Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 6 of 28
Found at i:905727 original size:16 final size:16
Alignment explanation
Indices: 905701--905733 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
905691 CAAGAAAGGT
905701 TATTGGCAGCA-ATGA
1 TATTGGCAGCAGATGA
905716 TATTGTGCAGCAGATGA
1 TATTG-GCAGCAGATGA
905733 T
1 T
905734 GATAATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (16 bp):
TATTGGCAGCAGATGA
Found at i:906945 original size:53 final size:53
Alignment explanation
Indices: 906846--907304 Score: 418
Period size: 53 Copynumber: 8.8 Consensus size: 53
906836 AGGGTACCAA
* * *
906846 CGACATTGGACTTTAAAAGATGATAAAGGGT-CTAATATGCTGATTCAAAGCCATG
1 CGACATCGGACTTT-AAAGATGAT-AAGGGTGCCAATGTGCTGATTCAAAGCCA-G
* * * * *
906901 -GACATTGGACTTTAAAGATGATAAGGGTGCTAGTGTACTAATTCAAAGCCAG
1 CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
* * * * * *
906953 CGACATCGGACTTAAAAGATGATAAGGGTGCTAACGTGCTGATTCTAGGCCAA
1 CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
* * * * * *
907006 CGACATCGAACTTTAAAGATGATATGGGTGCCAATGTACTGATTCTAGGCCAA
1 CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
** * *
907059 CGACATCAAACTTTAAAGATGATAAGGGTGCCAATATGCTGATT-TAAGACCAG
1 CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAG-CCAG
* ** * * *
907112 CAACATTAGATTTTAAAGATGATAAAGGTG-C---GTGCTAATTCAAAGCCAG
1 CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
* *
907161 CGACATCGGA-TTTAAAAGATGATAAGGGTGCCAATGTGTTGATTCAAGGCCAG
1 CGACATCGGACTTT-AAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
* * ** * *
907214 CGACATTGGACTTTAAAGATG-CAAGTCTGCCAATGTGATGATTCAAGGCCAG
1 CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
* * *
907266 CGACAT-TGA-TCTTAAGGATGATGAGGGTGCCAATGTGCT
1 CGACATCGGACT-TTAAAGATGATAAGGGTGCCAATGTGCT
907305 TGTCGCAACA
Statistics
Matches: 340, Mismatches: 52, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
48 3 0.01
49 33 0.10
50 5 0.01
51 10 0.03
52 57 0.17
53 216 0.64
54 16 0.05
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (53 bp):
CGACATCGGACTTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAAGCCAG
Found at i:907686 original size:19 final size:18
Alignment explanation
Indices: 907661--907725 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
907651 ATTTCAACGA
907661 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
907679 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
907695 -TT-TATCGATACATAAG
1 TTTGTATCGATACATAAG
907711 TTTTGTATCGATACA
1 -TTTGTATCGATACA
907726 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 7 0.17
14 2 0.05
15 4 0.10
17 4 0.10
18 3 0.08
19 20 0.50
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:907701 original size:32 final size:32
Alignment explanation
Indices: 907663--907738 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
907653 TTCAACGATT
*
907663 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
907695 TTTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
907727 TGTATCGCTACA
1 TGTATCGATACA
907739 AAACTACTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:907796 original size:13 final size:13
Alignment explanation
Indices: 907778--907802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
907768 ATTACTCAAA
907778 TGTATCGATACAT
1 TGTATCGATACAT
907791 TGTATCGATACA
1 TGTATCGATACA
907803 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:914072 original size:20 final size:21
Alignment explanation
Indices: 914024--914081 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
914014 TATAATGAGA
914024 AATGTATCGATACAATTGTAAG
1 AATGTATCGATAC-ATTGTAAG
* *
914046 CATGTATCGATACATT-TAAT
1 AATGTATCGATACATTGTAAG
914066 AATGTATCGATACATT
1 AATGTATCGATACATT
914082 CCCTTGACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 18 0.55
21 3 0.09
22 12 0.36
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTGTAAG
Found at i:914468 original size:53 final size:53
Alignment explanation
Indices: 914405--914640 Score: 246
Period size: 52 Copynumber: 4.5 Consensus size: 53
914395 GGTGTCTTCA
* *
914405 GTGTTGATTCAAGGCCAACGACATTGGACTTTAAAGATGATAAGAGTGCCAAC
1 GTGTTGATTCAAGGCCAACGACATTGGACTTTAAAGATGACAAGAGTGCCAAT
* *
914458 GTGTTGATTCAAGGCCAGCGATATTGGACTTTAAAGATGACAAG-GTTGCCAAT
1 GTGTTGATTCAAGGCCAACGACATTGGACTTTAAAGATGACAAGAG-TGCCAAT
* * * * * * * * *
914511 ATGCTAATTCAAGGCTAACGACATT-AATTTTAAGGATGACGAGGGTGCCAAT
1 GTGTTGATTCAAGGCCAACGACATTGGACTTTAAAGATGACAAGAGTGCCAAT
* * * * *
914563 GTGCTGATTCAAGGCTAGA-GACATTGGAC-TTAAAGATAATAAGAGTGTCAAT
1 GTGTTGATTCAAGGCCA-ACGACATTGGACTTTAAAGATGACAAGAGTGCCAAT
* *
914615 ATGTTGATTCAAGGTCAACGACATTG
1 GTGTTGATTCAAGGCCAACGACATTG
914641 AGCTTATGAA
Statistics
Matches: 150, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
51 1 0.01
52 80 0.53
53 69 0.46
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (53 bp):
GTGTTGATTCAAGGCCAACGACATTGGACTTTAAAGATGACAAGAGTGCCAAT
Found at i:914801 original size:33 final size:33
Alignment explanation
Indices: 914764--914829 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
914754 GCGGACTTTG
*
914764 AGAAATGATGCAACCAACTTGTGTGGGCATTTA
1 AGAAAGGATGCAACCAACTTGTGTGGGCATTTA
* * *
914797 AGAAAGGATGCCACTAACTTGTGTGGGCTTTTA
1 AGAAAGGATGCAACCAACTTGTGTGGGCATTTA
914830 GGTGTCGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (33 bp):
AGAAAGGATGCAACCAACTTGTGTGGGCATTTA
Found at i:914875 original size:59 final size:59
Alignment explanation
Indices: 914797--914946 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 59
914787 TGGGCATTTA
* *** * * *
914797 AGAAAGGATGCCACTAACTTGTGTGGGCTTTTAGGTGTCGCTAG-CTTGTGC-GAACTTTG
1 AGAAAGGATGCCACCAACTTGTGTGGGCTTTTAGGCACCGCCAGCCCT-TACAG-ACTTTG
* * *
914856 AGAAAAGATGCCACCAACTTGTGTGAGGTTTTTGGGCACCGCCAGCCCTTACAGACTTTG
1 AGAAAGGATGCCACCAACTTGTGTG-GGCTTTTAGGCACCGCCAGCCCTTACAGACTTTG
*
914916 AGAAAGGATGCCACCAACTTGTGTGGACTTT
1 AGAAAGGATGCCACCAACTTGTGTGGGCTTT
914947 GAGAAAGGCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
59 27 0.36
60 45 0.60
61 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (59 bp):
AGAAAGGATGCCACCAACTTGTGTGGGCTTTTAGGCACCGCCAGCCCTTACAGACTTTG
Found at i:915123 original size:30 final size:30
Alignment explanation
Indices: 915077--915147 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
915067 ATGGGGGAAA
* *
915077 TCATGGACTGTGAAGAAAGGTAACACTAAG
1 TCATGGACTTTAAAGAAAGGTAACACTAAG
* **
915107 TCATGGACTTTAAAGAAGGGTGCCACTAAG
1 TCATGGACTTTAAAGAAAGGTAACACTAAG
**
915137 TTGTGGACTTT
1 TCATGGACTTT
915148 GAGAAGGGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (30 bp):
TCATGGACTTTAAAGAAAGGTAACACTAAG
Found at i:915270 original size:29 final size:29
Alignment explanation
Indices: 914939--915270 Score: 282
Period size: 29 Copynumber: 11.5 Consensus size: 29
914929 CCAACTTGTG
* *
914939 TGGACTTTGAGAAAGGCGCCACTGAGTTA
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
*
914968 TGGACTTTGAG-AAGG-GCATCACTGAGTTA
1 TGGACTTTGAGAAAGGTGC--CACTGAGTCA
* *
914997 TGGACTTTGAGAAGGGTGCCATTGAGTCA
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
* * *
915026 TGGACATTGAGAAATGTGCCACTGAGTCG
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
* ** *
915055 TGGACTTTGAGAATGG-GGGA---AATCA
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
* ** *
915080 TGGACTGTGAAGAAAGGTAACACTAAGTCA
1 TGGACTTTG-AGAAAGGTGCCACTGAGTCA
* * * **
915110 TGGACTTTAAAGAAGGGTGCCACTAAGTTG
1 TGGACTTT-GAGAAAGGTGCCACTGAGTCA
* * *
915140 TGGACTTTGAGAAGGGTGCCATTGAGTCG
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
* * * *
915169 TAGACTTTGAGAAGGGTGCCACTAAGTCG
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
*
915198 T-GATCTTTGAGAAGGGTGCCACTGAGTCA
1 TGGA-CTTTGAGAAAGGTGCCACTGAGTCA
* *
915227 TGGTCTTTGAGAAAGGTGCCATTGAGTCA
1 TGGACTTTGAGAAAGGTGCCACTGAGTCA
*
915256 TGGACTTTGAAAAAG
1 TGGACTTTGAGAAAG
915271 TTACTTTACT
Statistics
Matches: 249, Mismatches: 42, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 11 0.04
26 6 0.02
27 3 0.01
28 8 0.03
29 181 0.73
30 38 0.15
31 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGACTTTGAGAAAGGTGCCACTGAGTCA
Found at i:916695 original size:16 final size:16
Alignment explanation
Indices: 916667--916707 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
916657 CCTCTGCTCT
*
916667 TTTCTTTT-CTTTTTA
1 TTTCTTTTATTTTTTA
*
916682 TTTTTTTTATTTTTTA
1 TTTCTTTTATTTTTTA
916698 TTTCTTTTAT
1 TTTCTTTTAT
916708 GTTTCTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCTTTTATTTTTTA
Found at i:919574 original size:19 final size:20
Alignment explanation
Indices: 919550--919610 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
919540 TTTGAATTTC
919550 AACAAT-TTGTATCGATACA
1 AACAATATTGTATCGATACA
*
919569 AACAATAAATGTATCGATACA
1 AACAAT-ATTGTATCGATACA
* *
919590 TA-AATGTTGTATCGATACA
1 AACAATATTGTATCGATACA
919609 AA
1 AA
919611 GCTACTCTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.54
20 3 0.09
21 13 0.37
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (20 bp):
AACAATATTGTATCGATACA
Found at i:933684 original size:10 final size:9
Alignment explanation
Indices: 933663--933728 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
933653 TGTCCTTCGC
933663 AAAAAAA-A
1 AAAAAAACA
*
933671 AAAAAGACA
1 AAAAAAACA
933680 AAAAAAACA
1 AAAAAAACA
933689 AAAAAAA-A
1 AAAAAAACA
*
933697 CAAAAAACA
1 AAAAAAACA
933706 AAAAGAAA-A
1 AAAA-AAACA
933715 AAAAACAACA
1 AAAAA-AACA
933725 AAAA
1 AAAA
933729 GGGTTCGGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 14 0.29
9 27 0.55
10 8 0.16
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:933701 original size:26 final size:27
Alignment explanation
Indices: 933662--933728 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
933652 GTGTCCTTCG
*
933662 CAAAAAAAAA-AAAAGACAAAAA-AAA
1 CAAAAAAAAACAAAAAACAAAAAGAAA
933687 CAAAAAAAAACAAAAAACAAAAAGAAA
1 CAAAAAAAAACAAAAAACAAAAAGAAA
*
933714 -AAAAAACAACAAAAA
1 CAAAAAAAAACAAAAA
933729 GGGTTCGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 10 0.26
26 25 0.66
27 3 0.08
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (27 bp):
CAAAAAAAAACAAAAAACAAAAAGAAA
Found at i:933728 original size:1 final size:1
Alignment explanation
Indices: 933663--933719 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
933653 TGTCCTTCGC
* * * * * *
933663 AAAAAAAAAAAAAGACAAAAAAAACAAAAAAAAACAAAAAACAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
933720 CAACAAAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:933729 original size:19 final size:18
Alignment explanation
Indices: 933663--933729 Score: 86
Period size: 17 Copynumber: 3.8 Consensus size: 18
933653 TGTCCTTCGC
*
933663 AAAAAAAA-AAAAAG-AC
1 AAAAAAAACAAAAAGAAA
933679 AAAAAAAACAAAAA-AAA
1 AAAAAAAACAAAAAGAAA
*
933696 ACAAAAAACAAAAAGAAA
1 AAAAAAAACAAAAAGAAA
933714 AAAAAACAACAAAAAG
1 AAAAAA-AACAAAAAG
933730 GGTTCGGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
16 8 0.18
17 19 0.43
18 8 0.18
19 9 0.20
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAGAAA
Found at i:934824 original size:37 final size:37
Alignment explanation
Indices: 934742--934826 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
934732 TGCCACAATC
*
934742 ATGCATTTCTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
934779 ATGCATTTGTGATATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
934816 ATGTATTTGTG
1 ATGCATTTGTG
934827 CTTCATCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:935248 original size:29 final size:28
Alignment explanation
Indices: 935188--935501 Score: 330
Period size: 29 Copynumber: 11.0 Consensus size: 28
935178 ATTCCTCACC
* * *
935188 TTCAGAAGCCCATAAGTTAGTGGCACTTT
1 TTCA-AAGCCCACAAGTCAGTGGCACCTT
* *
935217 TTCAAAACCCACCAGTCAGTGGCAGCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
935246 TTCAAAACCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
935275 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * *
935303 TTCAGAAGCCTACAAGTCGGTGGCACCCCT
1 TTCA-AAGCCCACAAGTCAGTGGCA-CCTT
*
935333 TTCATAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAGCCCACAAGTCAGTGGC-ACCTT
* * *
935360 TTCAAAAGCTCATAAGTTAGTGGCACCTT
1 TTC-AAAGCCCACAAGTCAGTGGCACCTT
*
935389 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
935417 TTCAAAAGCCCACAAGTAAGTGGCACATT
1 TTC-AAAGCCCACAAGTCAGTGGCACCTT
*
935446 TTCAAAGCCTACAAGTCAGTGGCAACC--
1 TTCAAAGCCCACAAGTCAGTGGC-ACCTT
*
935473 TTCAAAGCCCACAAGGCAGTGGCAACCTT
1 TTCAAAGCCCACAAGTCAGTGGC-ACCTT
935502 CATGGAGGTA
Statistics
Matches: 240, Mismatches: 34, Indels: 22
0.81 0.11 0.07
Matches are distributed among these distances:
27 31 0.13
28 81 0.34
29 121 0.50
30 7 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:935304 original size:57 final size:56
Alignment explanation
Indices: 935196--935501 Score: 328
Period size: 57 Copynumber: 5.4 Consensus size: 56
935186 CCTTCAGAAG
* * * * *
935196 CCCATAAGTTAGTGGCACTTTTTCAAAACCCACCAGTCAGTGGCAGCCTTTTCAAAA
1 CCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAA
* *
935253 CCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAGAAG
1 CCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCA-AAA
* ** * * *
935311 CCTACAAGTCGGTGGCACCCCTTTCATAGCCCACAAGTCAGTGGCAAC-CTTCAAAA
1 CCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAA
* * *
935367 GCTCATAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAA
1 -CCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAA
* * * * *
935424 GCCCACAAGTAAGTGGCACATTTTCAAAGCCTACAAGTCAGTGGCAAC-CTTCAAAG
1 -CCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAA
**
935480 CCCACAAGGCAGTGGCAACCTT
1 CCCACAAGTTAGTGGC-ACCTT
935502 CATGGAGGTA
Statistics
Matches: 210, Mismatches: 34, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
55 14 0.07
56 39 0.19
57 88 0.42
58 69 0.33
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (56 bp):
CCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAA
Found at i:936697 original size:20 final size:20
Alignment explanation
Indices: 936669--936706 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
936659 ACAAGGTCTA
*
936669 GTATAGATACATTTACTTAT
1 GTATAGATACATTAACTTAT
*
936689 GTATTGATACATTAACTT
1 GTATAGATACATTAACTT
936707 TTTACATCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
GTATAGATACATTAACTTAT
Found at i:937870 original size:21 final size:20
Alignment explanation
Indices: 937844--937900 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
937834 CTGTAAATAC
*
937844 ATTGTATCGATACATGATTAA
1 ATTGTATCAATACATGA-TAA
*
937865 ATTGTATCAATACATGATGA
1 ATTGTATCAATACATGATAA
*
937885 ATTATATCAATACATG
1 ATTGTATCAATACATG
937901 TGACCCAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (20 bp):
ATTGTATCAATACATGATAA
Found at i:949843 original size:20 final size:21
Alignment explanation
Indices: 949798--949850 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
949788 GTATCAATAC
949798 ATTGTATCGATACATGATTAA
1 ATTGTATCGATACATGATTAA
*
949819 ATTGTATCGATACATGA-TGA
1 ATTGTATCGATACATGATTAA
949839 ATTGTATCGATA
1 ATTGTATCGATA
949851 AATGTGGCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
ATTGTATCGATACATGATTAA
Found at i:953172 original size:33 final size:33
Alignment explanation
Indices: 953130--953200 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
953120 TTTCCTCTAG
*
953130 AATTG-TCTAAATTACCTTTGTTGCTAAGCCAA
1 AATTGCTCTAAATTACCTTTATTGCTAAGCCAA
953162 AATTGCTCTAAATTACCTTTATTGCTAAGCCAA
1 AATTGCTCTAAATTACCTTTATTGCTAAGCCAA
953195 AATTGC
1 AATTGC
953201 AGGTATACCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 5 0.14
33 32 0.86
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (33 bp):
AATTGCTCTAAATTACCTTTATTGCTAAGCCAA
Found at i:955211 original size:2 final size:2
Alignment explanation
Indices: 955163--955191 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
955153 TTTTATGGTT
955163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
955192 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:955722 original size:23 final size:23
Alignment explanation
Indices: 955694--955767 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
955684 AAAAAAATAT
*
955694 AATATAAATATAATATATTTAAA
1 AATATAAATATAATATAATTAAA
* * *
955717 AATATAAAAATAAAAAAATTAATA
1 AATATAAATATAATATAATTAA-A
**
955741 AATATATTTA-AATATAATTAAA
1 AATATAAATATAATATAATTAAA
955763 AATAT
1 AATAT
955768 GCTTAATATA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 6 0.15
23 27 0.66
24 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AATATAAATATAATATAATTAAA
Found at i:955726 original size:36 final size:35
Alignment explanation
Indices: 955681--955767 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 35
955671 TTTTAGACAT
* *
955681 AATAAAAAAATATAATATAAATATAATATATTTAAA
1 AATATAAAAATATAAAATAAATA-AATATATTTAAA
* *
955717 AATATAAAAATAAAAAAATTAATAAATATATTTAAA
1 AATATAAAAAT-ATAAAATAAATAAATATATTTAAA
*
955753 TATAATTAAAAATAT
1 AAT-A-TAAAAATAT
955768 GCTTAATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
36 24 0.57
37 11 0.26
38 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (35 bp):
AATATAAAAATATAAAATAAATAAATATATTTAAA
Found at i:955778 original size:23 final size:23
Alignment explanation
Indices: 955733--955778 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
955723 AAAATAAAAA
*
955733 AATTAATAAATATATTTAAATAT
1 AATTAATAAATATACTTAAATAT
*
955756 AATTAA-AAATATGCTTAATATAT
1 AATTAATAAATATACTTAA-ATAT
955779 GCATATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTAATAAATATACTTAAATAT
Found at i:956186 original size:5 final size:6
Alignment explanation
Indices: 956151--956186 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
956141 TAAAAAAATA
*
956151 AAATTT AAATTC AAATTT AAATTT AAATTT -AATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT A
956187 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
AAATTT
Found at i:956450 original size:15 final size:15
Alignment explanation
Indices: 956430--956498 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
956420 GTTTTAGTGT
956430 TATTAATTAAAATAA
1 TATTAATTAAAATAA
* *
956445 TATTAATAAAAATGA
1 TATTAATTAAAATAA
** *
956460 TATTTAAAAAAAATTA
1 TA-TTAATTAAAATAA
*
956476 -ATT-ATTAAAATAT
1 TATTAATTAAAATAA
*
956489 TTTTAATTAA
1 TATTAATTAA
956499 TAAAAATAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
13 6 0.14
14 4 0.10
15 21 0.50
16 11 0.26
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (15 bp):
TATTAATTAAAATAA
Found at i:956471 original size:16 final size:15
Alignment explanation
Indices: 956438--956485 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
956428 GTTATTAATT
*
956438 AAAATAATATTAATA
1 AAAATAATATTAAAA
*
956453 AAAATGATATTTAAAA
1 AAAATAATA-TTAAAA
956469 AAAATTAATTATTAAAA
1 AAAA-TAA-TATTAAAA
956486 TATTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.30
16 9 0.33
17 8 0.30
18 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAATAATATTAAAA
Found at i:957169 original size:15 final size:16
Alignment explanation
Indices: 957151--957182 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
957141 ATTTAAACAT
957151 TATTT-AATTAAAAAA
1 TATTTAAATTAAAAAA
957166 TATTTAAATTAAAAAA
1 TATTTAAATTAAAAAA
957182 T
1 T
957183 TGAATCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTTAAATTAAAAAA
Found at i:959900 original size:2 final size:2
Alignment explanation
Indices: 959889--959918 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
959879 AAAATCCTTG
959889 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
959919 GAGCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:960070 original size:2 final size:2
Alignment explanation
Indices: 960063--960089 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
960053 CTGTGCATCA
960063 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
960090 AGTTTGCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:961793 original size:16 final size:19
Alignment explanation
Indices: 961775--961809 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
961765 AAATCCCATT
961775 AAAAT-TATA-TTATAATA
1 AAAATCTATATTTATAATA
961792 AAAATCTATATTTATAAT
1 AAAATCTATATTTATAAT
961810 TACCTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATCTATATTTATAATA
Found at i:964347 original size:2 final size:2
Alignment explanation
Indices: 964340--964367 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
964330 CTGCATGTTC
964340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
964368 TAAATTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:971550 original size:50 final size:49
Alignment explanation
Indices: 971491--971724 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 49
971481 CAGTCACATT
* * * *
971491 TCTCTATTGTTAAAGGTTGGTGAAGAATAGTCAACAATTACGACTACTTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTAC-ACCACCTC
971541 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACAGCCACCTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACA-CCACCTC
* * * *
971591 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAATAATTGCAGTCACTTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACA-CCACCTC
* * * *
971641 TTTTGATTGTTAAAGGTTGGTGAAGAATAGTCAACAATTACGGCCACCTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTAC-ACCACCTC
* * *
971691 TCGCGATTGTCAAAGATTGATGAAGAATAGTCAA
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAA
971725 ATCACTTTGC
Statistics
Matches: 160, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 159 0.99
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (49 bp):
TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACACCACCTC
Found at i:971649 original size:100 final size:100
Alignment explanation
Indices: 971471--971724 Score: 348
Period size: 100 Copynumber: 2.5 Consensus size: 100
971461 ATACTTAGAA
* * * * * *
971471 TCAACAATTTCAGTCACATTTCTCTATTGTTAAAGGTTGGTGAAGAATAGTCAACAATTACGACT
1 TCAACAATTACAGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACT
971536 ACTTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
66 ACTTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
* * *
971571 TCAACAATTACAGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAATAATTGC-AGT
1 TCAACAATTACAGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACT
* * *
971635 CACTTCTTTTGATTGTTAAAGGTTGGTGAAGAATAG
66 -ACTTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
* * * *
971671 TCAACAATTACGGCCACCTCTCGCGATTGTCAAAGATTGATGAAGAATAGTCAA
1 TCAACAATTACAGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAA
971725 ATCACTTTGC
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
99 2 0.01
100 135 0.99
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (100 bp):
TCAACAATTACAGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACT
ACTTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
Found at i:978252 original size:16 final size:17
Alignment explanation
Indices: 978231--978272 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
978221 ATTTGTGCTA
978231 TATATTATATCTTTT-T
1 TATATTATATCTTTTGT
*
978247 TATATT-TGTCTTTTGT
1 TATATTATATCTTTTGT
978263 TATAATTATA
1 TAT-ATTATA
978273 CTAAATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 3 0.14
18 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (17 bp):
TATATTATATCTTTTGT
Found at i:978595 original size:38 final size:38
Alignment explanation
Indices: 978505--978647 Score: 114
Period size: 38 Copynumber: 3.8 Consensus size: 38
978495 AATTTGGAAT
* *
978505 CATGCTACCGGTTAAGAATAGTG-TGTTTTGTATTGAAC
1 CATGCCACCGGTTAAGAATAGTGAT-TTTTATATTGAAC
*
978543 CAT-CTCACCAGTTAAGAATAGTGATTTTTAT-TTCGAAC
1 CATGC-CACCGGTTAAGAATAGTGATTTTTATATT-GAAC
* * * *
978581 TATGCCACCGGTTAATAAT-GATGATTTTTGTATTAAAC
1 CATGCCACCGGTTAAGAATAG-TGATTTTTATATTGAAC
* ** * *
978619 CGTGCCACTAGTTTAGAATAATGATTTTT
1 CATGCCACCGGTTAAGAATAGTGATTTTT
978648 GTCCATAGCT
Statistics
Matches: 83, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
37 4 0.05
38 75 0.90
39 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (38 bp):
CATGCCACCGGTTAAGAATAGTGATTTTTATATTGAAC
Found at i:978676 original size:2 final size:2
Alignment explanation
Indices: 978669--978707 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
978659 GTAAAGGGAC
*
978669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
978708 ATGACTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:981023 original size:80 final size:79
Alignment explanation
Indices: 980893--981092 Score: 197
Period size: 79 Copynumber: 2.5 Consensus size: 79
980883 AATAACAGGG
* * * ** * *
980893 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTAGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTA
*
980956 GAAAAAAAAAATCGGGA
64 G-AAAAAAAAACCGGGA
* * *
980973 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
* * * *
981038 GAATAAAGCCGGGG
66 AAAAAAAACCGGGA
* * *
981052 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
981093 GATGAAATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
79 53 0.54
80 46 0.46
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAAACCGGGA
Found at i:981103 original size:28 final size:28
Alignment explanation
Indices: 981047--981123 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
981037 GGAATAAAGC
*** *
981047 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
981075 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
** *
981103 CAAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
981124 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:981176 original size:52 final size:52
Alignment explanation
Indices: 981107--981443 Score: 185
Period size: 52 Copynumber: 6.4 Consensus size: 52
981097 AAATAACAAG
*
981107 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
981159 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
981212 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
981263 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
981318 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * * *
981372 GTTAGAGTATCCCTGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
981423 GTTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
981444 GAGAATTGAT
Statistics
Matches: 213, Mismatches: 45, Indels: 54
0.68 0.14 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 36 0.17
52 79 0.37
53 33 0.15
54 27 0.13
55 18 0.08
56 2 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:981290 original size:212 final size:212
Alignment explanation
Indices: 981040--981445 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
981030 TATTTTGGGA
* * *
981040 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACA
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACA
* *
981105 AGGTTGGAGTATCCTCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTA
65 AGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTA
* *
981168 TCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTG
130 TCCCCGATTAAA-GAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTG
981232 GAAAAATTAGTGTTTTAGCG
193 GAAAAATTAGTGTTTTAGCG
* **
981252 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACAA
*
981317 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTAT
66 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTAT
* * * * *
981382 CCCTGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGA
131 CCCCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
981446 GAATTGATAA
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 106 0.61
213 38 0.22
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACAA
GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTAT
CCCCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:981303 original size:28 final size:27
Alignment explanation
Indices: 981263--981333 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
981253 TAAAACCGGA
**
981263 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
981291 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
981318 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
981334 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:981346 original size:107 final size:105
Alignment explanation
Indices: 980993--981384 Score: 305
Period size: 107 Copynumber: 3.7 Consensus size: 105
980983 CCTTCGAAAA
* ** * * * * * *
980993 TAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTT-GGAATAAAACCGGAGTTGGAG
* *
981058 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
65 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * *
981100 TAACAAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA-TTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
981165 GTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
64 GTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * *
981202 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CAGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTT-G-GAATAAAACCGGAGTT
981266 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
61 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * *
981311 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACAGGGTTGGAGTATCCCCGATTGTGAA-AAATT--AGTATTTTGG-AATAAAACCGGAGTTG
981376 GAGTATCCC
62 GAGTATCCC
981385 TGATTATAGA
Statistics
Matches: 218, Mismatches: 46, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 51 0.23
105 16 0.07
106 18 0.08
107 64 0.29
108 32 0.15
109 32 0.15
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (105 bp):
TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAATAAAACCGGAGTTGGAGT
ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:983825 original size:13 final size:13
Alignment explanation
Indices: 983807--983832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
983797 ACAAAGATCC
983807 ATGTATCGATACA
1 ATGTATCGATACA
983820 ATGTATCGATACA
1 ATGTATCGATACA
983833 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:983828 original size:33 final size:33
Alignment explanation
Indices: 983786--983852 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
983776 AAAATTTCCA
***
983786 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
983819 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
983852 A
1 A
983853 TTTCCTTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:983896 original size:19 final size:18
Alignment explanation
Indices: 983872--983939 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
983862 CAGTAGCTAA
983872 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
983891 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
983906 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
983923 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
983940 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:983912 original size:13 final size:13
Alignment explanation
Indices: 983894--983918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
983884 ACAATACTTA
983894 TGTATCGATACAT
1 TGTATCGATACAT
983907 TGTATCGATACA
1 TGTATCGATACA
983919 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:983916 original size:32 final size:32
Alignment explanation
Indices: 983875--983937 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
983865 TAGCTAATTA
*
983875 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
983907 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
983938 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:988703 original size:16 final size:16
Alignment explanation
Indices: 988664--988713 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
988654 TACTTTTTGT
988664 TATTTATTA-TATTATAA
1 TATTT-TTATTATTA-AA
988681 T-TTTTTAATT-TTAAA
1 TATTTTT-ATTATTAAA
988696 TATTTTTATTATTAAA
1 TATTTTTATTATTAAA
988712 TA
1 TA
988714 AATTTATCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 8 0.28
16 19 0.66
17 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTTATTATTAAA
Found at i:999279 original size:45 final size:45
Alignment explanation
Indices: 999215--999303 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
999205 GGAATATAGA
999215 TTATATGTAATTAGCAATTAGAGAAGATGAGAGTTTTTTCTTGGT
1 TTATATGTAATTAGCAATTAGAGAAGATGAGAGTTTTTTCTTGGT
999260 TTATATGTAATTAGCAATTAGAGAAGATGAGAGTTTTTTCTTGG
1 TTATATGTAATTAGCAATTAGAGAAGATGAGAGTTTTTTCTTGG
999304 CTGCTCTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (45 bp):
TTATATGTAATTAGCAATTAGAGAAGATGAGAGTTTTTTCTTGGT
Found at i:1001750 original size:8 final size:7
Alignment explanation
Indices: 1001722--1001746 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1001712 TATAATTTTT
1001722 AAAATAA
1 AAAATAA
1001729 AAAATAA
1 AAAATAA
1001736 AAAATAA
1 AAAATAA
1001743 AAAA
1 AAAA
1001747 ATAAGTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:1002258 original size:20 final size:17
Alignment explanation
Indices: 1002221--1002277 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
1002211 TTCTAATATT
1002221 AAATAATTAAAAAATAA
1 AAATAATTAAAAAATAA
*
1002238 AAATAATTACAAAAACTTA
1 AAATAATTA-AAAAA-TAA
*
1002257 AAACAA-TAAAAAATAA
1 AAATAATTAAAAAATAA
1002273 GAAAT
1 -AAAT
1002278 TCTAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.06
17 17 0.52
18 7 0.21
19 7 0.21
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAATTAAAAAATAA
Found at i:1003421 original size:27 final size:27
Alignment explanation
Indices: 1003363--1003436 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
1003353 CAAAAGCCAC
* * * *
1003363 TCTTTGTGTTTGTTAATAATGGTGGTT
1 TCTTTGTGTTTGTCAAAAATAGTGATT
* *
1003390 ACTTTGTATTTGTCAAAAATAGTGATT
1 TCTTTGTGTTTGTCAAAAATAGTGATT
*
1003417 TCTTTTTGTTTGTCAAAAAT
1 TCTTTGTGTTTGTCAAAAAT
1003437 TATGACTTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (27 bp):
TCTTTGTGTTTGTCAAAAATAGTGATT
Found at i:1003453 original size:28 final size:27
Alignment explanation
Indices: 1003398--1003453 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
1003388 TTACTTTGTA
* *
1003398 TTTGTCAAAAATAGTGATTTCTTTTTG
1 TTTGTCAAAAATAGTGACTTATTTTTG
1003425 TTTGTCAAAAATTA-TGACTTATTGTTTG
1 TTTGTCAAAAA-TAGTGACTTATT-TTTG
1003453 T
1 T
1003454 CAAAATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (27 bp):
TTTGTCAAAAATAGTGACTTATTTTTG
Found at i:1006034 original size:21 final size:22
Alignment explanation
Indices: 1006005--1006050 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1005995 TGTTTAGACA
** *
1006005 AGTAGTACTCCGTAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1006027 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1006048 AGT
1 AGT
1006051 TTCAATAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1007739 original size:27 final size:27
Alignment explanation
Indices: 1007705--1007768 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
1007695 ACCTTTTATG
* *
1007705 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTAGTTACTTTGTA
* * *
1007732 TTTGTCAAAAATGGTAGTTCCTTTTTG
1 TTTGTCAAAAATGGTAGTTACTTTGTA
1007759 TTTGTCAAAA
1 TTTGTCAAAA
1007769 GTTATGGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTAGTTACTTTGTA
Found at i:1009003 original size:17 final size:17
Alignment explanation
Indices: 1008982--1009026 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1008972 TAAAAATTTT
1008982 AATTATTTTTAAATTCA
1 AATTATTTTTAAATTCA
* *
1008999 TATTA-TTTTATATTCA
1 AATTATTTTTAAATTCA
*
1009015 AATCATTTTTAA
1 AATTATTTTTAA
1009027 TTTAATTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTTTAAATTCA
Found at i:1010380 original size:24 final size:24
Alignment explanation
Indices: 1010336--1010382 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1010326 GTATATATCC
1010336 ATCAAATGTTTTAATTAAATTTGA
1 ATCAAATGTTTTAATTAAATTTGA
1010360 ATCAAAT-TTATTCAATT-AATTTG
1 ATCAAATGTT-TT-AATTAAATTTG
1010383 TGTATATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 15 0.71
25 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
ATCAAATGTTTTAATTAAATTTGA
Found at i:1011945 original size:96 final size:95
Alignment explanation
Indices: 1011779--1012003 Score: 263
Period size: 96 Copynumber: 2.3 Consensus size: 95
1011769 AAAAGGGGTC
** * * * **
1011779 TGGAGTATCCCCTCGGAGGAATGAGGTTGGAATATCTCCGATGATGATAATTTTGGCAAAAATAA
1 TGGAGTAT-CCCTTAGAAGAATG-GGTTGGAGTATCTCCGATGATGACAATTTAAGCAAAAATAA
1011844 GATTTAAATCTTGACAAGTTTAAAAACGAGGT
64 GATTTAAATCTTGACAAGTTTAAAAACGAGGT
*
1011876 TGGAGTATCTCCTTAGAAGAATGGGATTGGAGTATC-CCGGTGATGACAATTTAAGCAAAAATAA
1 TGGAGTATC-CCTTAGAAGAATGGG-TTGGAGTATCTCCGATGATGACAATTTAAGCAAAAATAA
* * *
1011940 TATTTAAATCTTGGCAAGTTTAAAAACGGGGT
64 GATTTAAATCTTGACAAGTTTAAAAACGAGGT
** * *
1011972 TAAAATATCCCTTTAGAAGAAAGGGTTGGAGT
1 TGGAGTATCCC-TTAGAAGAATGGGTTGGAGT
1012004 CTCCTCGATA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
95 9 0.08
96 74 0.67
97 27 0.25
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (95 bp):
TGGAGTATCCCTTAGAAGAATGGGTTGGAGTATCTCCGATGATGACAATTTAAGCAAAAATAAGA
TTTAAATCTTGACAAGTTTAAAAACGAGGT
Found at i:1014437 original size:52 final size:51
Alignment explanation
Indices: 1014370--1014483 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 51
1014360 AATTAATTAG
* * * *
1014370 ATGTATCGATACATTTAGG-TTAAAAAC-CTATAATGTATTAATACAATGAAAA
1 ATGTATCGATACATTT-GGATCAAAAACTC-AAAATATATCAATACAATG-AAA
* * *
1014422 ATGTATCTATCCATTTGGATCAAAAACTCAAAATATATCGATACAATGAAA
1 ATGTATCGATACATTTGGATCAAAAACTCAAAATATATCAATACAATGAAA
1014473 ATGTATCGATA
1 ATGTATCGATA
1014484 AAATTTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
51 14 0.27
52 36 0.71
53 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (51 bp):
ATGTATCGATACATTTGGATCAAAAACTCAAAATATATCAATACAATGAAA
Found at i:1014551 original size:20 final size:20
Alignment explanation
Indices: 1014526--1014597 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
1014516 ATAAGATCCA
*
1014526 GTATCGATACATTAACTTTT
1 GTATCAATACATTAACTTTT
* *
1014546 GTATCGATATATTAA-TTTAT
1 GTATCAATACATTAACTTT-T
1014566 GTATCAATACATTAACTTGTT
1 GTATCAATACATTAACTT-TT
1014587 GTATCAATACA
1 GTATCAATACA
1014598 AATTGTAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.07
20 28 0.61
21 14 0.30
22 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (20 bp):
GTATCAATACATTAACTTTT
Found at i:1017366 original size:73 final size:73
Alignment explanation
Indices: 1017243--1017570 Score: 302
Period size: 73 Copynumber: 4.5 Consensus size: 73
1017233 TTATCGATGG
* * * * * * *
1017243 AGTAAACATGCATTCGAGATAACTT-GTGCTATCTTTAATGCACCGAGTTGGATAAATGGATCTT
1 AGTAAGCATGCATTCGAGATAACTTAGTGTTATCTTTAATGCATCGAGTTGGGTGAATGAAACTT
*
1017307 CTTGGTCA
66 ATTGGTCA
* * * * **
1017315 AGTAAGCATGCATTCGGGATAATTTGGTGTTATCTTCAATGCATCGAGTTGGGTGAGCGAAACTT
1 AGTAAGCATGCATTCGAGATAACTTAGTGTTATCTTTAATGCATCGAGTTGGGTGAATGAAACTT
*
1017380 ATTGGTTA
66 ATTGGTCA
* * * *
1017388 AGTAAGTATGCTTTCGAGATTACTTAGTGTTATCTTTAATGCATCGAGTTGGGTGAAT-AACCTT
1 AGTAAGCATGCATTCGAGATAACTTAGTGTTATCTTTAATGCATCGAGTTGGGTGAATGAAACTT
*
1017452 GTTGGTCA
66 ATTGGTCA
* * * * * ** * *
1017460 AGTAAGCTTGCATTTGGGATAACTTAGTATTATCTTTAGA-GCACCGAGTTGGGTGAGCGGACCT
1 AGTAAGCATGCATTCGAGATAACTTAGTGTTATCTTTA-ATGCATCGAGTTGGGTGAATGAAACT
**
1017524 TATTGGTTG
65 TATTGGTCA
* * ** *
1017533 AGTAAACTTGTGTTTGAGATAACTTAGTGTTATCTTTA
1 AGTAAGCATGCATTCGAGATAACTTAGTGTTATCTTTA
1017571 GTGTGCCGAG
Statistics
Matches: 208, Mismatches: 45, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
72 79 0.38
73 129 0.62
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (73 bp):
AGTAAGCATGCATTCGAGATAACTTAGTGTTATCTTTAATGCATCGAGTTGGGTGAATGAAACTT
ATTGGTCA
Found at i:1017457 original size:145 final size:147
Alignment explanation
Indices: 1017243--1017570 Score: 400
Period size: 145 Copynumber: 2.3 Consensus size: 147
1017233 TTATCGATGG
* * * *
1017243 AGTAAAC-ATGCATTCGAGATAACTT-GTGCTATCTTTAATGCACCGAGTTGGATAAATGGATCT
1 AGTAAACTATGCTTTCGAGATAACTTAGTGTTATCTTTAATGCACCGAGTTGGATAAATGAACCT
* * * *
1017306 TCTTGGTCAAGTAAGCATGCATTCGGGATAATTTGGTGTTATCTTCA-ATGCATCGAGTTGGGTG
66 TCTTGGTCAAGTAAGCATGCATTCGGGATAACTTAGTATTATCTTCAGA-GCACCGAGTTGGGTG
1017370 AGCGAAACTTATTGGTTA
130 AGCGAAACTTATTGGTTA
* * * * *
1017388 AGT-AAGTATGCTTTCGAGATTACTTAGTGTTATCTTTAATGCATCGAGTTGGGTGAAT-AACCT
1 AGTAAACTATGCTTTCGAGATAACTTAGTGTTATCTTTAATGCACCGAGTTGGATAAATGAACCT
* * * *
1017451 TGTTGGTCAAGTAAGCTTGCATTTGGGATAACTTAGTATTATCTTTAGAGCACCGAGTTGGGTGA
66 TCTTGGTCAAGTAAGCATGCATTCGGGATAACTTAGTATTATCTTCAGAGCACCGAGTTGGGTGA
* * *
1017516 GCGGACCTTATTGGTTG
131 GCGAAACTTATTGGTTA
*
1017533 AGTAAACT-TG-TGTTTGAGATAACTTAGTGTTATCTTTA
1 AGTAAACTATGCT-TTCGAGATAACTTAGTGTTATCTTTA
1017571 GTGTGCCGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
144 3 0.02
145 120 0.77
146 32 0.21
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (147 bp):
AGTAAACTATGCTTTCGAGATAACTTAGTGTTATCTTTAATGCACCGAGTTGGATAAATGAACCT
TCTTGGTCAAGTAAGCATGCATTCGGGATAACTTAGTATTATCTTCAGAGCACCGAGTTGGGTGA
GCGAAACTTATTGGTTA
Found at i:1018082 original size:67 final size:67
Alignment explanation
Indices: 1017588--1018509 Score: 337
Period size: 67 Copynumber: 13.8 Consensus size: 67
1017578 GAGTTAGGCA
* * *
1017588 AGTAGACCTTATTGGTCGATTGATTATT-ATGATGACCAATTGTTATCCATTTTTT---ATCGCG
1 AGTAGACCTCA-TGGTCGATTGATTATTGA-GATGACCAATTGTCATCTATTTTTTGCCAT-GC-
** *
1017649 TTAAGCA
62 TGGA-CG
* * * * * * * ** * *
1017656 AGTGGACCTTATAGTCAAGTGATTATTGCGATAATTAATTGTCATTTATTTTTTACCATGCTAGG
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCT-GG
1017721 -CG
65 ACG
* * * * * * ** *
1017723 AATAGACCTTATGGGCGATTGATTGTT-ACAATGACCAATTGTCATCTATGTTTTGTTACGCTAG
1 AGTAGACCTCATGGTCGATTGATTATTGA-GATGACCAATTGTCATCTATTTTTTGCCATGCT-G
*
1017787 G-TG
64 GACG
* * * * * * ** **
1017790 AGTGGACTTCGTGGTTGATTGATTATTGAGATAACCAATTGTCATCTATGTTTTGCCACACAAG-
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCTGGA
*
1017854 CA
66 CG
* * * * * *
1017856 AATAGACCTCATGGTTGATTGATTATTGTGATGGCCAATTGTCATCCATTTTTTATCGCA--CTG
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTT-GC-CATGCTG
* *
1017919 GGCA
64 GACG
* * * ** * *
1017923 AGTGGCCCTCATGGTCGATTTATTATTGCTATGACCAATTGTCATCCATTTATTG-C-TGCGTTG
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGC--TG
*
1017986 G-CA
64 GACG
** ** * * *
1017989 AGTAGAGTTTGTGGTCGAGTGATTATT-ACATTGACCAATTGTCATCTATCTTTTGCCATGCTGG
1 AGTAGACCTCATGGTCGATTGATTATTGAGA-TGACCAATTGTCATCTATTTTTTGCCATGCTGG
*
1018053 ATG
65 ACG
* * * * ****
1018056 AGTAAACCTCATGGTCGATTGATTATTGTGATGACCAATTATCATCCATTTTTTGTTGCGCT-GA
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCTGGA
*
1018120 GG
66 CG
* ** * * * *
1018122 AAGTGGACCTCA--GTAAATTGATAATTGAAATGACCAATTGTCATATATTTTTTGCCATGTTGG
1 -AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCTGG
1018185 ACG
65 ACG
* * * * * *
1018188 TGTAGACCTTATGGTCTATTGATTATT-ATGATGACTAATTGTCATCTATTTTTTACCATGCAGG
1 AGTAGACCTCATGGTCGATTGATTATTGA-GATGACCAATTGTCATCTATTTTTTGCCATGCTGG
*
1018252 GC-
65 ACG
* * * ** * * ** * * ** *
1018254 ATGTGGACCTCGTGGTCGGTTGATTATTCTGATGACTAATTATTGTCTACTCTTTATCGTGCTAG
1 A-GTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCT-G
*
1018319 G-TG
64 GACG
* * * * * ** **
1018322 AGTAGACTTCGTGGTCAATTGATTATTGTGATGACTAATTG-CTATCTACATTTTGTTATGCTAG
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTC-ATCTATTTTTTGCCATGCT-G
*
1018386 G-CA
64 GACG
* * ** * * * * * * *
1018389 AGTATACTTTGTGGTTGATTGATTATTGTGATGACTAATTGCCATCTATTTTTTGTCGTACTAGG
1 AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCT-GG
1018454 -C-
65 ACG
* * * * *
1018455 A-TATGGACCTCATGGTAGATTGATTATTGTGATGAACAATTGTTATTTATTTTTT
1 AGTA--GACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTT
1018510 TCCGCATTAG
Statistics
Matches: 640, Mismatches: 182, Indels: 65
0.72 0.21 0.07
Matches are distributed among these distances:
64 1 0.00
65 48 0.08
66 101 0.16
67 464 0.73
68 22 0.03
69 2 0.00
70 2 0.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (67 bp):
AGTAGACCTCATGGTCGATTGATTATTGAGATGACCAATTGTCATCTATTTTTTGCCATGCTGGA
CG
Found at i:1018260 original size:132 final size:132
Alignment explanation
Indices: 1018020--1018264 Score: 303
Period size: 132 Copynumber: 1.9 Consensus size: 132
1018010 ATTATTACAT
* * *
1018020 TGACCAATTGTCATCTATCTTTTGCCATGCTGGATGAGTAAACCTCATGGTCGATTGATTATTGT
1 TGACCAATTGTCATATATCTTTTGCCATGCTGGACGAGTAAACCTCATGGTCGATTGATTATTAT
**** *
1018085 GATGACCAATTATCATCCATTTTTTGTTGCGCTGAGGAAGTGGACCTCAGTAAATTGATAATTGA
66 GATGACCAATTATCATCCATTTTTTACCACGCAGAGGAAGTGGACCTCAGTAAATTGATAATTGA
1018150 AA
131 AA
* * * * * *
1018152 TGACCAATTGTCATATATTTTTTGCCATGTTGGACGTGTAGACCTTATGGTCTATTGATTATTAT
1 TGACCAATTGTCATATATCTTTTGCCATGCTGGACGAGTAAACCTCATGGTCGATTGATTATTAT
* * * * *
1018217 GATGACTAATTGTCATCTATTTTTTACCATGCAG-GGCATGTGGACCTC
66 GATGACCAATTATCATCCATTTTTTACCACGCAGAGG-AAGTGGACCTC
1018265 GTGGTCGGTT
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
131 2 0.02
132 91 0.98
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (132 bp):
TGACCAATTGTCATATATCTTTTGCCATGCTGGACGAGTAAACCTCATGGTCGATTGATTATTAT
GATGACCAATTATCATCCATTTTTTACCACGCAGAGGAAGTGGACCTCAGTAAATTGATAATTGA
AA
Found at i:1018631 original size:74 final size:74
Alignment explanation
Indices: 1018536--1018744 Score: 249
Period size: 74 Copynumber: 2.8 Consensus size: 74
1018526 AGACCTTACA
* ** * *
1018536 GTCGAGTGGACACATAAATGTGGTAACTTGGTGTTACTCATTTATATGCCAAGTTTCATAAATGG
1 GTCGAGTGGACACGTGTATGTGGTAACTTGGTGTTACCCATTTATATGCCAAGTTTCATAAATGA
* **
1018601 ATCTTAT-G
66 ACCACATAG
* ** *
1018609 GATCGAGTGGACATGTGTATGTGGTAACTTGGTGTTACCCATTTATATGCCAAGTTTTGTAAGTG
1 G-TCGAGTGGACACGTGTATGTGGTAACTTGGTGTTACCCATTTATATGCCAAGTTTCATAAATG
1018674 AACCACATAG
65 AACCACATAG
* ** * *
1018684 GTCGAGTGGGCACGTGTACATGGTAACTCGATGTTACCCATTTATATGCCAAGTTTCATAA
1 GTCGAGTGGACACGTGTATGTGGTAACTTGGTGTTACCCATTTATATGCCAAGTTTCATAA
1018745 GTGGGTTGCG
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
73 1 0.01
74 111 0.97
75 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (74 bp):
GTCGAGTGGACACGTGTATGTGGTAACTTGGTGTTACCCATTTATATGCCAAGTTTCATAAATGA
ACCACATAG
Found at i:1018759 original size:74 final size:73
Alignment explanation
Indices: 1018556--1018818 Score: 217
Period size: 74 Copynumber: 3.6 Consensus size: 73
1018546 CACATAAATG
* * * * * *
1018556 TGGTAACTTGGTGTTACTCATTTATATGCCAAGTTTCATAAAT-GGATCTTATGGATCGAGTGGA
1 TGGTAACTCGATGTTACCCATTTATATGCCAAGTTTCATAAGTGGGATCATA-GG-TCGAGTGGG
**
1018620 CATGTGTATG
64 CATGTGTACA
* * ** * *
1018630 TGGTAACTTGGTGTTACCCATTTATATGCCAAGTTTTGTAAGT-GAACCACATAGGTCGAGTGGG
1 TGGTAACTCGATGTTACCCATTTATATGCCAAGTTTCATAAGTGGGA--TCATAGGTCGAGTGGG
*
1018694 CACGTGTACA
64 CATGTGTACA
* * **
1018704 TGGTAACTCGATGTTACCCATTTATATGCCAAGTTTCATAAGTGGGTTGCGTAGGTTAAGTGGGC
1 TGGTAACTCGATGTTACCCATTTATATGCCAAGTTTCATAAGTGGGAT-CATAGGTCGAGTGGGC
* *
1018769 ATTTGTACT
65 ATGTGTACA
* * ***
1018778 TGGTAACTC-AGTGTCACCTATTTATACATCAAGTTTCATAA
1 TGGTAACTCGA-TGTTACCCATTTATATGCCAAGTTTCATAA
1018819 ATAGACCGCC
Statistics
Matches: 155, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
73 1 0.01
74 148 0.95
75 3 0.02
76 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (73 bp):
TGGTAACTCGATGTTACCCATTTATATGCCAAGTTTCATAAGTGGGATCATAGGTCGAGTGGGCA
TGTGTACA
Found at i:1022931 original size:18 final size:17
Alignment explanation
Indices: 1022890--1022932 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
1022880 TATTTTTATT
* *
1022890 ATTTAAATAATATTAAA
1 ATTTAAAAAATATAAAA
1022907 ATATTAAAAAATTATAAAA
1 AT-TTAAAAAA-TATAAAA
1022926 ATTTAAA
1 ATTTAAA
1022933 TGAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTAAAAAATATAAAA
Found at i:1028426 original size:21 final size:23
Alignment explanation
Indices: 1028401--1028450 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1028391 TACTTTTTTA
1028401 ATTTTCTTATG-C-TTTTATATT
1 ATTTTCTTATGTCATTTTATATT
*
1028422 ATTTTCTTTTGTTCATTTTATATT
1 ATTTTCTTATG-TCATTTTATATT
1028446 ATTTT
1 ATTTT
1028451 TATTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
23 1 0.04
24 14 0.56
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (23 bp):
ATTTTCTTATGTCATTTTATATT
Found at i:1030581 original size:2 final size:2
Alignment explanation
Indices: 1030527--1030562 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1030517 TGTCTCCAAC
1030527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1030563 CTAAACTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1032086 original size:37 final size:37
Alignment explanation
Indices: 1032036--1032109 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
1032026 TTATTATCTG
1032036 ATTTTTATATATGATTGGATTGTATAGACTATAAATT
1 ATTTTTATATATGATTGGATTGTATAGACTATAAATT
1032073 ATTTTTATATATGATTGGATTGTATAGACTATAAATT
1 ATTTTTATATATGATTGGATTGTATAGACTATAAATT
1032110 TTCGATTTAA
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:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (37 bp):
ATTTTTATATATGATTGGATTGTATAGACTATAAATT
Found at i:1033950 original size:21 final size:21
Alignment explanation
Indices: 1033907--1033956 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1033897 GTATAACAAA
* *
1033907 TTACATAAAAAATATTATCAAG
1 TTACAT-ACAAATATTATAAAG
* *
1033929 TTGCATACAAATATTGTAAAG
1 TTACATACAAATATTATAAAG
1033950 TTACATA
1 TTACATA
1033957 AAACATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (21 bp):
TTACATACAAATATTATAAAG
Found at i:1034236 original size:22 final size:22
Alignment explanation
Indices: 1034206--1034247 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1034196 TATTTATTAC
1034206 CAAACATTACCAAAATTACAGA
1 CAAACATTACCAAAATTACAGA
* * *
1034228 CAAATATTATCATAATTACA
1 CAAACATTACCAAAATTACA
1034248 TAAATTGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (22 bp):
CAAACATTACCAAAATTACAGA
Found at i:1034330 original size:24 final size:23
Alignment explanation
Indices: 1034286--1034330 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
1034276 TATGTAATAC
*
1034286 ATATCTTTTTAGAAATTTTATTT
1 ATATCTTTTTAGAAATATTATTT
* *
1034309 ATATTTTTATTAGATATATTAT
1 ATATCTTT-TTAGAAATATTAT
1034331 ATATGTAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
ATATCTTTTTAGAAATATTATTT
Found at i:1034654 original size:21 final size:21
Alignment explanation
Indices: 1034625--1034673 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1034615 ATATAACAAT
* *
1034625 TTACGTATAAACATGATTGAG
1 TTACATATAAACATGATAGAG
* *
1034646 TTACATATATACATTATAGAG
1 TTACATATAAACATGATAGAG
1034667 TTACATA
1 TTACATA
1034674 AAATATTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
TTACATATAAACATGATAGAG
Found at i:1034955 original size:20 final size:21
Alignment explanation
Indices: 1034899--1034955 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1034889 TGAAACGAAC
1034899 TACATATAAATATTATAAGAAT
1 TACATA-AAATATTATAAGAAT
* * *
1034921 TATATAAATATATTA-CAGAGT
1 TACATAAA-ATATTATAAGAAT
1034942 TACATAAAATATTA
1 TACATAAAATATTA
1034956 ACTAACAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.20
21 13 0.43
22 11 0.37
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (21 bp):
TACATAAAATATTATAAGAAT
Found at i:1035596 original size:18 final size:17
Alignment explanation
Indices: 1035562--1035594 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1035552 TATTTTTTTA
1035562 AAATTTAATTATAAAAT
1 AAATTTAATTATAAAAT
1035579 AAATATTAA-TATAAAA
1 AAAT-TTAATTATAAAA
1035595 ATTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTAATTATAAAAT
Found at i:1035647 original size:15 final size:15
Alignment explanation
Indices: 1035627--1035659 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1035617 TTAAAGCATG
1035627 TTTATTTTTAAAATT
1 TTTATTTTTAAAATT
*
1035642 TTTATTTTTAATATT
1 TTTATTTTTAAAATT
1035657 TTT
1 TTT
1035660 TAATTCTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTTTAAAATT
Found at i:1035887 original size:32 final size:33
Alignment explanation
Indices: 1035806--1035894 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 33
1035796 TCAATTTAAG
* *
1035806 TTAAA-AAT-ATTTAATACTAATATTTATATATTT
1 TTAAATAATAATTTAA-A-TAAAATTTATATATTA
*
1035839 TTATAATTA-AATTTAAATAAAATTTAT-TATTA
1 TTA-AATAATAATTTAAATAAAATTTATATATTA
*
1035871 TTAAATAATAATTTAAATCAAATT
1 TTAAATAATAATTTAAATAAAATT
1035895 AATTTAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
31 4 0.09
32 21 0.45
33 12 0.26
34 3 0.06
35 7 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
TTAAATAATAATTTAAATAAAATTTATATATTA
Found at i:1036507 original size:45 final size:45
Alignment explanation
Indices: 1036418--1036507 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 45
1036408 TATATTCATA
* * * * *
1036418 TTATATTCGTATATTTTATTATGTTATAATCGTATTTAAGATATT
1 TTATATTCATATATTTTAATACGTAATAATCGTATTTAAAATATT
* *
1036463 TTATATTTATATATTTTAATACGTAATAAT-TTATATTAAAATATT
1 TTATATTCATATATTTTAATACGTAATAATCGTAT-TTAAAATATT
1036508 AAAAATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (45 bp):
TTATATTCATATATTTTAATACGTAATAATCGTATTTAAAATATT
Found at i:1036568 original size:14 final size:14
Alignment explanation
Indices: 1036511--1036577 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
1036501 AAATATTAAA
1036511 AATATTT-TATATT
1 AATATTTATATATT
1036524 AATATTT-TATAATT
1 AATATTTATAT-ATT
* **
1036538 AA-ATTTAAATAAA
1 AATATTTATATATT
1036551 AATATTTATATATT
1 AATATTTATATATT
*
1036565 AATATATATATAT
1 AATATTTATATAT
1036578 ATAAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 17 0.39
14 27 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATATTTATATATT
Found at i:1036628 original size:20 final size:21
Alignment explanation
Indices: 1036605--1036661 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
1036595 ACATTACTAT
*
1036605 AAATATTAT-TAATTACACAA
1 AAATATTATAAAATTACACAA
1036625 AAATATTAATAAAAATTACACAA
1 AAATATT-AT-AAAATTACACAA
*
1036648 AAAAATTAATAAAA
1 AAATATT-ATAAAA
1036662 ATTTTGACCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.22
21 2 0.06
22 4 0.12
23 19 0.59
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATTATAAAATTACACAA
Found at i:1036645 original size:23 final size:23
Alignment explanation
Indices: 1036615--1036664 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1036605 AAATATTATT
*
1036615 AATTACACAAAAATATTAATAAA
1 AATTACACAAAAAAATTAATAAA
1036638 AATTACACAAAAAAATTAATAAA
1 AATTACACAAAAAAATTAATAAA
1036661 AATT
1 AATT
1036665 TTGACCGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTACACAAAAAAATTAATAAA
Found at i:1038475 original size:18 final size:19
Alignment explanation
Indices: 1038437--1038480 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
1038427 TACAATTTTT
* *
1038437 TTATAAAAAAAAATTATAA
1 TTATAAAAAAAAATAAAAA
*
1038456 TT-TAAAAATAAATAAAAA
1 TTATAAAAAAAAATAAAAA
1038474 TTATAAA
1 TTATAAA
1038481 TATGATATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TTATAAAAAAAAATAAAAA
Found at i:1038480 original size:13 final size:13
Alignment explanation
Indices: 1038437--1038482 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
1038427 TACAATTTTT
*
1038437 TTATAAAAAAAAA
1 TTATAAATAAAAA
* *
1038450 TTATAATTTAAAA
1 TTATAAATAAAAA
1038463 --ATAAATAAAAA
1 TTATAAATAAAAA
1038474 TTATAAATA
1 TTATAAATA
1038483 TGATATTCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
11 9 0.35
13 17 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTATAAATAAAAA
Found at i:1038723 original size:21 final size:20
Alignment explanation
Indices: 1038696--1038735 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1038686 TTTGTTTGAG
1038696 TAAAAAAAT-GAAAAGATAGA
1 TAAAAAAATGGAAAA-ATAGA
1038716 TAAAAAAATGGAAAAATAGA
1 TAAAAAAATGGAAAAATAGA
1038736 AAGAAAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
TAAAAAAATGGAAAAATAGA
Found at i:1040278 original size:2 final size:2
Alignment explanation
Indices: 1040271--1040311 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1040261 AGTCGCTTGT
1040271 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1040312 TTGAGTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1040981 original size:29 final size:29
Alignment explanation
Indices: 1040949--1041005 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1040939 ATAATTATAA
1040949 TAAAAATAAAAAATT-TTCTTTAAAAATTT
1 TAAAAATAAAAAATTATT-TTTAAAAATTT
* * *
1040978 TAAAAGTTAAAAATTATTTTTAATAATT
1 TAAAAATAAAAAATTATTTTTAAAAATT
1041006 ATTTTCTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (29 bp):
TAAAAATAAAAAATTATTTTTAAAAATTT
Found at i:1041433 original size:30 final size:30
Alignment explanation
Indices: 1041340--1041433 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
1041330 TTCAACTAAA
* * * *
1041340 AAATAA-CTATTAATCTTTAATTTGTATTC
1 AAATAAGCTTTTAATTTTTAATTTATATCC
* * * *
1041369 AAACAAGATTTTAACTTTTAATTTATA-CTT
1 AAATAAGCTTTTAATTTTTAATTTATATC-C
*
1041399 AAATAAGCTTTTAATTTTTAATATATATCC
1 AAATAAGCTTTTAATTTTTAATTTATATCC
1041429 AAATA
1 AAATA
1041434 TGTTTAAAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
29 5 0.10
30 43 0.88
31 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATAAGCTTTTAATTTTTAATTTATATCC
Found at i:1042490 original size:29 final size:27
Alignment explanation
Indices: 1042432--1042501 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
1042422 TTATAGATTA
** *
1042432 TAAATAAATAAAAAATAATCATCTATT
1 TAAATAAATAAAAAATAAGAATCTACT
*
1042459 TAAATATAATAAAAATATAAGAATTTACT
1 TAAATA-AATAAAAA-ATAAGAATCTACT
1042488 TAAA-AAAGTAAAAA
1 TAAATAAA-TAAAAA
1042502 TTTAAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.22
28 15 0.42
29 13 0.36
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (27 bp):
TAAATAAATAAAAAATAAGAATCTACT
Found at i:1043358 original size:11 final size:12
Alignment explanation
Indices: 1043333--1043366 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
1043323 TGTATTTGTG
1043333 TTTTCTTTCTTCT
1 TTTTCTTT-TTCT
1043346 TTTT-TTTTTCT
1 TTTTCTTTTTCT
1043357 TTTTCTTTTT
1 TTTTCTTTTT
1043367 AAGGAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:1043362 original size:17 final size:18
Alignment explanation
Indices: 1043333--1043366 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1043323 TGTATTTGTG
1043333 TTTTCTTTCTTCTTTTTT
1 TTTTCTTTCTTCTTTTTT
1043351 TTTTCTTT-TTCTTTTT
1 TTTTCTTTCTTCTTTTT
1043367 AAGGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTCTTTCTTCTTTTTT
Found at i:1044100 original size:17 final size:18
Alignment explanation
Indices: 1044059--1044103 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
1044049 TTTTTTTAGT
*
1044059 ATTTATATATT-TGATAC
1 ATTTATATATTATGATAA
1044076 A-TTA-ATATTAT-ATAA
1 ATTTATATATTATGATAA
1044091 ATTTATATATTAT
1 ATTTATATATTAT
1044104 CAATAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 9 0.38
16 7 0.29
17 8 0.33
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTATATATTATGATAA
Found at i:1045039 original size:30 final size:30
Alignment explanation
Indices: 1045005--1045075 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
1044995 ATCAAATTTG
1045005 AATT-AACTTAATATAATCAAAATTTAAAAT
1 AATTAAACTTAATA-AATCAAAATTTAAAAT
* **
1045035 AATTAAATTTAATAAATTTAAATTT-AAAT
1 AATTAAACTTAATAAATCAAAATTTAAAAT
*
1045064 -ATTAAAATTAAT
1 AATTAAACTTAAT
1045076 TTATCTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.31
29 4 0.11
30 13 0.36
31 8 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (30 bp):
AATTAAACTTAATAAATCAAAATTTAAAAT
Found at i:1045070 original size:37 final size:36
Alignment explanation
Indices: 1045024--1045180 Score: 90
Period size: 37 Copynumber: 4.2 Consensus size: 36
1045014 AATATAATCA
1045024 AAATTTAAAATAATTAAATTTA-ATAAATTTAAATTT
1 AAATTTAAAATAATTAAATTTACATAAATTT-AATTT
* * * **
1045060 AAATATTAAAATTAATT-TATCTAAATTCGA-TTAATTT
1 AAAT-TTAAAA-TAATTAAATTTACA-TAAATTTAATTT
* * * * *
1045097 AAATATTAAACTCATTTGATTTTACATAAA-ATAATTT
1 AAAT-TTAAAAT-AATTAAATTTACATAAATTTAATTT
*
1045134 AAATTTAAAATAATTTAAATTTA-ATTAATTTTAAGTATT
1 AAATTTAAAATAA-TTAAATTTACA-TAAATTTAA-T-TT
1045173 AAATTTAA
1 AAATTTAA
1045181 TTGATCTGAA
Statistics
Matches: 91, Mismatches: 19, Indels: 19
0.71 0.15 0.15
Matches are distributed among these distances:
35 2 0.02
36 21 0.23
37 43 0.47
38 13 0.14
39 12 0.13
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (36 bp):
AAATTTAAAATAATTAAATTTACATAAATTTAATTT
Found at i:1045164 original size:15 final size:15
Alignment explanation
Indices: 1045024--1045164 Score: 63
Period size: 15 Copynumber: 9.0 Consensus size: 15
1045014 AATATAATCA
*
1045024 AAATTTAAAATAA-TT
1 AAATTT-AATTAATTT
*
1045039 AAATTTAATAAATTT
1 AAATTTAATTAATTT
*
1045054 AAATTTAAAT-A-TT
1 AAATTTAATTAATTT
* * *
1045067 AAAATTAATTTATCT
1 AAATTTAATTAATTT
**
1045082 AAATTCGATTAATTT
1 AAATTTAATTAATTT
* *
1045097 AAATATTAAACTCATTT
1 AAAT-TT-AATTAATTT
* *
1045114 GATTTTACATAAAATAATTT
1 AAATTTA-AT----TAATTT
*
1045134 AAATTTAAAATAATTT
1 AAATTT-AATTAATTT
1045150 AAATTTAATTAATTT
1 AAATTTAATTAATTT
1045165 TAAGTATTAA
Statistics
Matches: 91, Mismatches: 24, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
13 10 0.11
14 6 0.07
15 40 0.44
16 16 0.18
17 8 0.09
20 10 0.11
21 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (15 bp):
AAATTTAATTAATTT
Found at i:1045167 original size:16 final size:16
Alignment explanation
Indices: 1045123--1045157 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1045113 TGATTTTACA
1045123 TAAAATAATTTAAATT
1 TAAAATAATTTAAATT
1045139 TAAAATAATTTAAATT
1 TAAAATAATTTAAATT
1045155 TAA
1 TAA
1045158 TTAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATAATTTAAATT
Found at i:1046360 original size:2 final size:2
Alignment explanation
Indices: 1046353--1046381 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1046343 CGTTCAATTC
1046353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1046382 CACACATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1047969 original size:14 final size:14
Alignment explanation
Indices: 1047950--1047978 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1047940 ATTTGGGTGA
1047950 TCTTCAAATATTAT
1 TCTTCAAATATTAT
1047964 TCTTCAAATATTAT
1 TCTTCAAATATTAT
1047978 T
1 T
1047979 TCATCATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
TCTTCAAATATTAT
Found at i:1052533 original size:2 final size:2
Alignment explanation
Indices: 1052526--1052558 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1052516 AAATGAGATG
1052526 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1052559 TTAAAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1053514 original size:2 final size:2
Alignment explanation
Indices: 1053507--1053543 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1053497 TAGATCTATA
1053507 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1053544 TATACATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1054840 original size:27 final size:27
Alignment explanation
Indices: 1054810--1054872 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
1054800 TTACGATGCG
1054810 AATCAAACTCAAA-TCGAATTTGATCAA
1 AATCAAACTCAAACT-GAATTTGATCAA
*
1054837 AATCAAACTCGAACTGAATTTGATCAA
1 AATCAAACTCAAACTGAATTTGATCAA
1054864 AATCAAACT
1 AATCAAACT
1054873 GAACACTGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (27 bp):
AATCAAACTCAAACTGAATTTGATCAA
Found at i:1059823 original size:2 final size:2
Alignment explanation
Indices: 1059805--1059844 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
1059795 AATCATTTTA
*
1059805 AT AT AGT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1059845 AGTATTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1064966 original size:5 final size:5
Alignment explanation
Indices: 1064956--1064980 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1064946 TCTGTTTGGC
1064956 TAAGG TAAGG TAAGG TAAGG TAAGG
1 TAAGG TAAGG TAAGG TAAGG TAAGG
1064981 CTGTCTTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
TAAGG
Found at i:1065156 original size:26 final size:25
Alignment explanation
Indices: 1065125--1065208 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 25
1065115 AATAGTTTTG
*
1065125 ATTTATTTATATTATTTTTTAATTAT
1 ATTTATTTA-AATATTTTTTAATTAT
*
1065151 ATTTATATTTAAAATATTTTTTATTTAT
1 A-TT-TATTT-AAATATTTTTTAATTAT
**
1065179 ATAAATTTAAATATTTTTATAATTTAT
1 ATTTATTTAAATATTTTT-TAA-TTAT
1065206 ATT
1 ATT
1065209 ATATATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
25 10 0.21
26 7 0.15
27 9 0.19
28 20 0.43
29 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTATTTAAATATTTTTTAATTAT
Found at i:1065208 original size:40 final size:41
Alignment explanation
Indices: 1065164--1065251 Score: 92
Period size: 40 Copynumber: 2.1 Consensus size: 41
1065154 TATATTTAAA
*
1065164 ATATTTTTTA-TTTATATAAATTTAAATATT-TTTATAAT-TT
1 ATATTTTATATTTTA-ATAAATTTAAATATTATTT-TAATATT
* * *
1065204 ATATTATATATTTTAATATATTTATATATTATTTTAATAATT
1 ATATTTTATATTTTAATAAATTTAAATATTATTTTAAT-ATT
1065246 ATATTT
1 ATATTT
1065252 ACAATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
40 25 0.64
41 7 0.18
42 7 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (41 bp):
ATATTTTATATTTTAATAAATTTAAATATTATTTTAATATT
Found at i:1065211 original size:32 final size:31
Alignment explanation
Indices: 1065170--1065231 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
1065160 TAAAATATTT
*
1065170 TTTATTTATATAAATTTAA-ATATTTTTATAA
1 TTTATTTATAT-AATTTAATATATTTATATAA
*
1065201 TTTATATTATATATTTTAATATATTTATATA
1 TTTAT-TTATATAATTTAATATATTTATATA
1065232 TTATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTATTTATATAATTTAATATATTTATATAA
Found at i:1065228 original size:30 final size:30
Alignment explanation
Indices: 1065147--1065229 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 30
1065137 TATTTTTTAA
* * *
1065147 TTATATT-TATA-TTTAAAATATTTTTTAT
1 TTATATTATATATTTTAATATATTTATAAT
* *
1065175 TTATA-TA-A-ATTTAAATATTTTTATAAT
1 TTATATTATATATTTTAATATATTTATAAT
1065202 TTATATTATATATTTTAATATATTTATA
1 TTATATTATATATTTTAATATATTTATA
1065230 TATTATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.02
27 19 0.44
28 7 0.16
29 1 0.02
30 15 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTATATTATATATTTTAATATATTTATAAT
Found at i:1065236 original size:21 final size:21
Alignment explanation
Indices: 1065189--1065249 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
1065179 ATAAATTTAA
*
1065189 ATATTTTTATAATTTATATTAT
1 ATATTTTAATAATTTATA-TAT
1065211 ATATTTTAATATATTTATATAT
1 ATATTTTAATA-ATTTATATAT
1065233 -TATTTTAATAA-TTATAT
1 ATATTTTAATAATTTATAT
1065250 TTACAATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.16
20 1 0.03
21 10 0.27
22 13 0.35
23 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTTTAATAATTTATATAT
Found at i:1065553 original size:27 final size:29
Alignment explanation
Indices: 1065499--1065554 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
1065489 ACGATAATAA
* *
1065499 ATAATATAAAATATAAGATGAATTAAGAT
1 ATAATATAAAAAATAAGATGAATAAAGAT
*
1065528 ATAATA-AAAAAATAATATGAA-AAAGAT
1 ATAATATAAAAAATAAGATGAATAAAGAT
1065555 TAAAATACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (29 bp):
ATAATATAAAAAATAAGATGAATAAAGAT
Found at i:1066043 original size:30 final size:28
Alignment explanation
Indices: 1066007--1066107 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
1065997 ATTGTGACAT
*
1066007 AATATAAACATAAAATAAAAAAATAATTAA
1 AATAT-AATATAAAATAAAAAAATAA-TAA
*
1066037 AATATAATATAACATTAAAAAAATAA-AA
1 AATATAATATAA-AATAAAAAAATAATAA
* *
1066065 AATATAATAT-AAATATATAAATATATCAA
1 AATATAATATAAAATAAAAAAATA-AT-AA
1066094 AATATAA-ATAAAAT
1 AATATAATATAAAAT
1066108 TAATTATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
26 9 0.15
27 2 0.03
28 14 0.23
29 19 0.31
30 17 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (28 bp):
AATATAATATAAAATAAAAAAATAATAA
Found at i:1066066 original size:28 final size:27
Alignment explanation
Indices: 1066007--1066110 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 27
1065997 ATTGTGACAT
* *
1066007 AATATAAACATAAAATAAAAAAATAATTAA
1 AATAT-AATATAAATTAAAAAAATAA--AA
1066037 AATATAATATAACATTAAAAAAATAAAA
1 AATATAATATAA-ATTAAAAAAATAAAA
* * *
1066065 AATATAATATAAATATATAAATATATCAA
1 AATATAATATAAAT-TAAAAAAATA-AAA
1066094 AATATAA-ATAAAATTAA
1 AATATAATAT-AAATTAA
1066111 TTATTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.03
28 26 0.41
29 19 0.30
30 17 0.27
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (27 bp):
AATATAATATAAATTAAAAAAATAAAA
Found at i:1066096 original size:10 final size:8
Alignment explanation
Indices: 1066071--1066103 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
1066061 AAAAAATATA
1066071 ATATAAAT
1 ATATAAAT
1066079 ATATAAAT
1 ATATAAAT
1066087 ATATCAAA-
1 ATAT-AAAT
1066095 ATATAAAT
1 ATATAAAT
1066103 A
1 A
1066104 AAATTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.13
8 17 0.74
9 3 0.13
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:1066098 original size:16 final size:14
Alignment explanation
Indices: 1066007--1066103 Score: 57
Period size: 14 Copynumber: 7.3 Consensus size: 14
1065997 ATTGTGACAT
*
1066007 AATATAAACATA-A
1 AATATAAAAATATA
1066020 AATA-AAAAA-AT-
1 AATATAAAAATATA
1066031 AAT-T-AAAATAT-
1 AATATAAAAATATA
* * *
1066042 AATATAACATTAAA
1 AATATAAAAATATA
*
1066056 AAAATAAAAA-ATA
1 AATATAAAAATATA
*
1066069 TAATATAAATATATA
1 -AATATAAAAATATA
1066084 AATATATCAAAATATA
1 AATATA--AAAATATA
1066100 AATA
1 AATA
1066104 AAATTAATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
10 4 0.06
11 9 0.14
12 5 0.08
13 10 0.16
14 21 0.33
15 3 0.05
16 11 0.17
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AATATAAAAATATA
Found at i:1066171 original size:21 final size:22
Alignment explanation
Indices: 1066145--1066195 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
1066135 AAAAAATAAA
1066145 AACATAAACACT-ATAAAAAA-T
1 AACATAAACA-TAATAAAAAAGT
1066166 AACAT-AACATAATAAAAAAGT
1 AACATAAACATAATAAAAAAGT
*
1066187 AATATAAAC
1 AACATAAAC
1066196 GTACCAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 10 0.38
22 3 0.12
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.20
Consensus pattern (22 bp):
AACATAAACATAATAAAAAAGT
Found at i:1069216 original size:19 final size:20
Alignment explanation
Indices: 1069186--1069232 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1069176 TAATGCTATT
*
1069186 TATTATTAAAATATTAATTA
1 TATTAATAAAATATTAATTA
* *
1069206 TA-TAATAAAATTTTATTTA
1 TATTAATAAAATATTAATTA
1069225 TATTAATA
1 TATTAATA
1069233 TAATTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAATAAAATATTAATTA
Done.