAGAA
* * * *
10689735 TTTTTGAAACGCAAAAA
1 TTTTTAAAACACGAGAA
*
10689752 TTTGTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
10689769 TTGTTGAAAACACAAAAA
1 TT-TTTAAAACACGAGAA
10689787 TTTTTGAAAACACGA-AA
1 TTTTT-AAAACACGAGAA
10689804 GTTTTTAAAACACGAGAA
1 -TTTTTAAAACACGAGAA
10689822 TTTTT
1 TTTTT
10689827 TTTTTGAAAA
Statistics
Matches: 113, Mismatches: 24, Indels: 19
0.72 0.15 0.12
Matches are distributed among these distances:
16 15 0.13
17 48 0.42
18 38 0.34
20 4 0.04
21 8 0.07
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:10689836 original size:23 final size:22
Alignment explanation
Indices: 10689805--10689847 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
10689795 AACACGAAAG
*
10689805 TTTTTAAAACACGAGAATTTTT
1 TTTTTAAAACACGAAAATTTTT
*
10689827 TTTTTGAAAACATGAAAATTT
1 TTTTT-AAAACACGAAAATTT
10689848 GAAACACTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (22 bp):
TTTTTAAAACACGAAAATTTTT
Found at i:10689881 original size:17 final size:17
Alignment explanation
Indices: 10689663--10689956 Score: 140
Period size: 18 Copynumber: 16.5 Consensus size: 17
10689653 AACAAATATT
* *
10689663 TTTTTAAAAACATGAAAA
1 TTTTTGAAAACACG-AAA
10689681 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGA-AA
10689698 -TTTTG-AAACACGAGAA
1 TTTTTGAAAACACGA-AA
**
10689714 TTTTTTTTGAAAACACGATTT
1 ---TTTTTGAAAACACGA-AA
*
10689735 TTTTTG-AAACGC-AAA
1 TTTTTGAAAACACGAAA
**
10689750 AATTTGTAAAACACGAGAA
1 TTTTTG-AAAACACGA-AA
* *
10689769 TTGTTGAAAACACAAAAA
1 TTTTTGAAAACAC-GAAA
10689787 TTTTTGAAAACACGAAA
1 TTTTTGAAAACACGAAA
10689804 GTTTTT-AAAACACGAGAA
1 -TTTTTGAAAACACGA-AA
*
10689822 TTTTTTTTTTGAAAACATGAAA
1 -----TTTTTGAAAACACGAAA
* * *
10689844 -ATTTG-AAACACTAGAG
1 TTTTTGAAAACACGA-AA
10689860 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
* * *
10689878 TTTTTTAAATCACCGGAA
1 TTTTTGAAAACA-CGAAA
* *
10689896 -TTTTGGAAACGCGGAAA
1 TTTTTGAAAACAC-GAAA
10689913 TTTTTG-AAACATCGAAA
1 TTTTTGAAAACA-CGAAA
*
10689930 CTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
10689948 TTTTTGAAA
1 TTTTTGAAA
10689957 TGCGAAAATT
Statistics
Matches: 211, Mismatches: 36, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
15 10 0.05
16 23 0.11
17 63 0.30
18 78 0.37
19 9 0.04
20 5 0.02
21 8 0.04
22 7 0.03
23 8 0.04
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:10689986 original size:20 final size:21
Alignment explanation
Indices: 10689961--10690001 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
10689951 TTGAAATGCG
*
10689961 AAAATTTTGAA-ACATGAAAA
1 AAAATTTTGAAGACAAGAAAA
10689981 AAAATTTTGAAGACAAGAAAA
1 AAAATTTTGAAGACAAGAAAA
10690002 TTTCGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (21 bp):
AAAATTTTGAAGACAAGAAAA
Found at i:10690831 original size:6 final size:6
Alignment explanation
Indices: 10690817--10690880 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
10690807 CCGACTGTGA
*
10690817 TTTTT- TTTTTC TTTTTTC TTTCTC TTTTTC TTCTTTC TTTTTC TTCTTTC
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TT-TTTC
* *
10690867 TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TT
10690881 CTTTGGGCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.10
6 29 0.56
7 18 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:10690842 original size:13 final size:14
Alignment explanation
Indices: 10690826--10690880 Score: 69
Period size: 13 Copynumber: 3.9 Consensus size: 14
10690816 ATTTTTTTTT
10690826 TCTTTT-TTCTTTC
1 TCTTTTCTTCTTTC
10690839 TCTTTTTCTTCTTTC
1 TC-TTTTCTTCTTTC
10690854 T-TTTTCTTCTTTC
1 TCTTTTCTTCTTTC
10690867 TTCTTCTTCTTCTT
1 -TCTT-TTCTTCTT
10690881 CTTTGGGCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 14 0.38
14 5 0.14
15 10 0.27
16 8 0.22
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTCTTTC
Found at i:10690846 original size:19 final size:19
Alignment explanation
Indices: 10690822--10690871 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
10690812 TGTGATTTTT
*
10690822 TTTTTCTTTTTTCTTTCTC
1 TTTTTCTTCTTTCTTTCTC
*
10690841 TTTTTCTTCTTTCTTTTTC
1 TTTTTCTTCTTTCTTTCTC
10690860 TTCTTTCTTCTT
1 TT-TTTCTTCTT
10690872 CTTCTTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTTCTTTCTTTCTC
Found at i:10690863 original size:3 final size:3
Alignment explanation
Indices: 10690839--10690883 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
10690829 TTTTTCTTTC
* *
10690839 TCT TTT TCT TCTT TCT TTT TCT TCTT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TC-T TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT T
10690884 TGGGCCGAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TCT
Found at i:10691500 original size:30 final size:30
Alignment explanation
Indices: 10691435--10691550 Score: 99
Period size: 30 Copynumber: 3.9 Consensus size: 30
10691425 ATTTCTAGGG
*
10691435 TAAAAGTGTAATTTTAGGAAAATAT-GGGGC
1 TAAAA-TGTAATTTTAGGAAAATTTAGGGGC
* * *
10691465 CAAAATGTAATTTTTGGAAAGTTTAGGGGC
1 TAAAATGTAATTTTAGGAAAATTTAGGGGC
* * * * *
10691495 TAAAATATAAATATAGGAAATTTTAGGGTC
1 TAAAATGTAATTTTAGGAAAATTTAGGGGC
** * *
10691525 TAAAATGCGATTTAAAGAAAATTTAG
1 TAAAATGTAATTTTAGGAAAATTTAG
10691551 TGGTCCGTGT
Statistics
Matches: 66, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
29 16 0.24
30 50 0.76
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (30 bp):
TAAAATGTAATTTTAGGAAAATTTAGGGGC
Found at i:10691789 original size:10 final size:10
Alignment explanation
Indices: 10691776--10691811 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
10691766 TTAAATATAT
*
10691776 ATAAAATAAA
1 ATAAAACAAA
10691786 ATAAAACAAA
1 ATAAAACAAA
*
10691796 ACAAAACAAA
1 ATAAAACAAA
10691806 ATAAAA
1 ATAAAA
10691812 ACACGAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (10 bp):
ATAAAACAAA
Found at i:10694263 original size:16 final size:16
Alignment explanation
Indices: 10694238--10694274 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10694228 AATCAAATAC
*
10694238 AATTATATTATATAAA
1 AATTACATTATATAAA
10694254 AATTACATTATATAAA
1 AATTACATTATATAAA
10694270 AATTA
1 AATTA
10694275 AATGAGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTACATTATATAAA
Found at i:10694591 original size:56 final size:56
Alignment explanation
Indices: 10694526--10694696 Score: 244
Period size: 56 Copynumber: 3.1 Consensus size: 56
10694516 ATTTTATTTA
*
10694526 AAAAAAATATTTTTTAATATAAAAAATTGATTTGCGCCTGTCAGATAGGTGCGATT
1 AAAAAAATATTTTTTAATATAAAAAATTGATTTGCGCCTGTCAGATAGGCGCGATT
* * *
10694582 AAAAAAATATTTTTTAATATAAAAAATTGATTCGCGTCTGTCAGATAGGCGCGACT
1 AAAAAAATATTTTTTAATATAAAAAATTGATTTGCGCCTGTCAGATAGGCGCGATT
* *
10694638 ---AAAATTTTTTTTAATATAAAAAATTGA-TTG-GCCTGTCAGATAGGCACGATT
1 AAAAAAATATTTTTTAATATAAAAAATTGATTTGCGCCTGTCAGATAGGCGCGATT
10694689 ACAAAAAA
1 A-AAAAAA
10694697 ACATACTATT
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
51 18 0.18
52 2 0.02
53 26 0.25
55 4 0.04
56 52 0.51
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (56 bp):
AAAAAAATATTTTTTAATATAAAAAATTGATTTGCGCCTGTCAGATAGGCGCGATT
Found at i:10695384 original size:61 final size:59
Alignment explanation
Indices: 10695253--10695385 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 59
10695243 CTTACAAATT
* * *
10695253 TAAATTACTAATAAATTAATTTTAAAATATTAAAAAACAAAAAAAATTTATAACATAATCC
1 TAAAATACTAACAAATTAATTTTAAAATATTAAAAAACAAAAAAAA--TATAACATAATAC
* * *
10695314 TAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAGCAAAAAAAA-ATTACATTCATAC
1 TAAAATACTAACAAATTAATTTTAAAAT-ATTA-AAAAA-CAAAAAAAATATAACA-TAATAC
10695376 -AAAATACTAA
1 TAAAATACTAA
10695386 TCCAAAACTA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
61 41 0.65
62 8 0.13
63 5 0.08
64 9 0.14
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.31
Consensus pattern (59 bp):
TAAAATACTAACAAATTAATTTTAAAATATTAAAAAACAAAAAAAATATAACATAATAC
Found at i:10696444 original size:32 final size:33
Alignment explanation
Indices: 10696408--10696471 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
10696398 TAAAATGGGG
* *
10696408 TTTTAGATTCCTTAAAAATTGG-AGAAAAATTC
1 TTTTAGATCCCTTAAAAATTGGTAAAAAAATTC
* *
10696440 TTTTAGGTCCCTTAAAAGTTGGTAAAAAAATT
1 TTTTAGATCCCTTAAAAATTGGTAAAAAAATT
10696472 TGAACCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (33 bp):
TTTTAGATCCCTTAAAAATTGGTAAAAAAATTC
Found at i:10696480 original size:28 final size:29
Alignment explanation
Indices: 10696448--10696522 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
10696438 TCTTTTAGGT
10696448 CCCTTAAAAGTTGGTAAAAAAA-TTTGA-A
1 CCCTTAAAAGTT-GTAAAAAAATTTTGAGA
* ** *
10696476 CCCTTAAAAGCTAAAAAAAAATTTTGAGG
1 CCCTTAAAAGTTGTAAAAAAATTTTGAGA
10696505 CCCTTAAAAGTTAGTAAA
1 CCCTTAAAAGTT-GTAAA
10696523 TTTTTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 7 0.19
28 16 0.43
29 11 0.30
30 3 0.08
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (29 bp):
CCCTTAAAAGTTGTAAAAAAATTTTGAGA
Found at i:10699063 original size:21 final size:21
Alignment explanation
Indices: 10699033--10699073 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10699023 AAGCAGAGAT
*
10699033 GGTGGTGGAAGGGGTGGAAAC
1 GGTGGCGGAAGGGGTGGAAAC
*
10699054 GGTGGCGGAAGTGGTGGAAA
1 GGTGGCGGAAGGGGTGGAAA
10699074 AGGTAGCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.56, T:0.15
Consensus pattern (21 bp):
GGTGGCGGAAGGGGTGGAAAC
Found at i:10702701 original size:42 final size:42
Alignment explanation
Indices: 10702648--10702921 Score: 379
Period size: 42 Copynumber: 6.5 Consensus size: 42
10702638 AGCCCCACAA
* * *
10702648 TTAAACCCACCTCAATTAGGATTTATCTTTGTAGTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
* *
10702690 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
* *
10702732 TTAATCCTACCTCAATTAGGATTTATGTTTCTAGTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
* *
10702774 TTAATCTCACGTCAATTAGGATTTATGTTTTTAGTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
* ** *
10702816 TTAATCTCAGGTCAAATAGGATTTATGTTTTTAGTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
* * * *
10702858 TTAATCCTACATCAATTAAGATTTATGTTTTTACTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
10702900 TTAATCCCTA-CTCAATTAGGAT
1 TTAATCCC-ACCTCAATTAGGAT
10702922 ACTTCTGTTC
Statistics
Matches: 208, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 207 1.00
43 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (42 bp):
TTAATCCCACCTCAATTAGGATTTATGTTTTTAGTTTTTCAT
Found at i:10708497 original size:8 final size:9
Alignment explanation
Indices: 10708423--10708499 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 9
10708413 TCTTTAAAAA
*
10708423 TAAAATTAT
1 TAAAAATAT
10708432 TAAAAATAT
1 TAAAAATAT
*
10708441 ATAAAAATGT
1 -TAAAAATAT
*
10708451 TAAAAGACAATT
1 TAAAA-A-TA-T
10708463 ATAAAAATAT
1 -TAAAAATAT
*
10708473 TCAAATATTAT
1 T-AAA-AATAT
10708484 TAAAAATAT
1 TAAAAATAT
10708493 TAAAAAT
1 TAAAAAT
10708500 CAATAAATGG
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 25 0.46
10 16 0.30
11 6 0.11
12 2 0.04
13 5 0.09
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATAT
Found at i:10708506 original size:19 final size:19
Alignment explanation
Indices: 10708421--10708506 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 19
10708411 AATCTTTAAA
*
10708421 AATAAAATTATTAAAAAT-
1 AATAAAAATATTAAAAATC
*
10708439 ATATAAAAATGTTAAAAGA-C
1 A-ATAAAAATATTAAAA-ATC
* *
10708459 AATTATAAAAATATTCAAATATT
1 -A--ATAAAAATATT-AAAAATC
*
10708482 ATTAAAAATATTAAAAATC
1 AATAAAAATATTAAAAATC
10708501 AATAAA
1 AATAAA
10708507 TGGCAAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
18 1 0.02
19 23 0.44
20 11 0.21
21 1 0.02
22 13 0.25
23 3 0.06
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (19 bp):
AATAAAAATATTAAAAATC
Found at i:10710027 original size:6 final size:6
Alignment explanation
Indices: 10710016--10710043 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10710006 AATTTTTTTT
10710016 AAATTC AAATTC AAATTC AAATTC AAAT
1 AAATTC AAATTC AAATTC AAATTC AAAT
10710044 AATTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTC
Found at i:10714457 original size:23 final size:23
Alignment explanation
Indices: 10714427--10714470 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10714417 TGAGTCGTTT
*
10714427 AAAATAAAAGTCAACGACCAATC
1 AAAATAAAAGTCAAAGACCAATC
*
10714450 AAAATAAAAGTGAAAGACCAA
1 AAAATAAAAGTCAAAGACCAA
10714471 ATCCAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.16, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAATAAAAGTCAAAGACCAATC
Found at i:10720282 original size:30 final size:30
Alignment explanation
Indices: 10720237--10720294 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10720227 AATTTTTATA
*
10720237 TTTTTATAAAATTTAA-AGTTTTTCTATACG
1 TTTTCATAAAATTTAATA-TTTTTCTATACG
*
10720267 TTTTCATAAATTTTAATATTTTTCTATA
1 TTTTCATAAAATTTAATATTTTTCTATA
10720295 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTTCATAAAATTTAATATTTTTCTATACG
Found at i:10725003 original size:18 final size:17
Alignment explanation
Indices: 10724980--10725034 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
10724970 GTTTGGCAAA
10724980 TAATTTAAAAATTTGTAT
1 TAATTTAAAAATTT-TAT
**
10724998 TAATTTAGTAATTTTACT
1 TAATTTAAAAATTTTA-T
* *
10725016 AAATTTAAAATTTTTAT
1 TAATTTAAAAATTTTAT
10725033 TA
1 TA
10725035 CTGGGATAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TAATTTAAAAATTTTAT
Found at i:10731069 original size:15 final size:15
Alignment explanation
Indices: 10731049--10731096 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
10731039 TTTATGGAAA
10731049 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
10731064 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
10731078 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
10731094 ATC
1 ATC
10731097 GAGATATTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:10731077 original size:30 final size:31
Alignment explanation
Indices: 10731043--10731106 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
10731033 TCCATATTTA
10731043 TGGAAAATCAAAGATATGGGTATC-AAATAT
1 TGGAAAATCAAAGATATGGGTATCGAAATAT
* *
10731073 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATCGAAATAT
10731104 TGG
1 TGG
10731107 CATAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (31 bp):
TGGAAAATCAAAGATATGGGTATCGAAATAT
Found at i:10737195 original size:30 final size:31
Alignment explanation
Indices: 10737159--10737220 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
10737149 NNNNNNNNNN
10737159 GAAAGTCAAAGATATGGGTATC-AAATATTG
1 GAAAGTCAAAGATATGGGTATCGAAATATTG
*
10737189 GAAAGTCAAAGATATGGGTATCGAGATATTG
1 GAAAGTCAAAGATATGGGTATCGAAATATTG
10737220 G
1 G
10737221 CATAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.26
Consensus pattern (31 bp):
GAAAGTCAAAGATATGGGTATCGAAATATTG
Found at i:10738840 original size:16 final size:17
Alignment explanation
Indices: 10738819--10738855 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
10738809 TTTTCAAAAG
10738819 TAATTTTTATT-TTTTA
1 TAATTTTTATTATTTTA
10738835 TAATTTTTATTATTTTA
1 TAATTTTTATTATTTTA
10738852 TAAT
1 TAAT
10738856 ATCTCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTTTTATTATTTTA
Found at i:10739010 original size:31 final size:30
Alignment explanation
Indices: 10738975--10739100 Score: 82
Period size: 31 Copynumber: 4.2 Consensus size: 30
10738965 TTGGTATCTG
10738975 AACTTGACAATTTTTCTTAATTTGATACCTA
1 AACTTGAC-ATTTTTCTTAATTTGATACCTA
* * *
10739006 AACTT----TTTTTGGTCCAATTTGGTA-CTCA
1 AACTTGACATTTTT-CT-TAATTTGATACCT-A
* *
10739034 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTGACA-TTTTTCTTAATTTGATACCTA
* * * *
10739065 GACTTGACATTTTTTTTAAAGTTGATACTTA
1 AACTTGACATTTTTCTT-AATTTGATACCTA
10739096 AACTT
1 AACTT
10739101 TTTGAGGTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
26 5 0.07
27 3 0.04
28 14 0.19
30 6 0.08
31 37 0.51
32 2 0.03
33 5 0.07
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (30 bp):
AACTTGACATTTTTCTTAATTTGATACCTA
Found at i:10739128 original size:90 final size:88
Alignment explanation
Indices: 10738963--10739136 Score: 226
Period size: 90 Copynumber: 2.0 Consensus size: 88
10738953 TTAATATAAT
* * **
10738963 ATTTGGTATCTGAACTTGACAATTTTTCTTAATTTGATACCTAAACTTTTTTTGGTCCAATTTGG
1 ATTTGGTACCTGAACTTGACAATTTTTCTTAAGTTGATACCTAAACTTTTTGAGGTCCAATTTGG
10739028 TACTCAAACTTGACACTTTTTCCTA
66 TACTCAAACTT-A-ACTTTTTCCTA
* *
10739053 ATTTGGTACCT-AGACTTGAC-ATTTTTTTTAAAGTTGATACTTAAACTTTTTGAGGTCCAATTT
1 ATTTGGTACCTGA-ACTTGACAATTTTTCTT-AAGTTGATACCTAAACTTTTTGAGGTCCAATTT
**
10739116 GGTACTTGAACTTAACTTTTT
64 GGTACTCAAACTTAACTTTTT
10739137 TTTCTACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
88 7 0.09
89 10 0.14
90 57 0.77
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (88 bp):
ATTTGGTACCTGAACTTGACAATTTTTCTTAAGTTGATACCTAAACTTTTTGAGGTCCAATTTGG
TACTCAAACTTAACTTTTTCCTA
Found at i:10756305 original size:15 final size:15
Alignment explanation
Indices: 10756285--10756315 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10756275 AGTTACCCAG
10756285 GCAAGGATCCTTTAA
1 GCAAGGATCCTTTAA
10756300 GCAAGGATCCTTTAA
1 GCAAGGATCCTTTAA
10756315 G
1 G
10756316 AGATCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (15 bp):
GCAAGGATCCTTTAA
Found at i:10757053 original size:6 final size:6
Alignment explanation
Indices: 10757038--10757086 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
10757028 AAGCAATGGG
* *
10757038 ATTCCA ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT ATTCCC ATTCCT
1 ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT
10757086 A
1 A
10757087 ACCAAGAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTCCT
Found at i:10767348 original size:39 final size:37
Alignment explanation
Indices: 10767262--10767348 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 37
10767252 TTAGATACAT
* *
10767262 ATATTTTTAT-ATTTATAATTTCTTTTATATTTTAAG
1 ATATTTTTATAATTTATAATTTATTTTAAATTTTAAG
* *
10767298 AAATTTATATAATTTATATATATTATTTTAAATTTTTAA-
1 ATATTTTTATAATTTATA-AT-TTATTTTAAA-TTTTAAG
10767337 ATATTTTTATAA
1 ATATTTTTATAA
10767349 AAAAATTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
36 8 0.20
37 7 0.17
38 2 0.05
39 18 0.44
40 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (37 bp):
ATATTTTTATAATTTATAATTTATTTTAAATTTTAAG
Found at i:10767349 original size:20 final size:21
Alignment explanation
Indices: 10767300--10767349 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
10767290 ATTTTAAGAA
*
10767300 ATTTATATAATTTATATATATT
1 ATTTATA-AATTTATAAATATT
*
10767322 ATTT-TAAATTTTTAAATATT
1 ATTTATAAATTTATAAATATT
10767342 -TTTATAAA
1 ATTTATAAA
10767350 AAAATTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 16 0.64
21 2 0.08
22 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTATAAATTTATAAATATT
Found at i:10771009 original size:81 final size:81
Alignment explanation
Indices: 10770874--10771063 Score: 380
Period size: 81 Copynumber: 2.3 Consensus size: 81
10770864 TACAAGAATA
10770874 TGTATAACAGCTTCGACTAACAGCTACTATTAACTCCTTAGCAGACTATAATGGATAGCAAATAG
1 TGTATAACAGCTTCGACTAACAGCTACTATTAACTCCTTAGCAGACTATAATGGATAGCAAATAG
10770939 TTACAATTGAACCAAT
66 TTACAATTGAACCAAT
10770955 TGTATAACAGCTTCGACTAACAGCTACTATTAACTCCTTAGCAGACTATAATGGATAGCAAATAG
1 TGTATAACAGCTTCGACTAACAGCTACTATTAACTCCTTAGCAGACTATAATGGATAGCAAATAG
10771020 TTACAATTGAACCAAT
66 TTACAATTGAACCAAT
10771036 TGTATAACAGCTTCGACTAACAGCTACT
1 TGTATAACAGCTTCGACTAACAGCTACT
10771064 CTTGACTAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (81 bp):
TGTATAACAGCTTCGACTAACAGCTACTATTAACTCCTTAGCAGACTATAATGGATAGCAAATAG
TTACAATTGAACCAAT
Found at i:10775411 original size:9 final size:9
Alignment explanation
Indices: 10775397--10775428 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10775387 GTAGTGATTC
10775397 AATTCGGTT
1 AATTCGGTT
*
10775406 AATTCGGGT
1 AATTCGGTT
10775415 AATTCGGTT
1 AATTCGGTT
10775424 AATTC
1 AATTC
10775429 TTAACCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10783429 original size:4 final size:4
Alignment explanation
Indices: 10783420--10783510 Score: 55
Period size: 4 Copynumber: 22.8 Consensus size: 4
10783410 AATTAAGTCC
* *
10783420 TTTA TTTA TTTTAA TTCT- TTTA TTTA TTTA TTTA TTTA CTTA TTTA CTTA
1 TTTA TTTA -TTT-A TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
10783470 TCTA -TTA -TTA CTTA TTTT TTTAA TTTA -TAA TTTT TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTT
10783511 TCTTTTTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
3 8 0.12
4 49 0.73
5 8 0.12
6 2 0.03
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:10784583 original size:14 final size:14
Alignment explanation
Indices: 10784552--10784613 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
10784542 GAAAATGTAT
*
10784552 TAATTTAATGTTT-T
1 TAATTTAAT-TTTAA
10784566 TAATTTAATTTTAA
1 TAATTTAATTTTAA
10784580 TAATGTATAA-TTTAA
1 TAAT-T-TAATTTTAA
*
10784595 -AATTTTATTTTAA
1 TAATTTAATTTTAA
10784608 -AATTTA
1 TAATTTA
10784614 TCAAATTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 2 0.05
13 14 0.34
14 16 0.39
15 6 0.15
16 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TAATTTAATTTTAA
Found at i:10787116 original size:40 final size:42
Alignment explanation
Indices: 10787021--10787116 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 42
10787011 ATTTTTCCCT
*
10787021 AAATCGCGTCCACGTCAGCGCGATGTCAGGGGACCTGGCAAA
1 AAATCGCGTCCACGTCAGCGCGATGTCAGCGGACCTGGCAAA
* * * * * *
10787063 AAATCGCGGCCACGTCAGCGCGCT-T-TGCTGACGTGGCAAC
1 AAATCGCGTCCACGTCAGCGCGATGTCAGCGGACCTGGCAAA
10787103 AAATCGCGTCCACG
1 AAATCGCGTCCACG
10787117 AAAGCACGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 23 0.50
41 1 0.02
42 22 0.48
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.16
Consensus pattern (42 bp):
AAATCGCGTCCACGTCAGCGCGATGTCAGCGGACCTGGCAAA
Found at i:10794129 original size:88 final size:88
Alignment explanation
Indices: 10793959--10795162 Score: 1920
Period size: 88 Copynumber: 13.7 Consensus size: 88
10793949 ACCGCTTAGG
* * * * * ** * *
10793959 GAGGCAAGGCTTGTATCTTCGATCTGCTTCGTTGTCAATGCAAGAAGGCAAGATCTGCTATCTTT
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
* *
10794024 GACCAGCTTCA-CTACAACCGAGA
66 AACCAGCTCCATC-ACAACCGAGA
* * * *
10794047 GAGGTAAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTATTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
10794112 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
** * *
10794135 GAGGCAAGGTTTGCCTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCTGTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
10794200 AACCAGCTCCACCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
*
10794223 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGC-A-ATCTTTTATCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
10794286 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* *
10794309 GAGGCAAGGTTTGCGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGC-A-ATCTTTTATCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
10794372 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
*
10794395 GAGGCAAGGTTTGCGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
* *
10794460 AACCAGCTCC-GCTACAACTGAGA
66 AACCAGCTCCATC-ACAACCGAGA
* * *
10794483 GAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAAATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
10794548 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
10794571 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
10794636 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* * * *
10794659 GAGGTAAGGTTTAG-GTCTTCGACCTGCTTCGCTGTTAATGCAGGAAGACAAGATCTTTTATCTT
1 GAGGCAAGGTTT-GTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTT
*
10794723 CAACCAACTCCATCACAACCGAGA
65 CAACCAGCTCCATCACAACCGAGA
* *
10794747 GAGGCAAGGTTTGTGTCTTCGACCTGCTTTGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
* *
10794812 AACCAGCTCC-GCTACAACTGAGA
66 AACCAGCTCCATC-ACAACCGAGA
*
10794835 GAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
10794900 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
*
10794923 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
10794988 AACCAGCTCCATCACAACTGAGA
66 AACCAGCTCCATCACAACCGAGA
*
10795011 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
10795076 AACCAGCTCCATCACAACTGAGA
66 AACCAGCTCCATCACAACCGAGA
*
10795099 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTT
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTT
10795163 TGATCTGCTT
Statistics
Matches: 1044, Mismatches: 63, Indels: 18
0.93 0.06 0.02
Matches are distributed among these distances:
86 167 0.16
87 5 0.00
88 868 0.83
89 4 0.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
AACCAGCTCCATCACAACCGAGA
Found at i:10794315 original size:42 final size:42
Alignment explanation
Indices: 10794268--10794401 Score: 121
Period size: 43 Copynumber: 3.1 Consensus size: 42
10794258 CAATGCAGGA
10794268 AGGCAATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
** ** * * ** *
10794310 AGGCAAGGTTTGCGTCTTCGACCTGCTTCGC-TGTCAA-TGCAG-G
1 AGGCAATCTTT-TATCTTCAACCAGC-TC-CATCACAACCG-AGAG
10794353 AAGGCAATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
1 -AGGCAATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
10794396 AGGCAA
1 AGGCAA
10794402 GGTTTGCGTC
Statistics
Matches: 66, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
41 1 0.02
42 23 0.35
43 24 0.36
44 17 0.26
45 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (42 bp):
AGGCAATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
Found at i:10796284 original size:21 final size:21
Alignment explanation
Indices: 10796258--10796304 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10796248 GGTATAGCAG
10796258 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
10796279 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
10796300 GATCA
1 GATCA
10796305 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:10796409 original size:8 final size:8
Alignment explanation
Indices: 10796398--10796450 Score: 106
Period size: 8 Copynumber: 6.6 Consensus size: 8
10796388 CCATTTTTAC
10796398 TTTTTCAT
1 TTTTTCAT
10796406 TTTTTCAT
1 TTTTTCAT
10796414 TTTTTCAT
1 TTTTTCAT
10796422 TTTTTCAT
1 TTTTTCAT
10796430 TTTTTCAT
1 TTTTTCAT
10796438 TTTTTCAT
1 TTTTTCAT
10796446 TTTTT
1 TTTTT
10796451 TTGACTCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:10797315 original size:8 final size:8
Alignment explanation
Indices: 10797292--10797334 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
10797282 TATTTTTGAC
10797292 TTTGATTT
1 TTTGATTT
*
10797300 TTT-TTTT
1 TTTGATTT
10797307 TTTGATTT
1 TTTGATTT
10797315 TTTGATTTT
1 TTTGA-TTT
10797324 TTTGATTT
1 TTTGATTT
10797332 TTT
1 TTT
10797335 TTGAGTCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 6 0.19
8 17 0.55
9 8 0.26
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (8 bp):
TTTGATTT
Found at i:10797315 original size:9 final size:9
Alignment explanation
Indices: 10797292--10797335 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
10797282 TATTTTTGAC
10797292 TTTGA-TTT
1 TTTGATTTT
10797300 TTT--TTTT
1 TTTGATTTT
10797307 TTTGA-TTT
1 TTTGATTTT
10797315 TTTGATTTT
1 TTTGATTTT
10797324 TTTGATTTT
1 TTTGATTTT
10797333 TTT
1 TTT
10797336 TGAGTCTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 6 0.19
8 11 0.34
9 15 0.47
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (9 bp):
TTTGATTTT
Found at i:10800873 original size:11 final size:12
Alignment explanation
Indices: 10800844--10800873 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10800834 ATACACGTAT
10800844 ATGTATATAAAA
1 ATGTATATAAAA
10800856 ATGTATATAAAA
1 ATGTATATAAAA
10800868 AT-TATA
1 ATGTATA
10800874 AAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
ATGTATATAAAA
Found at i:10800907 original size:10 final size:10
Alignment explanation
Indices: 10800894--10800923 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10800884 TATATATAAG
10800894 TATGTATATA
1 TATGTATATA
10800904 TATGTATATA
1 TATGTATATA
*
10800914 TATATATATA
1 TATGTATATA
10800924 AAAATTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
TATGTATATA
Found at i:10800918 original size:67 final size:68
Alignment explanation
Indices: 10800788--10800919 Score: 176
Period size: 67 Copynumber: 2.0 Consensus size: 68
10800778 GAATGTATAT
* * * * * *
10800788 ATGTATTTCAAAATTATTAAATATAAAAGTTTATGTAAGTATGGATATACACGTATATGTATATA
1 ATGTATATAAAAATTATAAAATATAAAAGTATATATAAGTATGGATATACACGTATATATATATA
10800853 AAA
66 AAA
* * *
10800856 ATGTATATAAAAATTATAAAATATAAAA-TATATATAAGTATGTATATATATGTATATATATATA
1 ATGTATATAAAAATTATAAAATATAAAAGTATATATAAGTATGGATATACACGTATATATATATA
10800920 TATAAAAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
67 30 0.55
68 25 0.45
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.39
Consensus pattern (68 bp):
ATGTATATAAAAATTATAAAATATAAAAGTATATATAAGTATGGATATACACGTATATATATATA
AAA
Found at i:10800920 original size:14 final size:14
Alignment explanation
Indices: 10800883--10800920 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
10800873 AAAATATAAA
*
10800883 ATATATATAAGTAT
1 ATATATATATGTAT
*
10800897 GTATATATATGTAT
1 ATATATATATGTAT
10800911 ATATATATAT
1 ATATATATAT
10800921 ATAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:10801678 original size:5 final size:6
Alignment explanation
Indices: 10801666--10801694 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10801656 ATACGTTATT
10801666 TAAAAA T-AAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
10801695 AATCGAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:10802483 original size:22 final size:22
Alignment explanation
Indices: 10802458--10802499 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10802448 AGAATAGTAA
*
10802458 ATTATA-TACTTTTTTATTATAT
1 ATTATATTA-TTTTCTATTATAT
10802480 ATTATATTATTTTCTATTAT
1 ATTATATTATTTTCTATTAT
10802500 TTTAATGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATATTATTTTCTATTATAT
Found at i:10803083 original size:18 final size:18
Alignment explanation
Indices: 10803053--10803087 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10803043 AAACAATTTA
10803053 TTTAATAAAATTAAAATG
1 TTTAATAAAATTAAAATG
10803071 TTTAA-AAATATTAAAAT
1 TTTAATAAA-ATTAAAAT
10803088 ATCACTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TTTAATAAAATTAAAATG
Found at i:10808080 original size:18 final size:18
Alignment explanation
Indices: 10807975--10808080 Score: 61
Period size: 18 Copynumber: 5.6 Consensus size: 18
10807965 ATTATTCTAG
*
10807975 AAATTTTTTTAATTTTTC
1 AAATTTTTTTGATTTTTC
*
10807993 AAATTCCTTTAT-ATTTTTTC
1 AAATT--TTTTTGA-TTTTTC
*
10808013 AGAATTTTTTTGAACTTTTTAT
1 A-AATTTTTTTG-A-TTTTT-C
* * **
10808035 AAATATTTTAGATTTTAA
1 AAATTTTTTTGATTTTTC
* *
10808053 AAATTATTTTGATTTTTG
1 AAATTTTTTTGATTTTTC
10808071 AAATTTTTTT
1 AAATTTTTTT
10808081 TGTAATTTTT
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
18 27 0.40
19 9 0.13
20 12 0.18
21 18 0.27
22 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
AAATTTTTTTGATTTTTC
Found at i:10809020 original size:38 final size:37
Alignment explanation
Indices: 10808966--10809037 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
10808956 TAATGATCTT
*
10808966 AATATCTCTCTCATGTTCTCCGGTGTCATTATCATTTG
1 AATATCTCTCTCATGTTCTCCGGTGTAATT-TCATTTG
* * *
10809004 AATATCTCTTTGATGTTCTCTGGTGTAATTTCAT
1 AATATCTCTCTCATGTTCTCCGGTGTAATTTCAT
10809038 CCTTTTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.13
38 26 0.87
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (37 bp):
AATATCTCTCTCATGTTCTCCGGTGTAATTTCATTTG
Found at i:10812099 original size:3 final size:3
Alignment explanation
Indices: 10812091--10812141 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
10812081 ATATGTAAGT
* * * * *
10812091 ATA ATA ATA AT- ATA ATA ATG ATA ATA ATA ATT ATT ATT ATA ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10812138 ATA A
1 ATA A
10812142 CCACTATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:10813092 original size:8 final size:8
Alignment explanation
Indices: 10813081--10813116 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
10813071 GGGTTAGGGT
10813081 TTGGTTCA
1 TTGGTTCA
10813089 TTGGTTCA
1 TTGGTTCA
10813097 TTGGTTCA
1 TTGGTTCA
10813105 TTGGTTCA
1 TTGGTTCA
10813113 TTGG
1 TTGG
10813117 GCTTTAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.11, C:0.11, G:0.28, T:0.50
Consensus pattern (8 bp):
TTGGTTCA
Found at i:10816746 original size:3 final size:3
Alignment explanation
Indices: 10816738--10816775 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
10816728 TTACACTTAC
10816738 TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T
10816776 TACTCTTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10816761 original size:16 final size:16
Alignment explanation
Indices: 10816740--10816772 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10816730 ACACTTACTA
10816740 TTATTATTATTATTAT
1 TTATTATTATTATTAT
10816756 TTATTATTATTATTAT
1 TTATTATTATTATTAT
10816772 T
1 T
10816773 ATTTACTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:10816762 original size:19 final size:19
Alignment explanation
Indices: 10816738--10816777 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10816728 TTACACTTAC
10816738 TATTATTATTATTATTATT
1 TATTATTATTATTATTATT
10816757 TATTATTATTATTATTATT
1 TATTATTATTATTATTATT
10816776 TA
1 TA
10816778 CTCTTTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTATTATTATTATT
Found at i:10829184 original size:16 final size:16
Alignment explanation
Indices: 10829165--10829195 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10829155 CAACATTATA
10829165 TATGTATACATATATG
1 TATGTATACATATATG
*
10829181 TATGTATATATATAT
1 TATGTATACATATAT
10829196 CGCTGATTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
TATGTATACATATATG
Found at i:10829782 original size:43 final size:43
Alignment explanation
Indices: 10829715--10829885 Score: 136
Period size: 43 Copynumber: 4.1 Consensus size: 43
10829705 TTTTTAGGTA
* *
10829715 TTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATGACT
1 TTTAGCGGCACTTCTACCACAAACGCCGCTAAAGAACATGACT
* * *
10829758 TTTAGCGGCACTTCTACTATAAACGCTGCTAAAGAACATGACT
1 TTTAGCGGCACTTCTACCACAAACGCCGCTAAAGAACATGACT
* * ** * * * *
10829801 TTAATCATCGCTTGC-ACCACAAACTCC-CTATA-AAGATGACT
1 TTTAGCGGCACTT-CTACCACAAACGCCGCTAAAGAACATGACT
*** * *
10829842 TTTAGCGGCACTT-TTTGACAAACGCAGCTAAA-AACATAACT
1 TTTAGCGGCACTTCTACCACAAACGCCGCTAAAGAACATGACT
10829883 TTT
1 TTT
10829886 TAAAAAATAT
Statistics
Matches: 96, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
40 7 0.07
41 30 0.31
42 4 0.04
43 54 0.56
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCACTTCTACCACAAACGCCGCTAAAGAACATGACT
Found at i:10834458 original size:25 final size:24
Alignment explanation
Indices: 10834416--10834463 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
10834406 CCCATATATT
10834416 ATACTTTCAATTCTTTCACATTTA
1 ATACTTTCAATTCTTTCACATTTA
10834440 ATACATTTCAATGTC-TTCACATTT
1 ATAC-TTTCAAT-TCTTTCACATTT
10834464 TTCCCATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 16 0.73
26 2 0.09
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (24 bp):
ATACTTTCAATTCTTTCACATTTA
Found at i:10834836 original size:40 final size:40
Alignment explanation
Indices: 10834781--10834861 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10834771 ATAAGAATGA
10834781 GTTGTAAAAAGATTAGATACCAGAAACAGTTTGGTGAAGC
1 GTTGTAAAAAGATTAGATACCAGAAACAGTTTGGTGAAGC
10834821 GTTGTAAAAAGATTAGATACCAGAAACAGTTTGGTGAAGC
1 GTTGTAAAAAGATTAGATACCAGAAACAGTTTGGTGAAGC
10834861 G
1 G
10834862 AGCCAAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.25
Consensus pattern (40 bp):
GTTGTAAAAAGATTAGATACCAGAAACAGTTTGGTGAAGC
Found at i:10836112 original size:28 final size:29
Alignment explanation
Indices: 10836046--10836109 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
10836036 CCCCGAATCT
* *
10836046 CTAAACCCTAAATCACTAACTCTTAACCC
1 CTAAACCCTTAATCACTAACTCATAACCC
10836075 C-AAACCCTTAATCACTAA-TCAATAACCC
1 CTAAACCCTTAATCACTAACTC-ATAACCC
10836103 CTAAACC
1 CTAAACC
10836110 TTATTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.06
28 23 0.74
29 6 0.19
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (29 bp):
CTAAACCCTTAATCACTAACTCATAACCC
Found at i:10836735 original size:41 final size:41
Alignment explanation
Indices: 10836677--10836778 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
10836667 TAAAATGTTT
* *
10836677 TTGAAAAATGGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTC
1 TTGAAAAA-CGCCGCTAAAGCCCCGAGCATTAGCGACGCTTC
* * *
10836719 TTGAAAAACGCCGCTAAAGCCCTGAGCATTAGCGATGCTTT
1 TTGAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACGCTTC
* *
10836760 TTCAAAAATGCCGCTAAAG
1 TTGAAAAACGCCGCTAAAG
10836779 ATTTAAGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 45 0.85
42 8 0.15
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (41 bp):
TTGAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACGCTTC
Found at i:10844304 original size:21 final size:21
Alignment explanation
Indices: 10844280--10844323 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10844270 GCAACCCAAT
*
10844280 TTTTATT-TTTATTATTATTTA
1 TTTTATTCTTTACT-TTATTTA
*
10844301 TTTTTTTCTTTACTTTATTTA
1 TTTTATTCTTTACTTTATTTA
10844322 TT
1 TT
10844324 ACTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTCTTTACTTTATTTA
Found at i:10844317 original size:17 final size:17
Alignment explanation
Indices: 10844297--10844338 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
10844287 TTTATTATTA
*
10844297 TTTATTTTTTTCTTTAC
1 TTTATTTTTTACTTTAC
* *
10844314 TTTATTTATTACTTTAT
1 TTTATTTTTTACTTTAC
10844331 TTTATTTT
1 TTTATTTT
10844339 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTACTTTAC
Found at i:10844333 original size:27 final size:26
Alignment explanation
Indices: 10844287--10844350 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
10844277 AATTTTTATT
*
10844287 TTTATTATTATTTATTTTTTTCTTTAC
1 TTTATTATTATTTATTTTTAT-TTTAC
*
10844314 TTTATTTATTACTTTA-TTTTATTTTAT
1 TTTA-TTATTA-TTTATTTTTATTTTAC
10844341 TTTACTTATT
1 TTTA-TTATT
10844351 TGGATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.53
28 11 0.34
29 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTATTATTTATTTTTATTTTAC
Found at i:10845356 original size:100 final size:100
Alignment explanation
Indices: 10845183--10845440 Score: 507
Period size: 100 Copynumber: 2.6 Consensus size: 100
10845173 AAGAACATGT
10845183 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
10845248 TTCTTAAGAAAAATTATAATAAATTAGGAGTTTGC
66 TTCTTAAGAAAAATTATAATAAATTAGGAGTTTGC
10845283 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
10845348 TTCTTAAGAAAAATTATAATAAATTAGGAGTTTGC
66 TTCTTAAGAAAAATTATAATAAATTAGGAGTTTGC
*
10845383 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTT
10845441 CAGTATATTT
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 157 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (100 bp):
TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
TTCTTAAGAAAAATTATAATAAATTAGGAGTTTGC
Found at i:10849128 original size:28 final size:30
Alignment explanation
Indices: 10849073--10849138 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
10849063 ATGTAAACAT
*
10849073 TAAAATAATGTTATAAAAAAATTTAATAAA
1 TAAAATAATGTTATAAAAAAATTAAATAAA
** *
10849103 TAAAA-AATG-TATAAAATTATTAAAT-AT
1 TAAAATAATGTTATAAAAAAATTAAATAAA
10849130 TAAAATAAT
1 TAAAATAAT
10849139 ATAATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 6 0.19
28 16 0.52
29 4 0.13
30 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
TAAAATAATGTTATAAAAAAATTAAATAAA
Found at i:10851918 original size:24 final size:24
Alignment explanation
Indices: 10851891--10851942 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
10851881 CTATATATCA
10851891 GTTTCCTAGTTGTTCTCATCATAT
1 GTTTCCTAGTTGTTCTCATCATAT
10851915 GTTTCCTAGTTGTTCTCATCATAT
1 GTTTCCTAGTTGTTCTCATCATAT
10851939 GTTT
1 GTTT
10851943 ATGTATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.13, T:0.52
Consensus pattern (24 bp):
GTTTCCTAGTTGTTCTCATCATAT
Found at i:10852170 original size:1 final size:1
Alignment explanation
Indices: 10852166--10852195 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
10852156 TTTTTTTTTT
*
10852166 GGGGGGGGGGGGGGGGGGGGGGGAGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
10852196 TTCAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:10867490 original size:70 final size:68
Alignment explanation
Indices: 10867399--10867535 Score: 229
Period size: 70 Copynumber: 2.0 Consensus size: 68
10867389 GTTGGAACTT
* *
10867399 ACGTTCCCTTTTTTGAATGACATTCTCGTTCCTAGGAGTTTGTAGTACTGTATCACAGTATCTTT
1 ACGTTCCCTTTTTTGAATGACATTCTCATTCCTAGGAGTTTGCAGTACTGTATCACAGTATCTTT
10867464 CAC
66 CAC
*
10867467 ACGTTCCCCTTTTTTTGATTGACATTCTCATTCCTAGGAGTTTGCAGTACTGTATCACAGTATCT
1 ACGTT-CCC-TTTTTTGAATGACATTCTCATTCCTAGGAGTTTGCAGTACTGTATCACAGTATCT
10867532 TTCA
64 TTCA
10867536 TTCTTAACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 5 0.08
69 3 0.05
70 56 0.88
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (68 bp):
ACGTTCCCTTTTTTGAATGACATTCTCATTCCTAGGAGTTTGCAGTACTGTATCACAGTATCTTT
CAC
Found at i:10871828 original size:3 final size:3
Alignment explanation
Indices: 10871815--10871847 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10871805 TTTCTAATTT
*
10871815 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
10871848 TTGTTTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10872153 original size:25 final size:24
Alignment explanation
Indices: 10872097--10872153 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
10872087 CTAATTTATT
* *
10872097 AATACAATGTAAAAAACAATAAAAC
1 AATA-AATATAAAAAAAAATAAAAC
*
10872122 AAGTAAATATAAAAAATAAATAGAAC
1 AA-TAAATATAAAAAA-AAATAAAAC
10872148 AATAAA
1 AATAAA
10872154 ACACACTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (24 bp):
AATAAATATAAAAAAAAATAAAAC
Found at i:10872522 original size:2 final size:2
Alignment explanation
Indices: 10872515--10872539 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10872505 CCTCTCAACC
10872515 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10872540 AACAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10873533 original size:52 final size:52
Alignment explanation
Indices: 10873436--10873543 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
10873426 ATACTAAATC
* * *
10873436 TTGAGGTGGGATTAAATGAAATAATGAAAAGATAAATCAACATAAATCCTAA
1 TTGAGGTGGGATTAAATGAAATAATAAAAAGAAAAATCAACATAAATACTAA
* * * *
10873488 TTGAGGTGGGATTAAATGAATTATTAAAAAGAAAAA-CTTATATAAATACTAA
1 TTGAGGTGGGATTAAATGAAATAATAAAAAGAAAAATC-AACATAAATACTAA
10873540 TTGA
1 TTGA
10873544 AGTCGAATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 1 0.02
52 47 0.98
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (52 bp):
TTGAGGTGGGATTAAATGAAATAATAAAAAGAAAAATCAACATAAATACTAA
Found at i:10876525 original size:8 final size:8
Alignment explanation
Indices: 10876512--10876536 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10876502 GTAAATGTTT
10876512 TCAAAATA
1 TCAAAATA
10876520 TCAAAATA
1 TCAAAATA
10876528 TCAAAATA
1 TCAAAATA
10876536 T
1 T
10876537 GTAAGTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TCAAAATA
Found at i:10877978 original size:55 final size:54
Alignment explanation
Indices: 10877889--10877998 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 54
10877879 TTTTCTCATT
10877889 TTTCTCTCCCTTTCTATAAACTTTTTTCTATTGGGTTCTTTTCTCTCTTTTTGA
1 TTTCTCTCCCTTTCTATAAACTTTTTTCTATTGGGTTCTTTTCTCTCTTTTTGA
* *
10877943 TNTTCTCTCTCTTTCTATAAACTTTTTTCTCTTGGGTTCTTTTCTCTCTTTTTGA
1 T-TTCTCTCCCTTTCTATAAACTTTTTTCTATTGGGTTCTTTTCTCTCTTTTTGA
10877998 T
1 T
10877999 CCTTTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 1 0.02
55 52 0.98
ACGTcount: A:0.10, C:0.22, G:0.07, T:0.60
Consensus pattern (54 bp):
TTTCTCTCCCTTTCTATAAACTTTTTTCTATTGGGTTCTTTTCTCTCTTTTTGA
Found at i:10879336 original size:4 final size:4
Alignment explanation
Indices: 10879321--10879365 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
10879311 CATATATCCG
* *
10879321 TACA TGCA TACA TACA TACA TACA TACA TACA TACA TAGA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T
10879366 GCATGCACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:10880849 original size:30 final size:31
Alignment explanation
Indices: 10880803--10880866 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
10880793 TTTTATTATG
10880803 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
10880834 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
10880864 CCA
1 CCA
10880867 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.27, C:0.28, G:0.06, T:0.39
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:10880858 original size:15 final size:15
Alignment explanation
Indices: 10880813--10880859 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10880803 CCAATATCTC
10880813 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10880828 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10880843 GATACCCATATCTTT
1 GATACCCATATCTTT
10880858 GA
1 GA
10880860 CTTTCCANNN
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:10882950 original size:4 final size:4
Alignment explanation
Indices: 10882935--10882979 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
10882925 CATATATCCG
* *
10882935 TACA TGCA TACA TACA TACA TACA TACA TACA TACA TAGA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T
10882980 GCATGCACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:10884881 original size:37 final size:39
Alignment explanation
Indices: 10884807--10884884 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 39
10884797 CTTACTCATG
*
10884807 ATCATTTATTTAGTTCGATGAATGAACAATAACAAACAAAA
1 ATCATTTATTTAGTCCGATGAATGAAC-A-AACAAACAAAA
*
10884848 ATCATTTATTTCGTCCGATGAATGAAC-AA-AAACAAAA
1 ATCATTTATTTAGTCCGATGAATGAACAAACAAACAAAA
10884885 GTAGAACCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 8 0.23
38 2 0.06
41 25 0.71
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.28
Consensus pattern (39 bp):
ATCATTTATTTAGTCCGATGAATGAACAAACAAACAAAA
Found at i:10896086 original size:13 final size:13
Alignment explanation
Indices: 10896068--10896097 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10896058 GTATATTAAA
*
10896068 TTTATAGTTTTTT
1 TTTATAGTTTTTG
10896081 TTTATAGTTTTTG
1 TTTATAGTTTTTG
10896094 TTTA
1 TTTA
10896098 AAAATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTATAGTTTTTG
Found at i:10896793 original size:83 final size:82
Alignment explanation
Indices: 10896655--10896820 Score: 244
Period size: 83 Copynumber: 2.0 Consensus size: 82
10896645 TTTACCCTAA
*
10896655 ATACAATTGTGTTGAATTCTAATTTTATTTAGTTGGTGGATCGATAATAAATTTTAATAAACCTT
1 ATACAATTGTGTTGAATTCTAATTTTATTTAGTTGGTGGATCAATAATAAATTTTAATAAACCTT
10896720 TAATTTTGACTAATGAC
66 TAATTTTGACTAATGAC
* * * **
10896737 ATACAATTGTGTTGACTTTTAATTTTTATTTAGTTGGTCGG-TTAATAATAAATTTTAATAAAGT
1 ATACAATTGTGTTGAATTCTAA-TTTTATTTAGTTGGT-GGATCAATAATAAATTTTAATAAACC
*
10896801 TTTATTTTTGACTAATGAC
64 TTTAATTTTGACTAATGAC
10896820 A
1 A
10896821 CCAAATGGTC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 20 0.27
83 53 0.71
84 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (82 bp):
ATACAATTGTGTTGAATTCTAATTTTATTTAGTTGGTGGATCAATAATAAATTTTAATAAACCTT
TAATTTTGACTAATGAC
Found at i:10897251 original size:18 final size:19
Alignment explanation
Indices: 10897230--10897266 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10897220 TGTAAAAATA
10897230 TTCA-AAAAA-TATAAAAAG
1 TTCATAAAAACTA-AAAAAG
10897248 TTCATAAAAACTAAAAAAG
1 TTCATAAAAACTAAAAAAG
10897267 ATAGTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 11 0.65
20 2 0.12
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (19 bp):
TTCATAAAAACTAAAAAAG
Found at i:10898700 original size:115 final size:115
Alignment explanation
Indices: 10898590--10898817 Score: 431
Period size: 115 Copynumber: 2.0 Consensus size: 115
10898580 GAAAAAGTAA
10898590 AAAAAAAAATT-GTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAATTCTTTTTTTTTTTT
1 AAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAATTCTTTTTTTTTTTT
10898654 ACTTTTTTCGTGTCAGATAAGATATCAATATACGAAAAAAATAAAAAAAT
66 ACTTTTTTCGTGTCAGATAAGATATCAATATACGAAAAAAATAAAAAAAT
*
10898704 AAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAATTCTTTTTTTTTTTT
1 AAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAATTCTTTTTTTTTTTT
*
10898769 ACTTTTTTCGTGTCAGATAAGATATCAATATACGAAAAAAGTAAAAAAA
66 ACTTTTTTCGTGTCAGATAAGATATCAATATACGAAAAAAATAAAAAAA
10898818 AATTGGTAGT
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
114 10 0.09
115 101 0.91
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (115 bp):
AAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAATTCTTTTTTTTTTTT
ACTTTTTTCGTGTCAGATAAGATATCAATATACGAAAAAAATAAAAAAAT
Found at i:10899054 original size:106 final size:100
Alignment explanation
Indices: 10898870--10899079 Score: 330
Period size: 106 Copynumber: 2.0 Consensus size: 100
10898860 GAAAAAAAAA
* * *
10898870 TTAAAAAGGTGGTGTCGGCCATTGCTAGGCCACCACCAAATTTTTTTTTACTTTTTTCGTATACT
1 TTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAATTTTTTTTTACTTTTTTCGTATACT
10898935 GATATCTTATCTGACACGAAAAAAATAAATTTTTT
66 GATATCTTATCTGACACGAAAAAAATAAATTTTTT
10898970 TTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAAAAATATTTTTTTTTACTTTTTTCG
1 TTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC-----AAA-ATTTTTTTTTACTTTTTTCG
*
10899035 TATACTGATATCTTATCTGACACGAAAAAAGTAAATTTTTT
60 TATACTGATATCTTATCTGACACGAAAAAAATAAATTTTTT
10899076 TTAA
1 TTAA
10899080 CCACCAAATT
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
100 34 0.34
105 2 0.02
106 64 0.64
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (100 bp):
TTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAATTTTTTTTTACTTTTTTCGTATACT
GATATCTTATCTGACACGAAAAAAATAAATTTTTT
Found at i:10907556 original size:21 final size:22
Alignment explanation
Indices: 10907530--10907576 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
10907520 CTCTGCTCAA
*
10907530 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
10907551 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
10907573 ACTC
1 ACTC
10907577 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:10912214 original size:21 final size:22
Alignment explanation
Indices: 10912188--10912234 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
10912178 CTCTGCTCAA
*
10912188 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
10912209 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
10912231 ACTC
1 ACTC
10912235 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:10923167 original size:13 final size:13
Alignment explanation
Indices: 10923149--10923175 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10923139 TGCAGAAAAT
10923149 AAACTCCTATGTC
1 AAACTCCTATGTC
10923162 AAACTCCTATGTC
1 AAACTCCTATGTC
10923175 A
1 A
10923176 GACAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (13 bp):
AAACTCCTATGTC
Found at i:10929103 original size:45 final size:45
Alignment explanation
Indices: 10929030--10929119 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
10929020 ACTATTAACA
*
10929030 ATCTACTGAAAAGCAAAAGAAATATGAAAAGGAATCTACCACTTT
1 ATCTACTGAAAAGCAAAAGAAATATGAAAAGGAACCTACCACTTT
* * * *
10929075 ATCTACTGAAAAGTAAAAGGAATGTGAAAAGGTACCTACCACTTT
1 ATCTACTGAAAAGCAAAAGAAATATGAAAAGGAACCTACCACTTT
10929120 CTTTTAAGCG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.23
Consensus pattern (45 bp):
ATCTACTGAAAAGCAAAAGAAATATGAAAAGGAACCTACCACTTT
Found at i:10934457 original size:30 final size:30
Alignment explanation
Indices: 10934422--10935295 Score: 1703
Period size: 30 Copynumber: 29.1 Consensus size: 30
10934412 TCCATATTTA
* *
10934422 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
10934452 TGGAAAGTCAAATATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934482 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934512 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934542 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934572 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934602 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934632 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934662 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934692 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934722 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934752 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934782 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934812 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934842 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934872 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934902 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934932 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934962 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10934992 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935022 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935052 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935082 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935112 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935142 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935172 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935202 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
10935232 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
10935262 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
10935293 TGG
1 TGG
10935296 CATAATAAAA
Statistics
Matches: 838, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
30 830 0.99
31 8 0.01
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:10939889 original size:15 final size:15
Alignment explanation
Indices: 10939869--10939946 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
10939859 TTTAAGGAAA
10939869 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
10939884 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
10939898 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
10939914 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
10939928 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
10939944 ATC
1 ATC
10939947 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:10939904 original size:30 final size:30
Alignment explanation
Indices: 10939864--10939946 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
10939854 CCATATTTAA
*
10939864 GGAAAATCAAAGATATGGGTATCAAATAAT
1 GGAAAGTCAAAGATATGGGTATCAAATAAT
*
10939894 GGAAAGTCAAAGATATGGGTATCAAATATT
1 GGAAAGTCAAAGATATGGGTATCAAATAAT
10939924 GGAAAGTCAAAGATATGGGTATC
1 GGAAAGTCAAAGATATGGGTATC
10939947 GAGATATTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (30 bp):
GGAAAGTCAAAGATATGGGTATCAAATAAT
Found at i:10940896 original size:12 final size:12
Alignment explanation
Indices: 10940879--10940903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10940869 GGTGTTCATT
10940879 CGGTTAACCGAC
1 CGGTTAACCGAC
10940891 CGGTTAACCGAC
1 CGGTTAACCGAC
10940903 C
1 C
10940904 TGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:10941068 original size:9 final size:9
Alignment explanation
Indices: 10941054--10941102 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
10941044 TTTGGTTAAA
10941054 AATTACCCG
1 AATTACCCG
10941063 AATTACCCG
1 AATTACCCG
*
10941072 AATTAACCG
1 AATTACCCG
*
10941081 AATTAACCG
1 AATTACCCG
10941090 AATTACCCG
1 AATTACCCG
10941099 AATT
1 AATT
10941103 TTTTTGGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:10946114 original size:60 final size:60
Alignment explanation
Indices: 10946021--10946140 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
10946011 TTAAGTAATG
* *
10946021 AACCTAAATTAAGACATGGACCTTCCAGAAAAATGACCAGTGGTGTCCTTGTCCATGTTC
1 AACCTAAATTAAGACATGAACCTTCCAGAAAAATGACCAATGGTGTCCTTGTCCATGTTC
*
10946081 AACCTAAATTAAGACATGAACCTTCTAGAAAAATGACCAATGGTGTCCTTGTCCATGTTC
1 AACCTAAATTAAGACATGAACCTTCCAGAAAAATGACCAATGGTGTCCTTGTCCATGTTC
10946141 GGCCGAATGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (60 bp):
AACCTAAATTAAGACATGAACCTTCCAGAAAAATGACCAATGGTGTCCTTGTCCATGTTC
Found at i:10946866 original size:20 final size:20
Alignment explanation
Indices: 10946819--10946866 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
10946809 AGTAAGCTCG
10946819 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
10946839 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
10946859 GTTGAGCT
1 GTTGAGCT
10946867 AGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:10947282 original size:17 final size:17
Alignment explanation
Indices: 10947260--10947297 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
10947250 TTTGTATTAA
10947260 TTGGACTTTCTAGACTG
1 TTGGACTTTCTAGACTG
10947277 TTGGACTTTCTAGACTG
1 TTGGACTTTCTAGACTG
10947294 TTGG
1 TTGG
10947298 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (17 bp):
TTGGACTTTCTAGACTG
Found at i:10958381 original size:8 final size:8
Alignment explanation
Indices: 10958368--10958409 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
10958358 CAAAAGCATA
10958368 ATAAAAAT
1 ATAAAAAT
10958376 AT-AAAAT
1 ATAAAAAT
* *
10958383 ATTAATAT
1 ATAAAAAT
*
10958391 ATAAAATT
1 ATAAAAAT
10958399 ATAAAAAT
1 ATAAAAAT
10958407 ATA
1 ATA
10958410 TTTTATAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAAAAAT
Found at i:10958983 original size:24 final size:24
Alignment explanation
Indices: 10958951--10959003 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
10958941 CAATTAGAGG
10958951 TTAACTGACAAGTTTCGAACCGAA
1 TTAACTGACAAGTTTCGAACCGAA
*
10958975 TTAACTGACAAGTTTCGAATCGAA
1 TTAACTGACAAGTTTCGAACCGAA
10958999 TTAAC
1 TTAAC
10959004 CGTTAATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (24 bp):
TTAACTGACAAGTTTCGAACCGAA
Found at i:10959864 original size:18 final size:19
Alignment explanation
Indices: 10959832--10959867 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10959822 CAAAAATTAT
*
10959832 AAAATAATTTTTAAAATTC
1 AAAATAATTTATAAAATTC
10959851 AAAAT-ATTTATAAAATT
1 AAAATAATTTATAAAATT
10959868 TTCAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTTATAAAATTC
Found at i:10960045 original size:18 final size:19
Alignment explanation
Indices: 10960024--10960061 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10960014 TTTTTAAAAA
10960024 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
10960042 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
10960061 T
1 T
10960062 TTGTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:10974758 original size:50 final size:51
Alignment explanation
Indices: 10974699--10974814 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
10974689 ACTTCTTATC
*
10974699 AGTGACAAGTGATAAGTGGTAG-CTTAACTACACTTATCTGATCGGTGACA
1 AGTGACAAGTGATAAGTGGTAGTCTTAACTACACTTATCTGATCAGTGACA
* *
10974749 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGTCTTAACTACACTTATCTGATCAGTGACA
* *
10974800 TGTGCCAAGTGATAA
1 AGTGACAAGTGATAA
10974815 ATGTGATCCG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 22 0.37
51 38 0.63
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGTCTTAACTACACTTATCTGATCAGTGACA
Found at i:10979749 original size:9 final size:9
Alignment explanation
Indices: 10979700--10979749 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
10979690 TTAAAATTAC
10979700 TTTTTATAA
1 TTTTTATAA
10979709 TTTTATAATAA
1 TTTT-T-ATAA
* *
10979720 TTTTAATGA
1 TTTTTATAA
10979729 -TTTTA-AA
1 TTTTTATAA
10979736 TTTTTATAA
1 TTTTTATAA
10979745 TTTTT
1 TTTTT
10979750 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
7 1 0.03
8 9 0.27
9 14 0.42
10 1 0.03
11 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10989830 original size:19 final size:20
Alignment explanation
Indices: 10989808--10989861 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 20
10989798 ATAAAAATTA
10989808 CAAAAATTAAAATAATTT-T
1 CAAAAATTAAAATAATTTAT
10989827 CAAAAATTAAAAT-ATTTAT
1 CAAAAATTAAAATAATTTAT
*
10989846 -AAAAATTTAAA-AATTT
1 CAAAAATTAAAATAATTT
10989862 GTATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
CAAAAATTAAAATAATTTAT
Found at i:10989831 original size:18 final size:20
Alignment explanation
Indices: 10989809--10989857 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
10989799 TAAAAATTAC
*
10989809 AAAAATTAAAATAATTT-TC
1 AAAAATTAAAATAATTTATA
10989828 AAAAATTAAAAT-ATTTATA
1 AAAAATTAAAATAATTTATA
*
10989847 AAAATTTAAAA
1 AAAAATTAAAA
10989858 ATTTGTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTAAAATAATTTATA
Found at i:10989861 original size:18 final size:18
Alignment explanation
Indices: 10989799--10989861 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
10989789 TCTCTCTTAA
*
10989799 TAAAAA-TTACAAAAATT
1 TAAAAATTTATAAAAATT
*
10989816 AAAATAATTT-TCAAAAA-T
1 TAAA-AATTTAT-AAAAATT
10989834 TAAAATATTTATAAAAATT
1 TAAAA-ATTTATAAAAATT
10989853 TAAAAATTT
1 TAAAAATTT
10989862 GTATTTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
17 4 0.11
18 19 0.51
19 14 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAAATTTATAAAAATT
Found at i:10989876 original size:19 final size:20
Alignment explanation
Indices: 10989854--10989893 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10989844 ATAAAAATTT
*
10989854 AAAAATT-TGTATTTTTAAA
1 AAAAATTATATATTTTTAAA
*
10989873 AAAAATTATATTTTTTTAAA
1 AAAAATTATATATTTTTAAA
10989893 A
1 A
10989894 TCTAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AAAAATTATATATTTTTAAA
Found at i:10989893 original size:18 final size:18
Alignment explanation
Indices: 10989851--10989893 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10989841 TTTATAAAAA
* *
10989851 TTTAAAAATTTGTATTTT
1 TTTAAAAAATTATATTTT
**
10989869 TAAAAAAAATTATATTTT
1 TTTAAAAAATTATATTTT
10989887 TTTAAAA
1 TTTAAAA
10989894 TCTAAAAAAT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAAAAAATTATATTTT
Found at i:10989930 original size:9 final size:9
Alignment explanation
Indices: 10989918--10989956 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
10989908 AAAAAAGTTG
10989918 AATTTTTAA
1 AATTTTTAA
10989927 AA-TTTTAA
1 AATTTTTAA
*
10989935 AATTTTAAA
1 AATTTTTAA
10989944 AATTTTATAA
1 AATTTT-TAA
10989954 AAT
1 AAT
10989957 AATAATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 13 0.50
10 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTTTTAA
Found at i:10989934 original size:8 final size:8
Alignment explanation
Indices: 10989921--10989950 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10989911 AAAGTTGAAT
10989921 TTTTAAAA
1 TTTTAAAA
10989929 TTTTAAAA
1 TTTTAAAA
10989937 TTTTAAAAA
1 TTTT-AAAA
10989946 TTTTA
1 TTTTA
10989951 TAAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:10989938 original size:17 final size:17
Alignment explanation
Indices: 10989918--10989950 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10989908 AAAAAAGTTG
*
10989918 AATTTTTAAAATTTTAA
1 AATTTTAAAAATTTTAA
10989935 AATTTTAAAAATTTTA
1 AATTTTAAAAATTTTA
10989951 TAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTAAAAATTTTAA
Found at i:10990277 original size:21 final size:21
Alignment explanation
Indices: 10990253--10990292 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10990243 ACCTTATTTA
10990253 AAGTTAAAAG-TCAAAACTATC
1 AAGTTAAAAGAT-AAAACTATC
10990274 AAGTTAAAAGATAAAACTA
1 AAGTTAAAAGATAAAACTA
10990293 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGATAAAACTATC
Found at i:10991163 original size:19 final size:19
Alignment explanation
Indices: 10991139--10991180 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10991129 TGAATATTTT
*
10991139 ATTTTTTAAAA-AAAATATA
1 ATTTTTAAAAATAAAAT-TA
10991158 ATTTTTAAAAATAAAATTA
1 ATTTTTAAAAATAAAATTA
10991177 ATTT
1 ATTT
10991181 AACAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTTAAAAATAAAATTA
Done.