Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 42 of 175
Found at i:11896826 original size:13 final size:13
Alignment explanation
Indices: 11896808--11896869 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
11896798 GACCGTATGC
11896808 AATTTTTTTTTCA
1 AATTTTTTTTTCA
11896821 AATTTTTTTTTCA
1 AATTTTTTTTTCA
* *
11896834 ATTTTTTTTTTCG
1 AATTTTTTTTTCA
*
11896847 ATTTTTTTTTTC-
1 AATTTTTTTTTCA
*
11896859 GATTTTTTTTT
1 AATTTTTTTTT
11896870 GAATCTACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
12 9 0.20
13 36 0.80
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (13 bp):
AATTTTTTTTTCA
Found at i:11896852 original size:26 final size:26
Alignment explanation
Indices: 11896810--11896869 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
11896800 CCGTATGCAA
11896810 TTTTTTTTTCAAATTTTTTTTTCAAT
1 TTTTTTTTTCAAATTTTTTTTTCAAT
* * *
11896836 TTTTTTTTTCGATTTTTTTTTTCGAT
1 TTTTTTTTTCAAATTTTTTTTTCAAT
11896862 TTTTTTTT
1 TTTTTTTT
11896870 GAATCTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (26 bp):
TTTTTTTTTCAAATTTTTTTTTCAAT
Found at i:11902293 original size:16 final size:16
Alignment explanation
Indices: 11902272--11902309 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
11902262 TAGCTTCTTC
*
11902272 TTTTTTTCACGAATTT
1 TTTTTTTCACAAATTT
11902288 TTTTTTTCACAAATTT
1 TTTTTTTCACAAATTT
11902304 TTTTTT
1 TTTTTT
11902310 CAACTTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTTTTCACAAATTT
Found at i:11902310 original size:15 final size:16
Alignment explanation
Indices: 11902272--11902311 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
11902262 TAGCTTCTTC
*
11902272 TTTTTTTCACGAATTT
1 TTTTTTTCACGAAATT
11902288 TTTTTTTCAC-AAATT
1 TTTTTTTCACGAAATT
11902303 TTTTTTTCA
1 TTTTTTTCA
11902312 ACTTGATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTTTTCACGAAATT
Found at i:11902370 original size:12 final size:12
Alignment explanation
Indices: 11902353--11902399 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
11902343 AAACCAAATT
*
11902353 TTTTTTTTTTAA
1 TTTTTTTTTGAA
11902365 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
11902377 -TTTTTTTCGAA
1 TTTTTTTTTGAA
*
11902388 ATTTTTTTTGAA
1 TTTTTTTTTGAA
11902400 GAAACTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 10 0.32
12 21 0.68
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.72
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:11909141 original size:17 final size:17
Alignment explanation
Indices: 11909108--11909141 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11909098 AAACCGTATG
**
11909108 CAATTTTTTTTTCTTTT
1 CAATTTTTTTTAATTTT
11909125 CAATTTTTTTTAATTTT
1 CAATTTTTTTTAATTTT
11909142 TTTTTTCGAA
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:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
CAATTTTTTTTAATTTT
Found at i:11909158 original size:24 final size:24
Alignment explanation
Indices: 11909114--11909159 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11909104 TATGCAATTT
* *
11909114 TTTTTTCTTTTCAATTTTTTTTAA
1 TTTTTTCTTTTCAACTCTTTTTAA
11909138 TTTTTT-TTTTCGAACTCTTTTT
1 TTTTTTCTTTTC-AACTCTTTTT
11909160 TTTTACGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTTTCAACTCTTTTTAA
Found at i:11916847 original size:20 final size:19
Alignment explanation
Indices: 11916792--11916836 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11916782 CATTTCATTG
*
11916792 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
11916813 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
11916832 AGCTC
1 AGCTC
11916837 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:11917211 original size:20 final size:21
Alignment explanation
Indices: 11917173--11917213 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11917163 ATGTGTTCTC
11917173 ATTTAATTAATTAGCTACATGT
1 ATTTAATT-ATTAGCTACATGT
*
11917195 ATTTAATT-TTAGGTACATG
1 ATTTAATTATTAGCTACATG
11917214 CAATGGACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (21 bp):
ATTTAATTATTAGCTACATGT
Found at i:11921707 original size:27 final size:27
Alignment explanation
Indices: 11921677--11921854 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
11921667 TTATTGAGCC
* *
11921677 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11921704 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
11921731 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
11921759 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11921786 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
11921813 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11921840 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11921855 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11921769 original size:55 final size:55
Alignment explanation
Indices: 11921677--11921853 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
11921667 TTATTGAGCC
* * * * * *
11921677 CGCACACTCAGTGCTAT-ATAAT-CAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCATCAT-ATCCATCTCGCACACTTAGTGCAACATAGTCAAAT
** * *
11921731 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCATCATA-TCCATCTCGCACACTTAGTGCAACATAGTCAAAT
* * *
11921786 CGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCATCATATCCATCTCGCACACTTAGTGCAACATAGTCAAAT
*
11921840 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
11921854 TGTACAATTT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.01
54 58 0.57
55 42 0.42
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCCATCATATCCATCTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:11921816 original size:82 final size:81
Alignment explanation
Indices: 11921698--11921853 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
11921688 TGCTATATAA
* * * **
11921698 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTGAGTGCAACATAGT-CAAATCGCA
11921763 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11921780 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11921844 CCCTTAGTGC
65 CACTTAGTGC
11921854 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11923705 original size:20 final size:20
Alignment explanation
Indices: 11923682--11923735 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
11923672 AGTTTTTCCC
*
11923682 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
11923702 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
11923722 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
11923736 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:11923717 original size:30 final size:30
Alignment explanation
Indices: 11923682--11923755 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
11923672 AGTTTTTCCC
11923682 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
11923712 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
11923742 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
11923756 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:11923745 original size:20 final size:20
Alignment explanation
Indices: 11923682--11923746 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
11923672 AGTTTTTCCC
* * * *
11923682 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
11923702 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
11923721 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
11923742 AGCTC
1 AGCTC
11923747 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:11925390 original size:15 final size:15
Alignment explanation
Indices: 11925370--11925417 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 15
11925360 AAAAAATAAG
11925370 AAAATTTCGAAAAAA
1 AAAATTTCGAAAAAA
*
11925385 AAAATTGATTGAAAAAA
1 AAAATT--TCGAAAAAA
11925402 AAAA-TTC-AAAAAA
1 AAAATTTCGAAAAAA
11925415 AAA
1 AAA
11925418 GTGAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 9 0.31
14 1 0.03
15 6 0.21
16 1 0.03
17 12 0.41
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAATTTCGAAAAAA
Found at i:11925440 original size:16 final size:16
Alignment explanation
Indices: 11925421--11925464 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
11925411 AAAAAAAGTG
*
11925421 AAAAAAAAAATCGAGC
1 AAAAAAAAAATCGACC
*
11925437 AAAAAAAAAGGT-GACC
1 AAAAAAAAA-ATCGACC
11925453 AAAAAAAAAATC
1 AAAAAAAAAATC
11925465 AAGTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.11, T:0.07
Consensus pattern (16 bp):
AAAAAAAAAATCGACC
Found at i:11926538 original size:17 final size:18
Alignment explanation
Indices: 11926506--11926539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11926496 AAAAGAGAGT
*
11926506 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
11926524 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
11926540 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:11927828 original size:20 final size:20
Alignment explanation
Indices: 11927805--11927858 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
11927795 AGTTTTTCCC
*
11927805 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
11927825 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
11927845 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
11927859 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:11927840 original size:30 final size:30
Alignment explanation
Indices: 11927805--11927878 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
11927795 AGTTTTTCCC
11927805 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
11927835 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
11927865 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
11927879 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:11927868 original size:20 final size:20
Alignment explanation
Indices: 11927805--11927869 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
11927795 AGTTTTTCCC
* * * *
11927805 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
11927825 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
11927844 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
11927865 AGCTC
1 AGCTC
11927870 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:11935525 original size:27 final size:27
Alignment explanation
Indices: 11935495--11935670 Score: 147
Period size: 27 Copynumber: 6.5 Consensus size: 27
11935485 ATTGAGCCCT
* *
11935495 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
* *
11935522 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
* * *
11935549 CACACTTAGTGCCACATAGTCCATCTCG
1 CACACTTAGTGCTACATAAT-CAACTCG
** ** *
11935577 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
* **
11935604 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* * * *
11935631 CACACTGAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
*
11935658 CACCCTTAGTGCT
1 CACACTTAGTGCT
11935671 GTACAATTTA
Statistics
Matches: 122, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:11935583 original size:55 final size:55
Alignment explanation
Indices: 11935518--11935669 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
11935508 ATATAATCAA
* * *
11935518 CTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCA-CATAGTCCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCATCATA-TCCAT
** * * *
11935573 CTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTG-CATCATATTCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCATCATATCCAT
* * *
11935627 TTCGCACACTGAGTGCAACATAGTCAAATCGCACCCTTAGTGC
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
11935670 TGTACAATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 41 0.51
55 40 0.49
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (55 bp):
CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCATCATATCCAT
Found at i:11935632 original size:82 final size:81
Alignment explanation
Indices: 11935514--11935669 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
11935504 TGCTATATAA
* * * **
11935514 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTGAGTGCAACATAGT-CAAATCGCA
11935579 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11935596 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11935660 CCCTTAGTGC
65 CACTTAGTGC
11935670 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11952981 original size:21 final size:21
Alignment explanation
Indices: 11952955--11953017 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
11952945 TTGGTATTTG
11952955 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
11952976 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
11952997 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
11953018 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:11979589 original size:24 final size:25
Alignment explanation
Indices: 11979562--11979608 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
11979552 ACTAGTCACA
11979562 GAGAGAATTGAGGAG-GAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
11979586 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
11979609 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:11980312 original size:27 final size:26
Alignment explanation
Indices: 11980272--11980379 Score: 74
Period size: 26 Copynumber: 4.1 Consensus size: 26
11980262 TCGATATCTG
*
11980272 GACTAAAATACCCTCAAAAGGTAAAAT
1 GACTGAAATACCCT-AAAAGGTAAAAT
* * *
11980299 GACTGAAATGCCCTATAGGGTAAAAT
1 GACTGAAATACCCTAAAAGGTAAAAT
* *** * *
11980325 GACCGAAATATCCCCGTAGGGTAGAAT
1 GACTGAAATA-CCCTAAAAGGTAAAAT
* *
11980352 -ACCGAAATACCCCTATAAGGTAAAAT
1 GACTGAAATA-CCCTAAAAGGTAAAAT
11980378 GA
1 GA
11980380 TCGTAATACC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 39 0.60
27 26 0.40
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (26 bp):
GACTGAAATACCCTAAAAGGTAAAAT
Found at i:11980387 original size:27 final size:27
Alignment explanation
Indices: 11980291--11980569 Score: 312
Period size: 27 Copynumber: 10.4 Consensus size: 27
11980281 ACCCTCAAAA
* * *
11980291 GGTAAAATGACTGAAATG-CCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
11980317 GGTAAAATGACCGAAATATCCCC-GTAG
1 GGTAAAATGACCGTAAT-GCCCCTGTAG
* * * * *
11980344 GGTAGAAT-ACCGAAATACCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
11980370 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
11980397 GGTAAAATAACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
11980424 GGTGAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
11980451 GGTGAAATGACTGTAATGCCCGTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
11980478 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* ** *
11980505 GTTAAAATGTTCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
11980532 GGTAAAATGACCGTAATGTCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
11980559 GGTAAAATGAC
1 GGTAAAATGAC
11980570 GATATACTGC
Statistics
Matches: 214, Mismatches: 35, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
25 4 0.02
26 33 0.15
27 174 0.81
28 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:11980734 original size:32 final size:32
Alignment explanation
Indices: 11980693--11980956 Score: 166
Period size: 32 Copynumber: 8.3 Consensus size: 32
11980683 GTGATGCTAT
*
11980693 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * * * *
11980725 TGATGGCTTTTATGGCAATCATAGTATTATTAC
1 TGATGGC-TTTGTGCCGATCATAGTACTGTTAC
* * * * *
11980758 TGATGCCTTTGTGTCGATCATATTACCGTTAT
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * *
11980790 TGATGG-TTGTGTGCTGATCAT-TTCACTATTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* * *
11980822 GGATGGCTGTGTGCTGATCATA-TCACTGTTAC
1 TGATGGCTTTGTGCCGATCATAGT-ACTGTTAC
* **
11980854 TGATGGCTTTGTGCTGATCAT-GTTACCATTAC
1 TGATGGCTTTGTGCCGATCATAG-TACTGTTAC
* * *
11980886 TAATGG-TTGTGTGCCAATCATA-TCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* * *
11980918 TAATGGCTTTGTGCC-ATCACATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
*
11980948 TTATGGCTT
1 TGATGGCTT
11980957 ATAGTCATTC
Statistics
Matches: 184, Mismatches: 36, Indels: 26
0.75 0.15 0.11
Matches are distributed among these distances:
30 11 0.06
31 16 0.09
32 128 0.70
33 29 0.16
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATAGTACTGTTAC
Found at i:11980885 original size:64 final size:64
Alignment explanation
Indices: 11980767--11980931 Score: 190
Period size: 64 Copynumber: 2.6 Consensus size: 64
11980757 CTGATGCCTT
* * * * * *
11980767 TGTGTCGATCATATTACCGTTATTGATGG-TTGTGTGCTGATCATTTCACTATTACGGATGGCTG
1 TGTGCCGATCATATCACTGTTACTGATGGCTT-TGTGCTGATCATTTCACCATTACGAATGGCTG
* * *
11980831 TGTGCTGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATGTT-ACCATTACTAATGGTTG
1 TGTGCCGATCATATCACTGTTACTGATGGCTTTGTGCTGATCAT-TTCACCATTACGAATGGCTG
* * *
11980895 TGTGCCAATCATATCACTGCTACTAATGGCTTTGTGC
1 TGTGCCGATCATATCACTGTTACTGATGGCTTTGTGC
11980932 CATCACATTA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 82 0.95
65 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (64 bp):
TGTGCCGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATTTCACCATTACGAATGGCTG
Found at i:11980924 original size:96 final size:95
Alignment explanation
Indices: 11980754--11980956 Score: 221
Period size: 96 Copynumber: 2.1 Consensus size: 95
11980744 CATAGTATTA
* * * * ** * *
11980754 TTACTGATGCCTTTGTGTCGATCATATTACCGTTATTGATGGTTGTGTGCTGATCATTTCACTAT
1 TTACTGATGGCTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTAC
* * *
11980819 TACGGATGGCTGTGTGCTGATCATATCACTG
66 TACGAATGGCTGTGTGC-CATCACATCACTG
* *
11980850 TTACTGATGGCTTTGTG-CTGATCATGTTACCATTACTAATGGTTGTGTGCCAATCATATCACTG
1 TTACTGATGGCTTTGTGTC-GATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTA
* * *
11980914 CTACTAATGGCTTTGTGCCATCACATTACTG
65 CTACGAATGGCTGTGTGCCATCACATCACTG
*
11980945 -TACTTATGGCTT
1 TTACTGATGGCTT
11980957 ATAGTCATTC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 11 0.12
95 11 0.12
96 67 0.75
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (95 bp):
TTACTGATGGCTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTAC
TACGAATGGCTGTGTGCCATCACATCACTG
Found at i:11980991 original size:22 final size:22
Alignment explanation
Indices: 11980948--11980994 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11980938 ATTACTGTAC
* *
11980948 TTATGGCTTATAGTCATTCTGT
1 TTATAGCTTATAGTCATCCTGT
11980970 TTATAGCTTATAG-CTATCCTGT
1 TTATAGCTTATAGTC-ATCCTGT
11980992 TTA
1 TTA
11980995 CGACTCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (22 bp):
TTATAGCTTATAGTCATCCTGT
Found at i:11981059 original size:26 final size:26
Alignment explanation
Indices: 11981013--11981064 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11981003 AGCCATTCTG
* *
11981013 ACTACTGGCAGCTCTACTACATTATT
1 ACTACTGGCAGCTATACTACAATATT
**
11981039 ACTACTGGCAGCTATGTTACAATATT
1 ACTACTGGCAGCTATACTACAATATT
11981065 GGTGTGAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (26 bp):
ACTACTGGCAGCTATACTACAATATT
Found at i:11982432 original size:31 final size:31
Alignment explanation
Indices: 11982394--11982454 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
11982384 AGCTAGGTAA
11982394 TCACCCATAATTAAGATTCGATTCACTCTAC
1 TCACCCATAATTAAGATTCGATTCACTCTAC
11982425 TCACCCATAATTAAGATTCGATTCACTCTA
1 TCACCCATAATTAAGATTCGATTCACTCTA
11982455 TTCTTCTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (31 bp):
TCACCCATAATTAAGATTCGATTCACTCTAC
Found at i:11997835 original size:27 final size:27
Alignment explanation
Indices: 11997805--11997982 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
11997795 ATATTGAGTC
* * * *
11997805 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
11997832 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11997859 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
11997887 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
11997914 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
11997941 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11997968 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11997983 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:11997944 original size:82 final size:81
Alignment explanation
Indices: 11997826--11997981 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
11997816 TGCTATATAA
* *
11997826 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
11997891 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11997908 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
11997972 CACTTAGTGC
65 CACTTAGTGC
11997982 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12008792 original size:48 final size:47
Alignment explanation
Indices: 12008722--12008822 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 47
12008712 TTCAATAGGG
12008722 GATAAATAGTATAAGATCGTAGACAGTAGAAGACCAAGTTTAGCAAT
1 GATAAATAGTATAAGATCGTAGACAGTAGAAGACCAAGTTTAGCAAT
* *
12008769 GATAAATAGTGATAAGAGT-GTAGACAGTGGAAGACCAAGTTTAGTAAT
1 GATAAATAGT-ATAAGA-TCGTAGACAGTAGAAGACCAAGTTTAGCAAT
12008817 GCATAA
1 G-ATAA
12008823 CATGATTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
47 10 0.20
48 34 0.69
49 5 0.10
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (47 bp):
GATAAATAGTATAAGATCGTAGACAGTAGAAGACCAAGTTTAGCAAT
Found at i:12010171 original size:39 final size:39
Alignment explanation
Indices: 12010117--12010194 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
12010107 TTGTGGGAAA
* *
12010117 AACACCATGGTGAATGTTGGAAGCTAACTCGAGGTTGTT
1 AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
12010156 AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
1 AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
12010195 TTTGCTGTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (39 bp):
AACACCAAGGTGAATGTTGGAAGCTAACTCGAGCTTGTT
Found at i:12010730 original size:152 final size:153
Alignment explanation
Indices: 12010453--12010749 Score: 569
Period size: 152 Copynumber: 1.9 Consensus size: 153
12010443 AATGTTGAGA
*
12010453 TAGTTAAATCGGGAAGTTTAAAAGCCAAGACGTTTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
1 TAGTTAAATCGGGAAGTTTAAAAGCCAAGACGTCTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
12010518 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
66 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
*
12010583 CCTTGTTGATTTGTTTGCTAAGT
131 CCCTGTTGATTTGTTTGCTAAGT
12010606 TAGTTAAATCGGGAAGTTTAAAAGCCAAGACGTCTAGGG-ATCAATAGTTGTGTCAAGTCCTTTG
1 TAGTTAAATCGGGAAGTTTAAAAGCCAAGACGTCTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
12010670 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
66 GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
12010735 CCCTGTTGATTTGTT
131 CCCTGTTGATTTGTT
12010750 AATAATTCCA
Statistics
Matches: 142, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
152 104 0.73
153 38 0.27
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (153 bp):
TAGTTAAATCGGGAAGTTTAAAAGCCAAGACGTCTAGGGTATCAATAGTTGTGTCAAGTCCTTTG
GGGCAGTCTATAATAGTGGATCAAGTGTGTAGGTGATGCCCGTTAGATATACAGAATATAACATT
CCCTGTTGATTTGTTTGCTAAGT
Found at i:12013032 original size:51 final size:50
Alignment explanation
Indices: 12012876--12013051 Score: 169
Period size: 51 Copynumber: 3.5 Consensus size: 50
12012866 CTAGGTCATG
* * * *
12012876 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATG-ATA-GGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGG-ATGAAAATGATCACA
* * * * ** *
12012926 TGTGTAATACTATGTGCAGGCTACTATGCGTACTGAAT-AACTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGATGAAAAT-GATCACA
*
12012977 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGCTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATGAAAATGATCACA
*
12013028 TGTGTAGTACTATGTGCAGACTAC
1 TGTGTAGTACTATGTGCAGGCTAC
12013052 CATGTGAACT
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
49 4 0.04
50 29 0.29
51 64 0.63
52 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGAAAATGATCACA
Found at i:12014868 original size:14 final size:14
Alignment explanation
Indices: 12014849--12014876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12014839 ATTTAATGAA
12014849 TATATTGAGCATAT
1 TATATTGAGCATAT
12014863 TATATTGAGCATAT
1 TATATTGAGCATAT
12014877 GAATGGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TATATTGAGCATAT
Found at i:12016970 original size:14 final size:13
Alignment explanation
Indices: 12016951--12016986 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
12016941 CATGAAAATT
12016951 AGAAAAGAAAGAAA
1 AGAAAAGAAAG-AA
12016965 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
*
12016978 CGAAAAGAA
1 AGAAAAGAA
12016987 GGAGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:12019083 original size:54 final size:54
Alignment explanation
Indices: 12019018--12019123 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
12019008 CGTATGACCT
* * *
12019018 AAGTCAGTGAGTTACACGGGT-AGAGACACGGGCTGAGACACAACCGTGTGTCTC
1 AAGTCAATGAGTTACACAGGTAAG-GACACAGGCTGAGACACAACCGTGTGTCTC
* **
12019072 AAGTCAATGAGTTACACAGGTAAGGACACAGGCTGGGACATGACCGTGTGTC
1 AAGTCAATGAGTTACACAGGTAAGGACACAGGCTGAGACACAACCGTGTGTC
12019124 CCAACTTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (54 bp):
AAGTCAATGAGTTACACAGGTAAGGACACAGGCTGAGACACAACCGTGTGTCTC
Found at i:12019514 original size:48 final size:48
Alignment explanation
Indices: 12019453--12019549 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
12019443 TTCAAGAAGG
* * * * *
12019453 GATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCAAT
1 GATAAATAATGATAAAAATGTAGACAATGAAAGACCAAGTTTAGCAAT
*
12019501 GATAAATAATGATAAAAATGTAGACAATGAAAGACCAAGTTTAGTAAT
1 GATAAATAATGATAAAAATGTAGACAATGAAAGACCAAGTTTAGCAAT
12019549 G
1 G
12019550 CATAGCATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.46, C:0.07, G:0.23, T:0.24
Consensus pattern (48 bp):
GATAAATAATGATAAAAATGTAGACAATGAAAGACCAAGTTTAGCAAT
Found at i:12020861 original size:50 final size:49
Alignment explanation
Indices: 12020781--12020954 Score: 271
Period size: 47 Copynumber: 3.5 Consensus size: 49
12020771 GATGGTCACG
* *
12020781 TGTGAAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCG-AATGATAGGTCGCA
12020831 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC--ATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATAGGTCGCA
* *
12020878 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGAT-A-GGTCGCA
12020929 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
12020955 TGTGAACCAA
Statistics
Matches: 116, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
47 47 0.41
49 4 0.03
50 33 0.28
51 32 0.28
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATAGGTCGCA
Found at i:12021021 original size:45 final size:45
Alignment explanation
Indices: 12020965--12021053 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
12020955 TGTGAACCAA
* * *
12020965 ACATCATTGATTAGTAAGGTGGTTGTTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
12021010 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
12021054 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:12026396 original size:32 final size:33
Alignment explanation
Indices: 12026339--12026400 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
12026329 AAATAAGATA
* * *
12026339 AAAATAGAAAAGTTTGTATATGTATATATTTAC
1 AAAATAAAAAAGTATGTATAAGTATATATTTAC
12026372 AAAATAAAAAAG-ATGTATAAGTATATATT
1 AAAATAAAAAAGTATGTATAAGTATATATT
12026401 GGTAAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (33 bp):
AAAATAAAAAAGTATGTATAAGTATATATTTAC
Found at i:12026643 original size:45 final size:45
Alignment explanation
Indices: 12026594--12026726 Score: 184
Period size: 45 Copynumber: 3.0 Consensus size: 45
12026584 AGGTAGACGT
12026594 ATACTATA-AAAAAA-GCATATATATATTATATAAAAAAATGCGTGC
1 ATACTATATAAAAAATGC--ATATATATTATATAAAAAAATGCGTGC
*
12026639 ATACTATATAAAAAATGCATATATATTATAT--AAAAACGCGTGC
1 ATACTATATAAAAAATGCATATATATTATATAAAAAAATGCGTGC
*
12026682 ATACTATATATAAAAATGCGTATATATTATTATAAAAAAATGCGT
1 ATACTATATA-AAAAATGCATATATATTA-TATAAAAAAATGCGT
12026727 ATGTATATTA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
43 21 0.27
44 17 0.22
45 24 0.30
46 6 0.08
47 11 0.14
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (45 bp):
ATACTATATAAAAAATGCATATATATTATATAAAAAAATGCGTGC
Found at i:12026661 original size:43 final size:46
Alignment explanation
Indices: 12026614--12026726 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 46
12026604 AAAAGCATAT
12026614 ATATATTA-TATAAAAAAATGCGTGCATACTATATA-AAAAATGC-
1 ATATATTATTATAAAAAAATGCGTGCATACTATATATAAAAATGCG
* *
12026657 ATATA-TATTATATAAAAACGCGTGCATACTATATATAAAAATGCG
1 ATATATTATTATAAAAAAATGCGTGCATACTATATATAAAAATGCG
12026702 TATATATTATTATAAAAAAATGCGT
1 -ATATATTATTATAAAAAAATGCGT
12026727 ATGTATATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
42 2 0.03
43 30 0.49
44 8 0.13
46 5 0.08
47 16 0.26
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.33
Consensus pattern (46 bp):
ATATATTATTATAAAAAAATGCGTGCATACTATATATAAAAATGCG
Found at i:12026715 original size:26 final size:24
Alignment explanation
Indices: 12026613--12026754 Score: 136
Period size: 23 Copynumber: 6.1 Consensus size: 24
12026603 AAAAAGCATA
12026613 TATATATTA-TATAAAAAAATGCG
1 TATATATTATTATAAAAAAATGCG
** *
12026636 TGCATACTA-TAT-AAAAAATGC-
1 TATATATTATTATAAAAAAATGCG
* *
12026657 -ATATA-TATTATATAAAAACGCG
1 TATATATTATTATAAAAAAATGCG
** * *
12026679 TGCATACTA-TATATAAAAATGCG
1 TATATATTATTATAAAAAAATGCG
12026702 TATATATTATTATAAAAAAATGCG
1 TATATATTATTATAAAAAAATGCG
12026726 TATGTATATTATTATAAAAAAATGCG
1 TA--TATATTATTATAAAAAAATGCG
12026752 TAT
1 TAT
12026755 GTATATATAG
Statistics
Matches: 97, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
19 2 0.02
20 6 0.06
21 7 0.07
22 9 0.09
23 31 0.32
24 18 0.19
26 24 0.25
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.35
Consensus pattern (24 bp):
TATATATTATTATAAAAAAATGCG
Found at i:12026755 original size:26 final size:25
Alignment explanation
Indices: 12026598--12026760 Score: 143
Period size: 26 Copynumber: 6.9 Consensus size: 25
12026588 AGACGTATAC
* *
12026598 TATAAAAAAA-GCATATATATATTA
1 TATAAAAAAATGCGTATGTATATTA
* *
12026622 TATAAAAAAATGCG--TGCATACTA
1 TATAAAAAAATGCGTATGTATATTA
*
12026645 TAT-AAAAAATGC--ATATATATTA
1 TATAAAAAAATGCGTATGTATATTA
* * *
12026667 TAT--AAAAACGCG--TGCATACTA
1 TATAAAAAAATGCGTATGTATATTA
*
12026688 TATATAAAAATGCGTA--TATATTA
1 TATAAAAAAATGCGTATGTATATTA
12026711 TTATAAAAAAATGCGTATGTATATTA
1 -TATAAAAAAATGCGTATGTATATTA
12026737 TTATAAAAAAATGCGTATGTATAT
1 -TATAAAAAAATGCGTATGTATAT
12026761 ATAGTAATAA
Statistics
Matches: 114, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
21 16 0.14
22 18 0.16
23 22 0.19
24 25 0.22
25 2 0.02
26 31 0.27
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (25 bp):
TATAAAAAAATGCGTATGTATATTA
Found at i:12026773 original size:3 final size:3
Alignment explanation
Indices: 12026765--12026814 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
12026755 GTATATATAG
* *
12026765 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TGA TAA -AA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
12026810 -AA TAA
1 TAA TAA
12026815 ACTAAAAACC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.85
4 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:12027265 original size:23 final size:22
Alignment explanation
Indices: 12027222--12027279 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12027212 AAAGGGTATC
* *
12027222 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12027243 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
12027266 TACATATCATATCT
1 TACAAATCATATCT
12027280 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12027282 original size:19 final size:19
Alignment explanation
Indices: 12027235--12027332 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
12027225 AAATTAAATC
*
12027235 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
12027255 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
12027277 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
12027298 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
12027317 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
12027333 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:12027295 original size:21 final size:21
Alignment explanation
Indices: 12027269--12027331 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
12027259 CTAAGATTAC
12027269 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
12027290 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
12027309 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
12027330 AT
1 AT
12027332 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:12028011 original size:217 final size:219
Alignment explanation
Indices: 12027697--12028153 Score: 611
Period size: 217 Copynumber: 2.1 Consensus size: 219
12027687 CTACTGCTAT
* * * * * * * *
12027697 TTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTGCAACTTTAGGGAGATGAGACTCGA
1 TTCAGGAGGATAAGACTTGATTACTTGAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
* * * * *
12027762 TGTGATCTACTCTACTGCAACTTCATAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAAC
66 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAAC
* ** * *
12027827 TTCAGGGAGACAGGATT-T-GTTTATTTA-GTAAGC-CACACTACAACTTCAAGGAGATAAGATT
131 TTCAGGAAGACAGGATTATCGGCT-TTAACCT--GCTC-CACTACAACTTCAAGGAGATAAGATT
*
12027888 CGCCATCTTCAGTCTGCCTCAGTGCAAC
192 CGCCATCTTCAGTCTGCCTCACTGCAAC
12027916 TTCAGGAGGATAAGACTTGATTACTT-AGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
1 TTCAGGAGGATAAGACTTGATTACTTGAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
* *
12027980 TGCGATCTGCTCT-CTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAAC
66 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAAC
* * * *
12028044 TTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCC
131 TTCAGGAAGACAGGATTATCGGCTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGATTCGCC
12028109 ATCTTCAGTCTGCCTCACTGCAAC
196 ATCTTCAGTCTGCCTCACTGCAAC
12028133 TTCAGGAGGATAAGACTTGAT
1 TTCAGGAGGATAAGACTTGAT
12028154 GCGATCTGCT
Statistics
Matches: 209, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
217 134 0.64
218 50 0.24
219 25 0.12
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (219 bp):
TTCAGGAGGATAAGACTTGATTACTTGAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAAC
TTCAGGAAGACAGGATTATCGGCTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGATTCGCC
ATCTTCAGTCTGCCTCACTGCAAC
Found at i:12028036 original size:84 final size:84
Alignment explanation
Indices: 12027948--12028228 Score: 293
Period size: 84 Copynumber: 3.3 Consensus size: 84
12027938 ACTTAGTCCG
* *
12027948 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
12028013 GATCCAAGGTTTTAATCCA
66 GATCCAAGGTTTTAATCCA
* * * *** * * *
12028032 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGAAGATAAGACTA---GATGCGATCTGCT-CTCTGCAACTTCAGAGAG
* *
12028097 ATAAGATTTGCC-A--TCTTCAGTCTGC-
62 ATAAGA--T-CCAAGGT-TTTAATC--CA
* *
12028122 CT-CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
12028186 GATCCAAGGTTTTAATCCA
66 GATCCAAGGTTTTAATCCA
*
12028205 CTCCACTGCAACTTTAGGAAGATA
1 CTCCACTGCAACTTCAGGAAGATA
12028229 GGATTATCGG
Statistics
Matches: 154, Mismatches: 28, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
82 3 0.02
83 4 0.03
84 51 0.33
85 23 0.15
86 8 0.05
87 8 0.05
88 22 0.14
89 28 0.18
90 4 0.03
91 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCA
Found at i:12028323 original size:173 final size:173
Alignment explanation
Indices: 12027951--12028324 Score: 687
Period size: 173 Copynumber: 2.2 Consensus size: 173
12027941 TAGTCCGCTC
* *
12027951 CACTGCAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
12028015 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
65 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
*
12028080 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
12028124 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
*
12028189 CCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
66 CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
*
12028254 CTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
131 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
12028297 CACTGCAACTTCAGGAGGATAAGACTTG
1 CACTGCAACTTCAGGAGGATAAGACTTG
12028325 CTTACTTAGT
Statistics
Matches: 195, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
173 194 0.99
174 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (173 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
Found at i:12028332 original size:390 final size:390
Alignment explanation
Indices: 12027719--12028541 Score: 1163
Period size: 390 Copynumber: 2.1 Consensus size: 390
12027709 AGGCTTGCTT
* * * *
12027719 TCTTGAGTCTG-CTCCACTGCAACTTTAGG-GAGATGAGACTCGATGTGATCTACTCTACTGCAA
1 TCTTCAGTCTGCCT-CACTGCAACTTTAGGAG-GATAAGACTTGATGCGATCTACTCTACTGCAA
* * * * * *
12027782 CTTCATAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGACAGGATTTGT
64 CTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATTTGG
* * * * *
12027847 TTATTTAGTAAGCCACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGCCTCAGTG
129 CTATTAACT-AGCCACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTG
*
12027912 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACT
193 CAACTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACT
* * *
12027977 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCA
258 AGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCA
*
12028042 ACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
323 ACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG
12028107 CCA
388 CCA
* *
12028110 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCT-CTGCAACT
1 TCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGATGCGATCTACTCTACTGCAACT
* *
12028174 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTATCGG
66 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATT-T-GG
** * *
12028239 CT-TTAACCT-GCTC-CACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACT
129 CTATTAA-CTAGC-CACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCTCACT
* * * * *
12028301 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCTATTACAACTTTAGGGAGATAAGAC
192 GCAACTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGAC
*** **
12028366 TAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCACTGC
257 TAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGC
* * *
12028431 AACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
322 AACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
*
12028496 GTCA
387 GCCA
12028500 TCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTG
1 TCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTG
12028542 CTTACTTAGC
Statistics
Matches: 383, Mismatches: 43, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
390 327 0.85
391 50 0.13
392 6 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (390 bp):
TCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGATGCGATCTACTCTACTGCAACT
TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATTTGGCT
ATTAACTAGCCACACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAA
CTTCAGGAGGATAAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGA
TGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACT
TCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCA
Found at i:12028389 original size:173 final size:172
Alignment explanation
Indices: 12027951--12028492 Score: 591
Period size: 173 Copynumber: 3.1 Consensus size: 172
12027941 TAGTCCGCTC
* * **
12027951 CACTGCAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGATACGATCTGCTCTCTACAACTTCAGAGAGATAAGA
* **
12028015 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
65 -CCAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
*
12028080 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
129 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
* *
12028124 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATACGATCTGCTCTCTACAACTTCAGAGAGATAAGA-
* ** *
12028189 CCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
65 CCAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
*
12028254 CTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
130 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
* * * * *
12028297 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCTATTACAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTG-ATAC-GA-TCTGCTCT-CTACAACTTCAGAGAGATA
* * * * * * **
12028362 AGA-CTA-GATGCGATCTACT-CTCTGCAACTTCA-GAGAGATAAGATCTGT-GATTTTAATCC-
62 AGACCAAGGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAGGAT-TATCGGCTTTAA-CCT
* * * ** *
12028421 GTTCCACTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG-CT
124 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
*
12028468 CCACTGCAACCTCAGG-GAGATAAGA
1 -CACTGCAACTTCAGGAG-GATAAGA
12028493 TTTGTCATCT
Statistics
Matches: 327, Mismatches: 32, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
171 3 0.01
172 36 0.11
173 244 0.75
174 15 0.05
175 3 0.01
176 8 0.02
177 18 0.06
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (172 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATACGATCTGCTCTCTACAACTTCAGAGAGATAAGAC
CAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCAC
TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
Found at i:12028644 original size:390 final size:389
Alignment explanation
Indices: 12027862--12028660 Score: 1070
Period size: 390 Copynumber: 2.0 Consensus size: 389
12027852 TAGTAAGCCA
* * * *
12027862 CACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGCCTCAGTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
* *
12027927 AAGACTTGATTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTC
66 AAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
* *
12027992 TCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
131 TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
*
12028057 GATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
196 GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
* * *
12028122 CTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
261 CTCACTGCAACTTCAGGAGGATAAGACTTGATACGACCTGCTCACTGCAACTTCAGAGAGATAAG
* ** * * * *
12028187 ATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTC
326 A-CCAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTGCTC
* *
12028252 CACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
* * * * *
12028317 AAGACTTGCTTACTTAGTCTGCTCTATTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTC
66 AAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
*** ** *
12028382 TCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCACTGCAACTTCAGGGAGATAG
131 TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
* * *
12028447 GATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAGTCTGC
196 GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
* * * *
12028512 CTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGA
261 CTCACTGCAACTTCAGGAGGATAAGACTTG-ATAC-GA-CCTGCT-CACTGCAACTTCAGAGAGA
* * ** * * *
12028577 TAAGA-CTA-GATGCGATCTGCT-CTCTGCAACTTCA-GAGATATAAGATCCA-AGGTTTTAATC
322 TAAGACCAAGGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-CATAGGCTTTAA-C
12028637 C-GCTC
384 CTGCTC
12028642 CACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGGAGA
12028661 CAAGGCTTTG
Statistics
Matches: 355, Mismatches: 47, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
389 2 0.01
390 311 0.88
391 12 0.03
392 3 0.01
393 5 0.01
394 22 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (389 bp):
CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGATTACTTAGTCCGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
CTCACTGCAACTTCAGGAGGATAAGACTTGATACGACCTGCTCACTGCAACTTCAGAGAGATAAG
ACCAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTGCTC
Found at i:12028657 original size:217 final size:217
Alignment explanation
Indices: 12028079--12028660 Score: 857
Period size: 217 Copynumber: 2.7 Consensus size: 217
12028069 TAACCTGCTC
* * *
12028079 CACTGCAACTTCAGG-GAGATAAGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTCA-GGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGCCTGCTC-CACTGCAACTTCAGGGA
* *
12028140 GGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
62 -GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCG
* * * *
12028205 CTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCAGGGAG
126 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAG
12028270 ATAAGATTTGCCATCTTCAATCTGCCT
191 ATAAGATTTGCCATCTTCAATCTGCCT
* * * * *
12028297 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCTATTACAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
* *** * *
12028362 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
* *
12028427 CTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAG
131 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAG
* *
12028492 ATTTGTCATCTTCAGTCTGCCT
196 ATTTGCCATCTTCAATCTGCCT
*
12028514 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
*
12028579 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGATATAAGATCCAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
12028644 CTGCAACTTCAGGGAGA
131 CTGCAACTTCAGGGAGA
12028661 CAAGGCTTTG
Statistics
Matches: 325, Mismatches: 35, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
217 290 0.89
218 33 0.10
219 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAG
ATTTGCCATCTTCAATCTGCCT
Found at i:12028708 original size:217 final size:212
Alignment explanation
Indices: 12028079--12028728 Score: 777
Period size: 217 Copynumber: 3.0 Consensus size: 212
12028069 TAACCTGCTC
* * *
12028079 CACTGCAACTTCAGG-GAGATAAGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTCA-GGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGCCTGCTC-CACTGCAACTTCAGGGA
* *
12028140 GGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
62 -GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCG
* * * * *
12028205 CTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCAGGGAG
126 CTCCACTGCAACTTCAGGGAGATAGGTTTGT-GGCTTTAATCTGCTCCAC--TAACTT--GGGAG
12028270 ATAAGATTTGCCATCTTCAATCTGCCT
186 ATAAGATTTGCCATCTTCAATCTGCCT
* * * * *
12028297 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCTATTACAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
* *** * *
12028362 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
* *
12028427 CTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAG
131 CTGCAACTTCAGGGAGATAGGTTTGT-GGCTTTAATCTGCTCCACT--AA-CT-TGGGAGATAAG
* *
12028492 ATTTGTCATCTTCAGTCTGCCT
191 ATTTGCCATCTTCAATCTGCCT
*
12028514 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
*
12028579 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGATATAAGATCCAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
* * * * *
12028644 CTGCAACTTCAGGGAGACAAGGCTTTGTGGCTTCAATCTACTTCCCACTATCTTGGAAAGATAAG
131 CTGCAACTTCAGGGAGA-TAGG-TTTGTGGCTTTAATCTGC-T-CCACTAACTTGG-GAGATAAG
** *
12028709 ATTTGCTGTCTTCGATCTGC
191 ATTTGCCATCTTCAATCTGC
12028729 TCCACTACTG
Statistics
Matches: 373, Mismatches: 46, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
215 1 0.00
216 2 0.01
217 308 0.83
218 50 0.13
219 7 0.02
220 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (212 bp):
CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
CTGCAACTTCAGGGAGATAGGTTTGTGGCTTTAATCTGCTCCACTAACTTGGGAGATAAGATTTG
CCATCTTCAATCTGCCT
Found at i:12028730 original size:390 final size:388
Alignment explanation
Indices: 12027862--12028753 Score: 989
Period size: 390 Copynumber: 2.3 Consensus size: 388
12027852 TAGTAAGCCA
* * * * * * * * *
12027862 CACTACAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGCCTCAGTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGACAAGATTTGCCAGCTTCAATCTACCTCA-CGCAACTTCAGGAAGAT
* * * * *
12027927 AAGACTTGATTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTC
65 AAGACTTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTC
* *
12027992 TCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
130 TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
*
12028057 GATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
195 GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
* * *
12028122 CTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
260 CTCACTGCAACTTCAGGAGGATAAGACTTGATACGACCTGCTCACTGCAACTTCAGAGAGATAAG
* ** * * * *
12028187 ATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTC
325 A-CCAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTGCTC
* * * * *
12028252 CACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGACAAGATTTGCCAGCTTCAATCTACCTCAC-GCAACTTCAGGAAGAT
* *
12028317 AAGACTTGCTTACTTAGTCTGCTCTATTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTC
65 AAGACTTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTC
*** ** *
12028382 TCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCCACTGCAACTTCAGGGAGATAG
130 TCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAG
* * *
12028447 GATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAGTCTGC
195 GATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC
* * * *
12028512 CTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGA
260 CTCACTGCAACTTCAGGAGGATAAGACTTG-ATAC-GA-CCTGCT-CACTGCAACTTCAGAGAGA
* * ** * * *
12028577 TAAGA-CTA-GATGCGATCTGCT-CTCTGCAACTTCA-GAGATATAAGATCCA-AGGTTTTAATC
321 TAAGACCAAGGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-CATAGGCTTTAA-C
12028637 C-GCTC
383 CTGCTC
* ** * *
12028642 CACTGCAACTTCAGGGAGACAAGGCTTTG-TGGCTTCAATCTACTTC-C-C-ACTATCTTGGAAA
1 CACTGCAACTTCAGGGAGACAA-GATTTGCCAGCTTCAATCTACCTCACGCAACT-TC-AGG-AA
* * **
12028703 GATAAGATTTGCTGT-CTTCGATCTGCTCCACTACTGC-TTAGGGAGATAAGA
62 GATAAGACTTGCT-TACTTAG-TCTGCTCCACTACAACTTTAGGGAGATAAGA
12028754 TCTACAATCT
Statistics
Matches: 426, Mismatches: 62, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
386 3 0.01
387 3 0.01
388 2 0.00
389 34 0.08
390 337 0.79
391 17 0.04
392 3 0.01
393 5 0.01
394 22 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (388 bp):
CACTGCAACTTCAGGGAGACAAGATTTGCCAGCTTCAATCTACCTCACGCAACTTCAGGAAGATA
AGACTTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTACTCT
CTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGG
ATTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCC
TCACTGCAACTTCAGGAGGATAAGACTTGATACGACCTGCTCACTGCAACTTCAGAGAGATAAGA
CCAAGGATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTGCTC
Found at i:12028751 original size:44 final size:44
Alignment explanation
Indices: 12028702--12029150 Score: 171
Period size: 44 Copynumber: 10.2 Consensus size: 44
12028692 TATCTTGGAA
*
12028702 AGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * * *
12028746 AGATAAGATCTACAATCTTCAACCTACTTCGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * **
12028790 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTTAGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
* * *
12028834 AGATAAGATTTG-TCATCTTCGATCAGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCT-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * ** * *
12028878 AGATAAGATCTACAATCTTCAACCTTCTCTGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
12028922 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* ** *
12028966 AGATAAGATTTGCCGTCTTTGATCTGCT-CATCTACTACTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCA-CTACTGCTTAGGG
* * ** * * * *
12029010 AGATAAGATCTACAATCTTCAACCTACTCCGCTACTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
12029054 AGACAAGGCTTGGTGGCTTAAATTTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
12029098 AGATAAGATTTGCCGTATTCGATCTGCTCCACTACTGCTTAGAG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
12029142 AGATAAGAT
1 AGATAAGAT
12029151 CTACAATCTT
Statistics
Matches: 270, Mismatches: 115, Indels: 40
0.64 0.27 0.09
Matches are distributed among these distances:
41 2 0.01
42 15 0.06
43 11 0.04
44 221 0.82
45 10 0.04
46 11 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:12028826 original size:132 final size:132
Alignment explanation
Indices: 12028652--12029200 Score: 920
Period size: 132 Copynumber: 4.2 Consensus size: 132
12028642 CACTGCAACT
* * * *
12028652 TCAGGGAGACAAGGCTTTGTGGCTTCAATCTACTTCCCACTATCTTGGAAAGATAAGATTTGCTG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
12028717 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTTCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
12028782 GC
131 GC
* * *
12028784 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGTCA
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
12028849 TCTTCGATCAGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCTGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
12028914 GC
131 GC
12028916 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
12028981 TCTTTGATCTGCT-CATCTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTAC
66 TCTTCGATCTGCTCCA-CTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
12029045 TGC
130 TGC
*
12029048 TCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
12029113 TATTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGTTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
12029178 GC
131 GC
12029180 TCAGGGAGACAAGGCTTGGTG
1 TCAGGGAGACAAGGCTTGGTG
12029201 TTTCACCAGT
Statistics
Matches: 388, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.01
132 384 0.99
133 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:12035136 original size:32 final size:33
Alignment explanation
Indices: 12035079--12035140 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
12035069 AAAAAAGATA
* * *
12035079 AAAATAGAAAAGTTTGTATATGTATATATTTAC
1 AAAATAAAAAAGTATGTATAAGTATATATTTAC
12035112 AAAATAAAAAAG-ATGTATAAGTATATATT
1 AAAATAAAAAAGTATGTATAAGTATATATT
12035141 GGTAAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (33 bp):
AAAATAAAAAAGTATGTATAAGTATATATTTAC
Found at i:12035384 original size:46 final size:45
Alignment explanation
Indices: 12035334--12035468 Score: 177
Period size: 44 Copynumber: 3.0 Consensus size: 45
12035324 AGGTAGATGT
12035334 ATACTATA-AAAAAAAGCATATATATATTATATAAAAAAATGCGTGC
1 ATACTATATAAAAAAAGC--ATATATATTATATAAAAAAATGCGTGC
*
12035380 ATACTATATAAAAAAATGCATATATATTATAT--AAAAACGCGTGC
1 ATACTATATAAAAAAA-GCATATATATTATATAAAAAAATGCGTGC
* *
12035424 ATACTATATATAAAAATGCGTATATATTATTATAAAAAAATGCGT
1 ATACTATATA-AAAAAAGCATATATATTA-TATAAAAAAATGCGT
12035469 ATGTATATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
44 32 0.41
45 8 0.10
46 21 0.27
47 16 0.20
48 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (45 bp):
ATACTATATAAAAAAAGCATATATATTATATAAAAAAATGCGTGC
Found at i:12035457 original size:26 final size:25
Alignment explanation
Indices: 12035338--12035501 Score: 109
Period size: 25 Copynumber: 6.9 Consensus size: 25
12035328 AGATGTATAC
* * *
12035338 TATAAAAAAAAGCATATATATATTA
1 TATATAAAAATGCGTATATATATTA
* **
12035363 TATAAAAAAATGCGTGCATACTA-TA
1 TATATAAAAATGCGTATATA-TATTA
12035388 TA-A-AAAAATGC--ATATATA-T-
1 TATATAAAAATGCGTATATATATTA
* ** *
12035407 TATATAAAAACGCG--TGCATACTA
1 TATATAAAAATGCGTATATATATTA
12035430 TATATAAAAATGCGTATATATTATTA
1 TATATAAAAATGCGTATATA-TATTA
*
12035456 TA-A-AAAAATGCGTATGTATATTA
1 TATATAAAAATGCGTATATATATTA
*
12035479 T-TATAAAAAATGCGTATGTATAT
1 TATAT-AAAAATGCGTATATATAT
12035502 ATAGTAATAA
Statistics
Matches: 113, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.02
20 4 0.04
21 14 0.12
22 1 0.01
23 28 0.25
24 15 0.13
25 41 0.36
26 8 0.07
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (25 bp):
TATATAAAAATGCGTATATATATTA
Found at i:12035492 original size:25 final size:24
Alignment explanation
Indices: 12035330--12035501 Score: 137
Period size: 23 Copynumber: 7.3 Consensus size: 24
12035320 ATATAGGTAG
* * *
12035330 ATGTATACTATA-AAAAAAAGCAT
1 ATGTATATTATATAAAAAATGCGT
*
12035353 ATATATATTATATAAAAAAATGCG-
1 ATGTATATTATAT-AAAAAATGCGT
* *
12035377 -TGCATACTATATAAAAAAATGC--
1 ATGTATATTATAT-AAAAAATGCGT
* *
12035399 ATATATATTATAT-AAAAACGCG-
1 ATGTATATTATATAAAAAATGCGT
* *
12035421 -TGCATACTATATATAAAAATGCGT
1 ATGTATATTATATA-AAAAATGCGT
*
12035445 ATATATTATTATA-AAAAAATGCGT
1 ATGTA-TATTATATAAAAAATGCGT
12035469 ATGTATATTATTATAAAAAATGCGT
1 ATGTATATTA-TATAAAAAATGCGT
12035494 ATGTATAT
1 ATGTATAT
12035502 ATAGTAATAA
Statistics
Matches: 119, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
21 16 0.13
23 51 0.43
24 16 0.13
25 30 0.25
26 6 0.05
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (24 bp):
ATGTATATTATATAAAAAATGCGT
Found at i:12035514 original size:3 final size:3
Alignment explanation
Indices: 12035506--12035564 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
12035496 GTATATATAG
* *
12035506 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAT TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12035553 TTAA TAA -AA TAA
1 -TAA TAA TAA TAA
12035565 ACTAAAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:12036008 original size:22 final size:21
Alignment explanation
Indices: 12035973--12036046 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 21
12035963 AAAGGGTATC
* *
12035973 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
12035994 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATC-TCTAAGAT
*
12036017 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
12036036 TGCATATCATA
1 TACAAATCATA
12036047 GCTAAGATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 17 0.38
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:12036018 original size:23 final size:22
Alignment explanation
Indices: 12035973--12036030 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12035963 AAAGGGTATC
* *
12035973 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
12035994 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATCTTCTAAGAT
*
12036017 TACATATCATATCT
1 TACAAATCATATCT
12036031 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12036041 original size:19 final size:19
Alignment explanation
Indices: 12036009--12036062 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
12035999 AATCATATCT
* *
12036009 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
12036028 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12036047 GCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12036063 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12036072 original size:17 final size:18
Alignment explanation
Indices: 12036019--12036072 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
12036009 TCTAATATTA
*
12036019 CATATCATATCTAAGATTG
1 CATATCATA-CGAAGATTG
*
12036038 CATATCATAGCTAAGATTG
1 CATATCATA-CGAAGATTG
*
12036057 CATATCCT-CGAAGATT
1 CATATCATACGAAGATT
12036073 ATGTTTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 7 0.22
19 25 0.78
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (18 bp):
CATATCATACGAAGATTG
Found at i:12037332 original size:10 final size:10
Alignment explanation
Indices: 12037319--12037374 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
12037309 ATTATTTTTT
12037319 TATTTTAAAA
1 TATTTTAAAA
12037329 TATTTTAAAA
1 TATTTTAAAA
**
12037339 TATTTT-TTA
1 TATTTTAAAA
12037348 -ATTTTAAAA
1 TATTTTAAAA
12037357 TATTTTTAAAA
1 TA-TTTTAAAA
12037368 TACTTTT
1 TA-TTTT
12037375 TTTTAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
8 5 0.13
9 2 0.05
10 17 0.45
11 14 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:12037348 original size:12 final size:10
Alignment explanation
Indices: 12037280--12037374 Score: 63
Period size: 11 Copynumber: 9.5 Consensus size: 10
12037270 AATTTTTTTA
12037280 ATTTTAAAAT
1 ATTTTAAAAT
12037290 ACTTTTAAAAT
1 A-TTTTAAAAT
** *
12037301 ACTTTTTTATT
1 A-TTTTAAAAT
**
12037312 ATTTT--TTT
1 ATTTTAAAAT
12037320 ATTTTAAAAT
1 ATTTTAAAAT
12037330 ATTTTAAAAT
1 ATTTTAAAAT
**
12037340 ATTTT-TTA-
1 ATTTTAAAAT
12037348 ATTTTAAAAT
1 ATTTTAAAAT
12037358 ATTTTTAAAAT
1 A-TTTTAAAAT
12037369 ACTTTT
1 A-TTTT
12037375 TTTTAATTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
8 12 0.18
9 2 0.03
10 22 0.32
11 32 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:12037405 original size:22 final size:21
Alignment explanation
Indices: 12037357--12037412 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
12037347 AATTTTAAAA
* **
12037357 TATTTTTAAAATACTTTTTTT
1 TATTTTTAAAATAATTTTTGG
12037378 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTTGG
12037401 TATTTATTAAAA
1 TATTT-TTAAAA
12037413 AATGGGCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 15 0.52
23 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:12038128 original size:28 final size:28
Alignment explanation
Indices: 12038071--12038128 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
12038061 CAGTTTTTCC
* * **
12038071 TAATTTGGTACCTAATTTTTTTTAGGTT
1 TAATTTGGTACCTAAATTTTTTAAACTT
12038099 TAATTTGGTACCTAAATTTTTTAAACTT
1 TAATTTGGTACCTAAATTTTTTAAACTT
12038127 TA
1 TA
12038129 TACAAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (28 bp):
TAATTTGGTACCTAAATTTTTTAAACTT
Found at i:12040611 original size:3 final size:3
Alignment explanation
Indices: 12040603--12040632 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12040593 AATATTTCAT
12040603 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12040633 GAACAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12044906 original size:11 final size:11
Alignment explanation
Indices: 12044892--12044917 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12044882 TTAAAAATAC
12044892 ATTATTTTAAA
1 ATTATTTTAAA
12044903 ATTATTTTAAA
1 ATTATTTTAAA
12044914 ATTA
1 ATTA
12044918 AACATGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTATTTTAAA
Found at i:12051582 original size:37 final size:37
Alignment explanation
Indices: 12051532--12051605 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
12051522 AGGGTTTGAT
12051532 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
1 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
12051569 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
1 AGATTAATTCATATTATTAACGAACAAATTAAGTACC
12051606 TAGGTAGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (37 bp):
AGATTAATTCATATTATTAACGAACAAATTAAGTACC
Found at i:12052002 original size:35 final size:35
Alignment explanation
Indices: 12051956--12052026 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
12051946 TATTCTCTAT
12051956 ACCCCGTTTTTATAAATCAATTGTAAAGATAAAGC
1 ACCCCGTTTTTATAAATCAATTGTAAAGATAAAGC
12051991 ACCCCGTTTTTATAAATCAATTGTAAAGATAAAGC
1 ACCCCGTTTTTATAAATCAATTGTAAAGATAAAGC
12052026 A
1 A
12052027 GTTGTACTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (35 bp):
ACCCCGTTTTTATAAATCAATTGTAAAGATAAAGC
Found at i:12054131 original size:54 final size:54
Alignment explanation
Indices: 12054038--12054143 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
12054028 ACCCATGTTT
* * * * *
12054038 TAAACCGTGTAACTCACTGAGTTATGTCACATGGTCGTGTCATAGGCCGTGTGC
1 TAAACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTGC
*
12054092 TAAACCGTGTAACTCACTGACTTGAT-ACACAAGGCCGTGTGATAGCCCGTGT
1 TAAACCGTGTAACTCACTGACTT-ATGACACAAGGCCGTGTCATAGCCCGTGT
12054144 CCCAAGCCGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (54 bp):
TAAACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTGC
Found at i:12054154 original size:54 final size:54
Alignment explanation
Indices: 12054039--12054155 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
12054029 CCCATGTTTT
* * * * * * *
12054039 AAACCGTGTAACTCACTGAGTTATGTCACATGGTCGTGTCATAGGCCGTGTGCT
1 AAACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTCCC
*
12054093 AAACCGTGTAACTCACTGACTTGAT-ACACAAGGCCGTGTGATAGCCCGTGTCCC
1 AAACCGTGTAACTCACTGACTT-ATGACACAAGGCCGTGTCATAGCCCGTGTCCC
*
12054147 AAGCCGTGT
1 AAACCGTGT
12054156 GCTCTATAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (54 bp):
AAACCGTGTAACTCACTGACTTATGACACAAGGCCGTGTCATAGCCCGTGTCCC
Found at i:12066835 original size:17 final size:18
Alignment explanation
Indices: 12066808--12066846 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
12066798 GTAAGTACGC
12066808 AAAACTTTTTCA-AAATTT
1 AAAACTTTTTCATAAA-TT
12066826 AAAA-TTTTTCATAAATT
1 AAAACTTTTTCATAAATT
12066843 AAAA
1 AAAA
12066847 AAAAAACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAACTTTTTCATAAATT
Found at i:12070304 original size:20 final size:20
Alignment explanation
Indices: 12070253--12070304 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
12070243 TTTAACTATG
*
12070253 ATTAAACTTAATCGCTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
12070274 ATTAAGA-TAATCACTTTGAT
1 ATTAA-ATTAATCACTTTAAT
12070294 ATTAAATTAAT
1 ATTAAATTAAT
12070305 AAAATGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 20 0.74
21 5 0.19
22 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:12075204 original size:17 final size:17
Alignment explanation
Indices: 12075182--12075215 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12075172 TTCTGGGATG
12075182 ACTATTCACCACTGAAA
1 ACTATTCACCACTGAAA
*
12075199 ACTATTCACCATTGAAA
1 ACTATTCACCACTGAAA
12075216 GAGATAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (17 bp):
ACTATTCACCACTGAAA
Found at i:12085165 original size:44 final size:45
Alignment explanation
Indices: 12085054--12085986 Score: 408
Period size: 44 Copynumber: 20.8 Consensus size: 45
12085044 AGATGGCGAA
* * ** *
12085054 TCTTATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGCCAATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * * * *
12085098 TCCTATCTCTCTAAAGTTTCAGTGGAACGGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * * *
12085142 TCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * *
12085187 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGGATGGAA-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT--AACAAG
** * *
12085232 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * *
12085277 TC-TATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * *
12085320 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGACGA-AAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA-CAAG
* * * *
12085365 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAA-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT--AACAAG
* * ** * *
12085410 TCTTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCAATAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* *
12085454 TC-TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
** ** * * *
12085497 TCTTGCCTCCCTG-AGTTTGCAGCAGAGCAGATTGACGATAGC-AG
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * * * * * ** * *
12085541 ATCTTGTCTTCTTGTACTAGCAGTGAAGTAGATCGAAGA-CACCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* ** * * * *
12085586 CCTTGCCTCCCTG-AGTTTGCAGCGGAGTAGACTGAAGATAAC-AG
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * * ** *
12085630 ATCTTGTCTTCCT-ATA-TTGGCAGCGAAGTAGATCGAAG-TTACAAG
1 -TCTTATCTCCCTGA-AGTT-GCAGTGGAGCAGATTAAAGATAACAAG
* * * * * *
12085675 TTTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC-AAG
* * * * *
12085720 TCTTATTTCCCTGAAGTTGCAGAGGAACAGATTGAAGCTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AT-AA-CA-AG
* ** * * *
12085770 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T---CATATCAAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * * * ** *
12085812 CCTTATCTCCATAAAGTTGTAGTGGAGCAGGTTGAAG-TTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
* * * * *
12085856 TCTTATCTCCCTGAAGTTGCAATAGAGTAGACTAAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC-AAG
* * ** * *
12085901 TATTATTTCTTTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AT-AA-CA-AG
12085951 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
12085987 CCCTATCTCC
Statistics
Matches: 658, Mismatches: 179, Indels: 97
0.70 0.19 0.10
Matches are distributed among these distances:
41 23 0.03
42 4 0.01
43 33 0.05
44 269 0.41
45 250 0.38
46 9 0.01
47 6 0.01
48 6 0.01
49 2 0.00
50 1 0.00
51 55 0.08
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAG
Found at i:12085199 original size:45 final size:45
Alignment explanation
Indices: 12085137--12085982 Score: 297
Period size: 45 Copynumber: 18.8 Consensus size: 45
12085127 GATTAAAGTT
*
12085137 ACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * *
12085182 ACAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGGATGGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA--AA
* * **
12085229 A-AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * * * * **
12085272 ATAATTC-TATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAG-TT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * *
12085315 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGACGAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * * *
12085360 GCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA--AA
* * * * **
12085407 A-AA-TCTTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * * * **
12085449 ATAATTC-TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAG-TT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
** ** * * *
12085492 ACAAGTCTTGCCTCCCTG-AGTTTGCAGCAGAGCAGATTGACGATA
1 ACAAGTCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGAAA
* * * * * * * * * *
12085537 GC-AGATCTTGTCTTCTTGTACTAGCAGTGAAGTAGA-TCGAAG-AC
1 ACAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGAAA
* * ** * * *
12085581 ACCAGCCTTGCCTCCCTG-AGTTTGCAGCGGAGTAGACTGAAGATA
1 ACAAGTCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGAAA
* * * * * **
12085626 AC-AGATCTTGTCTTCCT-ATA-TTGGCAGCGAAGTAGA-TCGAAG-TT
1 ACAAG-TCTTATCTCCCTGA-AGTT-GCAGTGGAGCAGACT-GAAGAAA
* * * *
12085670 ACAAGTTTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * * *
12085715 GCGAA-TCTTATTTCCCTGAAGTTGCAGAGGAACAGATTGAAGCTATAA
1 AC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--A-AA
* * ** * **
12085763 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-TCATATCAA
1 A-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGAAA
* * * ** **
12085811 AC----CTTATCTCCATAAAGTTGTAGTGGAGCAGGTTGAAG-TT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * * * * *
12085851 GCAAATCTTATCTCCCTGAAGTTGCAATAGAGTAGACTAAAGATA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* * * ** *
12085896 GCGAA-TATTATTTCTTTGAAGTTGCAGTGGAGCAGATTGAAGTTATAA
1 AC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--A-AA
*
12085944 ATTACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 A-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
12085983 TTAACCCTAT
Statistics
Matches: 590, Mismatches: 157, Indels: 102
0.69 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 24 0.04
42 4 0.01
43 29 0.05
44 206 0.35
45 248 0.42
46 9 0.02
47 5 0.01
48 7 0.01
49 2 0.00
50 2 0.00
51 53 0.09
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
Found at i:12085370 original size:178 final size:178
Alignment explanation
Indices: 12085042--12085545 Score: 742
Period size: 178 Copynumber: 2.8 Consensus size: 178
12085032 ATAGATTGAA
** * * *
12085042 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGCCAATAATCCTATCTC
1 GAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
* * * * * *
12085107 TCTAAAGTTTCAGTGGAACGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAG
66 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
12085172 ACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
131 ATTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
*
12085220 GAGGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
1 GAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
* *
12085285 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAG
66 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
12085350 ATTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
131 ATTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
* *
12085398 GAAGATGGAAAATCTTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
1 GAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
* ** **
12085462 CCTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTGCCTCCCTG-AGTTTGCAGCAGAGCA
66 CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAG-TTGCAGTGGAGCA
* *
12085526 GATTGACGATAGCAGATCTT
130 GATTGACGAAAGCAGGTCTT
12085546 GTCTTCTTGT
Statistics
Matches: 295, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
176 2 0.01
177 105 0.36
178 188 0.64
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
GAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTCTATCTC
CCTGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
ATTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT
Found at i:12085433 original size:133 final size:134
Alignment explanation
Indices: 12085145--12085485 Score: 334
Period size: 133 Copynumber: 2.6 Consensus size: 134
12085135 TTACAAGTCT
* * * * ** *
12085145 TATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAGT
* * * ** * *
12085210 GGGGCAGACTGAGGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
66 GGAGCAGATTGACGAAAGAAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAATA
12085275 ATTC
131 ATTC
* * * ** *
12085279 TATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAG-TTACAAGTCTTATCTCCTTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAGT
* * ** * *
12085343 GGAGTAGATTGACGAAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATG-GA
66 GGAGCAGATTGACGAAAGAAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGA-TGAA-A-GCCA
12085407 A-AA-TC
128 ATAATTC
* * * *
12085412 TTATCTCCCTAAAGTT-TAGTGGAGCAGATTAAAGCCAATAATTC-TATCTCCCTGAGGTTGCAG
1 -TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAG
12085475 TGGAGCAGATT
65 TGGAGCAGATT
12085486 AAAGTTACAA
Statistics
Matches: 169, Mismatches: 33, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
133 113 0.67
134 52 0.31
135 3 0.02
136 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (134 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGATTGACGAAAGAAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAATA
ATTC
Found at i:12085695 original size:89 final size:89
Alignment explanation
Indices: 12085487--12085714 Score: 260
Period size: 89 Copynumber: 2.6 Consensus size: 89
12085477 GAGCAGATTA
* * * *
12085487 AAGTTACAAGTCTTGCCTCCCTGAGTTTGCAGCAGAGCAGATTGACGATAGCAGATCTTGTCTTC
1 AAGTTACAAGTCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTC
* * *
12085552 TTGTACTAGCAGTGAAGTAGATCG
66 CTATACTAGCAGCGAAGTAGATCG
** * * *
12085576 AAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCGGAGTAGACTGAAGATAACAGATCTTGTCTTC
1 AAGTTACAAGTCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTC
* *
12085641 CTATATTGGCAGCGAAGTAGATCG
66 CTATACTAGCAGCGAAGTAGATCG
* ** * * *
12085665 AAGTTACAAGTTTTATCTCTCTGAAG-TTGCAGTGGAGCAAACTGAAGATA
1 AAGTTACAAGTCTTGCCTCCCTG-AGTTTGCAGCGGAGCAGACTGAAGATA
12085715 GCGAATCTTA
Statistics
Matches: 113, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
89 111 0.98
90 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (89 bp):
AAGTTACAAGTCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTC
CTATACTAGCAGCGAAGTAGATCG
Found at i:12085785 original size:96 final size:95
Alignment explanation
Indices: 12085677--12085980 Score: 286
Period size: 96 Copynumber: 3.3 Consensus size: 95
12085667 GTTACAAGTT
* *
12085677 TTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCATGAAGTTGCAG
* *
12085742 AGGAACAGATTGAAGCTATAAATTACAGATC
66 TGGAGCAGATTGAAG-TATAAATTACAGATC
* * * ** * * * * * *
12085773 TTATCTCTCTGAAGTTGCAGT--A--AAGCAGATCATATCAAACCTTATCTCCATAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCATGAAGTTGCAG
* * *
12085834 TGGAGCAGGTTGAAG------TTGCAAATC
66 TGGAGCAGATTGAAGTATAAATTACAGATC
* * * * * * **
12085858 TTATCTCCCTGAAGTTGCAATAGAGTAGACTAAAGATAGCGAATATTATTTCTTTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCATGAAGTTGCAG
12085923 TGGAGCAGATTGAAGTTATAAATTACAGATC
66 TGGAGCAGATTGAAG-TATAAATTACAGATC
12085954 TTATCTCCCTGAAGTTGCAGTGGAGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCA
12085981 GATTAACCCT
Statistics
Matches: 158, Mismatches: 39, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
85 26 0.16
87 1 0.01
89 38 0.24
92 40 0.25
94 1 0.01
96 52 0.33
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (95 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCATGAAGTTGCAG
TGGAGCAGATTGAAGTATAAATTACAGATC
Found at i:12086275 original size:13 final size:13
Alignment explanation
Indices: 12086254--12086287 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12086244 TTCTTTTTAC
*
12086254 AAACCCAAATTTA
1 AAACCCAAATCTA
*
12086267 AAGCCCAAATCTA
1 AAACCCAAATCTA
12086280 AAACCCAA
1 AAACCCAA
12086288 TAAACAGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.29, G:0.03, T:0.15
Consensus pattern (13 bp):
AAACCCAAATCTA
Found at i:12094252 original size:30 final size:30
Alignment explanation
Indices: 12094216--12094276 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
12094206 CTATTTCCAG
12094216 GATCCACACGGGCTGGCTACACGCCCATGT
1 GATCCACACGGGCTGGCTACACGCCCATGT
* *
12094246 GATCCACACGGGTTGGCTACATGCCCATGT
1 GATCCACACGGGCTGGCTACACGCCCATGT
12094276 G
1 G
12094277 CCAGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (30 bp):
GATCCACACGGGCTGGCTACACGCCCATGT
Found at i:12095119 original size:14 final size:14
Alignment explanation
Indices: 12095100--12095129 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12095090 ATTGTGTTCG
12095100 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
12095114 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
12095128 TA
1 TA
12095130 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:12100775 original size:14 final size:14
Alignment explanation
Indices: 12100756--12100785 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12100746 GCTGCGTTCG
12100756 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
12100770 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
12100784 TA
1 TA
12100786 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:12117928 original size:20 final size:21
Alignment explanation
Indices: 12117881--12117927 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
12117871 AAAAAAGCAG
* *
12117881 AAAAAAGCAAATAGCGCAAAA
1 AAAAAAGAAAAAAGCGCAAAA
12117902 AAAAAAGAAAAAAGCGCAAAA
1 AAAAAAGAAAAAAGCGCAAAA
12117923 AAAAA
1 AAAAA
12117928 GTTGCCTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.74, C:0.11, G:0.13, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAAAAAGCGCAAAA
Found at i:12130516 original size:13 final size:13
Alignment explanation
Indices: 12130498--12130522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12130488 ACAAACGATA
12130498 AAATTTTCACACG
1 AAATTTTCACACG
12130511 AAATTTTCACAC
1 AAATTTTCACAC
12130523 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:12136066 original size:9 final size:9
Alignment explanation
Indices: 12136052--12136094 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
12136042 TTTGGTTAAA
12136052 AATTACCCG
1 AATTACCCG
12136061 AATTACCCG
1 AATTACCCG
* *
12136070 AATTAACTG
1 AATTACCCG
*
12136079 AATTAACCG
1 AATTACCCG
12136088 AATTACC
1 AATTACC
12136095 GAAAAATACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:12136237 original size:40 final size:39
Alignment explanation
Indices: 12136193--12136281 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
12136183 GACTTTAGTA
*
12136193 AATTGGGTTGTCTTTTAGTTTTAATTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAGTTTTAATTTTATTGGATTGGGT
** * *
12136233 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAGTTTTAATTTTATTGGATTGGGT
12136272 AATTGGGTTG
1 AATTGGGTTG
12136282 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGTTTTAATTTTATTGGATTGGGT
Found at i:12136278 original size:13 final size:13
Alignment explanation
Indices: 12136260--12136289 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12136250 TTTTAGTTTT
12136260 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
12136273 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
12136286 ATTG
1 ATTG
12136290 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:12136365 original size:131 final size:131
Alignment explanation
Indices: 12136213--12136470 Score: 516
Period size: 131 Copynumber: 2.0 Consensus size: 131
12136203 TCTTTTAGTT
12136213 TTAATTTTATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGG
1 TTAATTTTATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGG
12136278 GTTGGGTAATTGAGTTTGGGCTGGGTTGGATAATTTTATTTATTAATTTTTTCGGTTAACCGAAA
66 GTTGGGTAATTGAGTTTGGGCTGGGTTGGATAATTTTATTTATTAATTTTTTCGGTTAACCGAAA
12136343 A
131 A
12136344 TTAATTTTATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGG
1 TTAATTTTATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGG
12136409 GTTGGGTAATTGAGTTTGGGCTGGGTTGGATAATTTTATTTATTAATTTTTTCGGTTAACCG
66 GTTGGGTAATTGAGTTTGGGCTGGGTTGGATAATTTTATTTATTAATTTTTTCGGTTAACCG
12136471 TCCGGTTTCG
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 127 1.00
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (131 bp):
TTAATTTTATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGG
GTTGGGTAATTGAGTTTGGGCTGGGTTGGATAATTTTATTTATTAATTTTTTCGGTTAACCGAAA
A
Found at i:12136409 original size:13 final size:13
Alignment explanation
Indices: 12136391--12136420 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12136381 TTTTAGTTTT
12136391 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
12136404 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
12136417 ATTG
1 ATTG
12136421 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:12138264 original size:41 final size:41
Alignment explanation
Indices: 12138218--12138298 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
12138208 ACTTTATATT
**
12138218 AATGTATCAAGCATTATGCCTAGCAGGCTTTATGCCGGTGA
1 AATGTATCAAGCATTATGCCTAGCAGGCTACATGCCGGTGA
* * *
12138259 AATGTATTATGCTTTATGCCTAGCAGGCTACATGCCGGTG
1 AATGTATCAAGCATTATGCCTAGCAGGCTACATGCCGGTG
12138299 TACCCTATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
AATGTATCAAGCATTATGCCTAGCAGGCTACATGCCGGTGA
Found at i:12138314 original size:41 final size:41
Alignment explanation
Indices: 12138222--12138328 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
12138212 TATATTAATG
* ** **
12138222 TATCAAGCATTATGCCTAGCAGGCTTTATGCCGGTGAAATG
1 TATCAAGCTTTATGCCTAGCAGGCTACATGCCGGTGAAACC
* * * *
12138263 TATTATGCTTTATGCCTAGCAGGCTACATGCCGGTGTACCC
1 TATCAAGCTTTATGCCTAGCAGGCTACATGCCGGTGAAACC
* *
12138304 TATCAGGCTTTATTCCTAGCAGGCT
1 TATCAAGCTTTATGCCTAGCAGGCT
12138329 TGGTACCAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (41 bp):
TATCAAGCTTTATGCCTAGCAGGCTACATGCCGGTGAAACC
Found at i:12153896 original size:22 final size:21
Alignment explanation
Indices: 12153834--12153896 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
12153824 AGCTGCCAAT
12153834 TAACAGAACGGCTAAAAGCCA
1 TAACAGAACGGCTAAAAGCCA
* * *
12153855 TAAGCAGAAAGGC-AGTAAGCCT
1 TAA-CAGAACGGCTA-AAAGCCA
*
12153877 TGAACAGAACGGCTACAAGC
1 T-AACAGAACGGCTAAAAGC
12153897 TATACACTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 4 0.12
22 26 0.79
23 3 0.09
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (21 bp):
TAACAGAACGGCTAAAAGCCA
Found at i:12154052 original size:27 final size:27
Alignment explanation
Indices: 12154022--12154089 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
12154012 AGGTAAAATA
*
12154022 GTCATTCTACCCATTAG-GGGTATATTC
1 GTCATTTTACCCATTAGAGGGTAT-TTC
*
12154049 GTCATTTTACCCA-TCGAGGGTATTTC
1 GTCATTTTACCCATTAGAGGGTATTTC
12154075 GATCATTTTACCCAT
1 G-TCATTTTACCCAT
12154090 CGGTGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCATTAGAGGGTATTTC
Found at i:12154087 original size:54 final size:55
Alignment explanation
Indices: 12154023--12154152 Score: 133
Period size: 54 Copynumber: 2.4 Consensus size: 55
12154013 GGTAAAATAG
* ***
12154023 TCATTCTACCCATTAGGGGTATAT-TCGTCATTTTACCCATCGAGGGTATTTCGA
1 TCATTTTACCCATTAGGGGTATATAAAATCATTTTACCCATCGAGGGTATTTCGA
* *
12154077 TCATTTTACCCA-TCGGTGGTA-ATAAAATCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCATTAGG-GGTATATAAAATCATTTTACCCATCGAGGGTATTTCGA
* **
12154131 -CAATTTTTCCCATCGGGGGTAT
1 TC-ATTTTACCCATTAGGGGTAT
12154153 TTTGATAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
53 6 0.10
54 54 0.87
55 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (55 bp):
TCATTTTACCCATTAGGGGTATATAAAATCATTTTACCCATCGAGGGTATTTCGA
Found at i:12154090 original size:27 final size:27
Alignment explanation
Indices: 12154039--12154168 Score: 131
Period size: 27 Copynumber: 4.8 Consensus size: 27
12154029 TACCCATTAG
12154039 GGGTATATTCG-TCATTTTACCCATCGA
1 GGGTAT-TTCGATCATTTTACCCATCGA
12154066 GGGTATTTCGATCATTTTACCCATCG-
1 GGGTATTTCGATCATTTTACCCATCGA
* *** *
12154092 GTGGTAATAAAATCATTTTACCCTTCGA
1 G-GGTATTTCGATCATTTTACCCATCGA
* *
12154120 GGGTATTTCGA-CAATTTTTCCCATCGG
1 GGGTATTTCGATC-ATTTTACCCATCGA
* *
12154147 GGGTATTTTGATAATTTTACCC
1 GGGTATTTCGATCATTTTACCC
12154169 TATAGGGGCA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.07
27 76 0.92
28 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCATCGA
Found at i:12154164 original size:54 final size:54
Alignment explanation
Indices: 12154052--12154169 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
12154042 TATATTCGTC
* * *
12154052 ATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATCGGTGGTAATAAAATC
1 ATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCATCGGGGGTAATAAAATA
* * ***
12154106 ATTTTACCCTTCGAGGGTATTTCGA-CAATTTTTCCCATCGGGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATC-ATTTTACCCATCGGGGGTAATAAAATA
12154160 ATTTTACCCT
1 ATTTTACCCT
12154170 ATAGGGGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 54 0.98
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCATCGGGGGTAATAAAATA
Found at i:12154176 original size:27 final size:27
Alignment explanation
Indices: 12154106--12154176 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
12154096 TAATAAAATC
*
12154106 ATTTTACCCT-TCGAGGGTATTTCGACA
1 ATTTTACCCTATAG-GGGTATTTCGACA
* * * *
12154133 ATTTTTCCC-ATCGGGGGTATTTTGATA
1 ATTTTACCCTAT-AGGGGTATTTCGACA
12154160 ATTTTACCCTATAGGGG
1 ATTTTACCCTATAGGGG
12154177 CATTACGGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 32 0.91
28 3 0.09
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGACA
Found at i:12156350 original size:152 final size:152
Alignment explanation
Indices: 12156117--12156417 Score: 523
Period size: 152 Copynumber: 2.0 Consensus size: 152
12156107 GACATACTTT
*
12156117 TGTGCAAAGTATCCTAACCGTTCCCTTGCTCACGGCCCAATACTTCTAGGCCCAAATTCTTGGGC
1 TGTGCAAAGTATCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATTCTTGGGC
* *
12156182 GTTACAATTCTACCCCCTTAAAGAAATTTCGTCCTTGAAATTTGCAACTATCATAACAGTCGCAC
66 ATTACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTGCAACTATCATAACAGTCGCAC
12156247 ATCCTCGCCTCCCACACTACAC
131 ATCCTCGCCTCCCACACTACAC
* *
12156269 TGTGCACAGTTTCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATT-TTGGGG
1 TGTGCAAAGTATCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATTCTT-GGG
* *
12156333 CATTACAATTTTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTTCAACTATCATAACAGTCGCA
65 CATTACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTGCAACTATCATAACAGTCGCA
12156398 CATCCTCGCCTCCCACACTA
130 CATCCTCGCCTCCCACACTA
12156418 TGCTCTCGTT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
151 2 0.01
152 139 0.99
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (152 bp):
TGTGCAAAGTATCCTAACCGTTCCCTTGCTCAAGGCCCAATACTTCTAGGCCCAAATTCTTGGGC
ATTACAATTCTACCCCCTTAAAGAAATTTCGTCCTCGAAATTTGCAACTATCATAACAGTCGCAC
ATCCTCGCCTCCCACACTACAC
Found at i:12157925 original size:27 final size:27
Alignment explanation
Indices: 12157895--12158037 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
12157885 TATATCTGTT
* *
12157895 ATTTTACCCATCAAGGGTATTTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATA
* * *
12157922 ATTTTACCCATCGGGGGTAATTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATA
* * *
12157949 ATTTTACCCTTCGAGGGCATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
12157976 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* * * *
12158003 ATTTTTCCCATCGGGGGTATTTAGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
12158030 ATTTTACC
1 ATTTTACC
12158038 TTACAGGGGC
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:12160543 original size:18 final size:18
Alignment explanation
Indices: 12160517--12160552 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12160507 AGAATTCAAA
* *
12160517 TTCTTTTATTTATTATTT
1 TTCTCTTATTAATTATTT
12160535 TTCTCTTATTAATTATTT
1 TTCTCTTATTAATTATTT
12160553 AGAGATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTCTTATTAATTATTT
Found at i:12161282 original size:19 final size:19
Alignment explanation
Indices: 12161246--12161290 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
12161236 CAAAAAAAAT
*
12161246 AATATTAAATTTTATATTA
1 AATATTAAATATTATATTA
12161265 AATA-TAAATATTATTATTA
1 AATATTAAATATTA-TATTA
12161284 AAT-TTAA
1 AATATTAA
12161291 TGTTATTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTAAATATTATATTA
Found at i:12161818 original size:21 final size:22
Alignment explanation
Indices: 12161778--12161825 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
12161768 TATATAGTTT
12161778 ATAAATTTTTATATTAAATTTG
1 ATAAATTTTTATATTAAATTTG
*
12161800 ATAAATTTTTAT-TTTAATTTG
1 ATAAATTTTTATATTAAATTTG
12161821 ATAAA
1 ATAAA
12161826 CTAATACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATAAATTTTTATATTAAATTTG
Found at i:12162678 original size:22 final size:23
Alignment explanation
Indices: 12162635--12162678 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12162625 TAATTTGATA
*
12162635 AAATAAAAAAATTACATTTTAAG
1 AAATAAAAAAATTACATCTTAAG
* *
12162658 AAATTAAAAAGTTA-ATCTTAA
1 AAATAAAAAAATTACATCTTAA
12162679 TTCCACATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATAAAAAAATTACATCTTAAG
Found at i:12167653 original size:91 final size:89
Alignment explanation
Indices: 12167496--12167698 Score: 237
Period size: 91 Copynumber: 2.3 Consensus size: 89
12167486 ACACTCTAGT
* * * * * *
12167496 TTGTGGATGAACCACCAGTG-TTGCAGGTTAATACGCTGCTAGTAGTTGCAAATACACAACAGGT
1 TTGTGGATGAACCACTAGTGTTTGCAGGTTAATAAGCTACCAGTAGTTACAAATACACAACAAGT
*
12167560 TTGCAGATAAAAATTGCCAGTAAAAA
66 TTGCAAATAAAAATTGCCAGT--AAA
* ***
12167586 TTGTGGATGAACCACTAGTGTTTGTAGGTTAATAAGCTACCAGTAGTTATGGATACACAACAAGT
1 TTGTGGATGAACCACTAGTGTTTGCAGGTTAATAAGCTACCAGTAGTTACAAATACACAACAAGT
* *
12167651 TTGCAAATAAAAATTTCCAGTAAG
66 TTGCAAATAAAAATTGCCAGTAAA
* *
12167675 TTCGTGGATAAACCACTAATGTTT
1 TT-GTGGATGAACCACTAGTGTTT
12167699 ACAGATAAAC
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
89 4 0.04
90 38 0.40
91 54 0.56
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (89 bp):
TTGTGGATGAACCACTAGTGTTTGCAGGTTAATAAGCTACCAGTAGTTACAAATACACAACAAGT
TTGCAAATAAAAATTGCCAGTAAA
Done.