Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 24 of 222
Found at i:7416144 original size:26 final size:26
Alignment explanation
Indices: 7416081--7416146 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
7416071 CATTCCAACC
* *
7416081 CACAGCTCATGTAAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
* *
7416107 CACAACTTGTGTGAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
7416133 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
7416147 ACACTATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:7429168 original size:20 final size:18
Alignment explanation
Indices: 7429141--7429188 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7429131 GTTCACGTGT
7429141 ATATATATAGAGTATATAA
1 ATATATATA-AGTATATAA
* *
7429160 ATAATATATAAGTATGTAT
1 AT-ATATATAAGTATATAA
7429179 ATATATATAA
1 ATATATATAA
7429189 AATAAGCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (18 bp):
ATATATATAAGTATATAA
Found at i:7429304 original size:33 final size:32
Alignment explanation
Indices: 7429244--7429305 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
7429234 ATATAAAAGC
*
7429244 AATTATATAATAATAATAATAATAATAAACAA
1 AATTATATAATAATAATAATAAGAATAAACAA
*
7429276 AATTAATATAAT-ATAATAATGAGGAATAAA
1 AATT-ATATAATAATAATAAT-AAGAATAAA
7429306 TAATTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (32 bp):
AATTATATAATAATAATAATAAGAATAAACAA
Found at i:7431261 original size:29 final size:30
Alignment explanation
Indices: 7431204--7431261 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
7431194 AATTTATATT
* *
7431204 TTGACCCCTAAGTTTTTTTGAATTTTCATC
1 TTGACCCCTAAGTTTTTTTGAAATATCATC
7431234 TTGACCCCTAA-TTTTTTAT-AAATATCAT
1 TTGACCCCTAAGTTTTTT-TGAAATATCAT
7431262 TCGGGCCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (30 bp):
TTGACCCCTAAGTTTTTTTGAAATATCATC
Found at i:7432508 original size:19 final size:18
Alignment explanation
Indices: 7432454--7432520 Score: 100
Period size: 17 Copynumber: 3.7 Consensus size: 18
7432444 GTTAAACACG
7432454 ATTCTCGTGTTTTTTTAA
1 ATTCTCGTGTTTTTTTAA
*
7432472 ATTCTCGTG-TTATTTAA
1 ATTCTCGTGTTTTTTTAA
7432489 ATTCTCGTGTTTTTTTTAA
1 ATTCTCGTG-TTTTTTTAA
*
7432508 ATTCTCATGTTTT
1 ATTCTCGTGTTTT
7432521 AATAGAATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.36
18 13 0.30
19 15 0.34
ACGTcount: A:0.18, C:0.12, G:0.10, T:0.60
Consensus pattern (18 bp):
ATTCTCGTGTTTTTTTAA
Found at i:7432664 original size:18 final size:18
Alignment explanation
Indices: 7432638--7432926 Score: 191
Period size: 17 Copynumber: 15.8 Consensus size: 18
7432628 TTAAAAAAAA
7432638 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
7432655 TCATGTTTTCAGAAAAATT
1 TCGTGTTTTCA-AAAATTT
*
7432674 TCTTGTGTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
* * * ***
7432693 CCGGGTTTTTTAAAAAAAA
1 TCGTG-TTTTCAAAAATTT
*
7432712 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
7432730 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
7432747 TCGTGTTTTC-AAAA-TT
1 TCGTGTTTTCAAAAATTT
7432763 TCAGTG-TTTCAAAAATTT
1 TC-GTGTTTTCAAAAATTT
*
7432781 TCGTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
* *
7432800 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTTCAAAAATTT
* * *
7432819 CCGT-ATTTCGAAAATTT
1 TCGTGTTTTCAAAAATTT
*
7432836 TCTTGTTTTCAAAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
7432857 TCCGTG-TTTCATAAATTT
1 T-CGTGTTTTCAAAAATTT
* *
7432875 CCGTGTTTTCAAAAAAAATTC
1 TCGTGTTTTC---AAAAATTT
*
7432896 TCGT-CTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
7432913 TCGTG-TTTCAAAAA
1 TCGTGTTTTCAAAAA
7432927 AAATCCTTGT
Statistics
Matches: 210, Mismatches: 41, Indels: 42
0.72 0.14 0.14
Matches are distributed among these distances:
16 7 0.03
17 67 0.32
18 49 0.23
19 45 0.21
20 18 0.09
21 21 0.10
22 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:7432675 original size:19 final size:19
Alignment explanation
Indices: 7432640--7432815 Score: 88
Period size: 18 Copynumber: 9.6 Consensus size: 19
7432630 AAAAAAAATC
*
7432640 GTGTTTCAAAAATTTTCAT
1 GTGTTTCAAAAAATTTCAT
*
7432659 GT-TTTCAGAAAAATTTCTT
1 GTGTTTCA-AAAAATTTCAT
**
7432678 GTGTTTC-AAAAATTTCCGG
1 GTGTTTCAAAAAATTT-CAT
* * ** *
7432697 GTTTTTTAAAAAAAATCGT
1 GTGTTTCAAAAAATTTCAT
7432716 GT-TTTC-AAAAATTCTCA-
1 GTGTTTCAAAAAATT-TCAT
*
7432733 -TGTTTC-AAAAATCTTCGT
1 GTGTTTCAAAAAAT-TTCAT
7432751 GT-TTTC--AAAATTTCA-
1 GTGTTTCAAAAAATTTCAT
* *
7432766 GTGTTTCAAAAATTTTCGT
1 GTGTTTCAAAAAATTTCAT
* **
7432785 AT-TTTCAAAAAATTTCCC
1 GTGTTTCAAAAAATTTCAT
7432803 GTGTTTTCAAAAA
1 GTG-TTTCAAAAA
7432816 TTCCCGTATT
Statistics
Matches: 120, Mismatches: 22, Indels: 29
0.70 0.13 0.17
Matches are distributed among these distances:
15 2 0.02
16 8 0.07
17 22 0.18
18 44 0.37
19 25 0.21
20 19 0.16
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (19 bp):
GTGTTTCAAAAAATTTCAT
Found at i:7432683 original size:38 final size:37
Alignment explanation
Indices: 7432640--7432941 Score: 178
Period size: 38 Copynumber: 8.2 Consensus size: 37
7432630 AAAAAAAATC
*
7432640 GTGTTTCAAAAATTTTCATGTTTTCAGAAAAATTTCTT
1 GTGTTTCAAAAATTTTCGTGTTTTCA-AAAAATTTCTT
* * * ** *
7432678 GTGTTTCAAAAATTTCCGGGTTTTTTAAAAAAAATCGT
1 GTGTTTCAAAAATTTTCGTG-TTTTCAAAAAATTTCTT
* * *
7432716 GT-TTTCAAAAATTCTCATG-TTTC-AAAAATCTTCGT
1 GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAT-TTCTT
* *
7432751 GT-TTTC-AAAA-TTTCAGTG-TTTCAAAAATTTTCGT
1 GTGTTTCAAAAATTTTC-GTGTTTTCAAAAAATTTCTT
* * **
7432785 AT-TTTCAAAAAATTTCCCGTGTTTTC-AAAAA-TTCCC
1 GTGTTTC-AAAAATTT-TCGTGTTTTCAAAAAATTTCTT
* * * *
7432821 GTATTTCGAAAATTTTCTTGTTTTCAAAAAAAATTT-TCC
1 GTGTTTCAAAAATTTTCGTGTTTTC--AAAAAATTTCT-T
* * * *
7432860 GTGTTTCATAAATTTCCGTGTTTTCAAAAAAAATTCTC
1 GTGTTTCAAAAATTTTCGTGTTTTC-AAAAAATTTCTT
* * *
7432898 GTCTTTCAAAAATTTTCGTG-TTTCAAAAAAAATCCTT
1 GTGTTTCAAAAATTTTCGTGTTTTC-AAAAAATTTCTT
7432935 GTGTTTC
1 GTGTTTC
7432942 GTATTTTATC
Statistics
Matches: 209, Mismatches: 39, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
33 3 0.01
34 25 0.12
35 26 0.12
36 15 0.07
37 47 0.22
38 64 0.31
39 29 0.14
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (37 bp):
GTGTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCTT
Found at i:7432742 original size:16 final size:16
Alignment explanation
Indices: 7432718--7432776 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
7432708 AAAATCGTGT
7432718 TTTCAAAAATTCTCATG
1 TTTC-AAAATTCTCATG
* *
7432735 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TCATG
7432752 TTTTCAAAATT-TCAGTG
1 -TTTCAAAATTCTCA-TG
7432769 TTTCAAAA
1 TTTCAAAA
7432777 ATTTTCGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 16 0.46
17 10 0.29
18 9 0.26
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (16 bp):
TTTCAAAATTCTCATG
Found at i:7432928 original size:20 final size:20
Alignment explanation
Indices: 7432829--7433084 Score: 100
Period size: 20 Copynumber: 13.0 Consensus size: 20
7432819 CCGTATTTCG
*
7432829 AAAATTTTCTTGTTTTCAAAA
1 AAAATTTTCGTG-TTTCAAAA
7432850 AAAATTTTCCGTGTTTC---A
1 AAAATTTT-CGTGTTTCAAAA
* *
7432868 TAAATTTCCGTGTTTTCAAAA
1 AAAATTTTCGTG-TTTCAAAA
* *
7432889 AAAATTCTCGTCTTTC---A
1 AAAATTTTCGTGTTTCAAAA
7432906 AAAATTTTCGTGTTTCAAAA
1 AAAATTTTCGTGTTTCAAAA
* **
7432926 AAAATCCTT-GTGTTTCGTATTTTATC
1 AAAAT-TTTCGTGTTTC--A----AAA
* **
7432952 CAAATTTTTATGTTTTCAAAA
1 AAAATTTTCGTG-TTTCAAAA
*
7432973 ACAAATTTT-GTGTTT---TA
1 A-AAATTTTCGTGTTTCAAAA
7432990 AAAATTTTCGTGTTTCAAAA
1 AAAATTTTCGTGTTTCAAAA
*
7433010 AGAAA-ATTCGTGTTTTCAAAA
1 A-AAATTTTCGTG-TTTCAAAA
*
7433031 AAAA-TCTCGTGTTTC----
1 AAAATTTTCGTGTTTCAAAA
**
7433046 AAAATTTTCGTGTTT-TTAA
1 AAAATTTTCGTGTTTCAAAA
7433065 AAAA-TTTCGTGTTTCTAAAA
1 AAAATTTTCGTGTTTC-AAAA
7433085 TTCTTTTATT
Statistics
Matches: 177, Mismatches: 27, Indels: 63
0.66 0.10 0.24
Matches are distributed among these distances:
15 4 0.02
16 16 0.09
17 27 0.15
18 21 0.12
19 8 0.05
20 38 0.21
21 38 0.21
22 11 0.06
25 3 0.02
26 7 0.04
27 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAATTTTCGTGTTTCAAAA
Found at i:7432977 original size:22 final size:20
Alignment explanation
Indices: 7432952--7432993 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7432942 GTATTTTATC
7432952 CAAATTTTTATGTTTTCAAAAA
1 CAAA-TTTTATGTTTT-AAAAA
*
7432974 CAAATTTTGTGTTTTAAAAA
1 CAAATTTTATGTTTTAAAAA
7432994 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
CAAATTTTATGTTTTAAAAA
Found at i:7432996 original size:16 final size:17
Alignment explanation
Indices: 7432975--7433086 Score: 75
Period size: 16 Copynumber: 6.3 Consensus size: 17
7432965 TTTCAAAAAC
*
7432975 AAATTTT-GTGTTTTAA
1 AAATTTTCGTGTTTCAA
7432991 AAATTTTCGTGTTTCAAAA
1 AAATTTTCGTGTTTC--AA
**
7433010 AGAAAATTCGTGTTTTCAAAA
1 A-AATTTTCGTG-TTTC--AA
* *
7433031 AAAATCTCGTGTTTC-A
1 AAATTTTCGTGTTTCAA
*
7433047 AAATTTTCGTGTTTTTAA
1 AAATTTTCGTG-TTTCAA
* *
7433065 AAAATTTCGTGTTTCTA
1 AAATTTTCGTGTTTCAA
7433082 AAATT
1 AAATT
7433087 CTTTTATTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
16 17 0.22
17 17 0.22
18 11 0.14
19 7 0.09
20 16 0.21
21 9 0.12
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.45
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:7433004 original size:38 final size:37
Alignment explanation
Indices: 7432640--7433031 Score: 150
Period size: 38 Copynumber: 10.3 Consensus size: 37
7432630 AAAAAAAATC
* * * *
7432640 GTGTTTCAAAAATTTTCATGTTTTCAGAAAAATTTCTT
1 GTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAATT-TT
* * * * *
7432678 GTGTTTCAAAAATTTCCGGGTTTTTTAAAAAAAA--TC
1 GTGTTTTAAAAATTTTCGTG-TTTTCAAAAAAAATTTT
* * *
7432714 GTGTTTTCAAAAATTCTCATG-TTTC---AAAAATCTTC
1 GTGTTTT-AAAAATTTTCGTGTTTTCAAAAAAAAT-TTT
*
7432749 GTGTTTTCAAAA-TTTCAGTG-TTTC---AAAAATTTT
1 GTGTTTTAAAAATTTTC-GTGTTTTCAAAAAAAATTTT
* * **
7432782 CGTATTTTCAAAAAATTTCCCGTGTTTTC---AAAAATTCCC
1 -GTGTTTT--AAAAATTT-TCGTGTTTTCAAAAAAAATT-TT
* ** *
7432821 GTATTTCGAAAATTTTCTTGTTTTCAAAAAAAATTTT
1 GTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAATTTT
* * * *
7432858 CCGTGTTTCATAAATTTCCGTGTTTTCAAAAAAAATTCTC
1 --GTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAATT-TT
* *
7432898 GTCTTTCAAAAATTTTCGTG-TTTCAAAAAAAATCCTTGT
1 GTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAAT--TT-T
* **
7432937 GTTTCGTATTTTATCCAAATTTTTATGTTTTCAAAAACAAATTTT
1 G--T-G--TTTTA--AAAATTTTCGTGTTTTCAAAAA-AAATTTT
* *
7432982 GTGTTTTAAAAATTTTCGTG-TTTCAAAAAGAAAATTC
1 GTGTTTTAAAAATTTTCGTGTTTTCAAAAA-AAATTTT
7433019 GTGTTTTCAAAAA
1 GTGTTTT-AAAAA
7433032 AAATCTCGTG
Statistics
Matches: 273, Mismatches: 49, Indels: 64
0.71 0.13 0.17
Matches are distributed among these distances:
32 5 0.02
33 5 0.02
34 22 0.08
35 20 0.07
36 18 0.07
37 48 0.18
38 74 0.27
39 42 0.15
40 6 0.02
41 1 0.00
42 1 0.00
43 1 0.00
44 4 0.01
45 2 0.01
46 11 0.04
47 9 0.03
48 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (37 bp):
GTGTTTTAAAAATTTTCGTGTTTTCAAAAAAAATTTT
Found at i:7433023 original size:37 final size:38
Alignment explanation
Indices: 7432965--7433049 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 38
7432955 ATTTTTATGT
* * * *
7432965 TTTCAAAAACAAATTTTGTGTTTT-AAAAATTTTCGTG
1 TTTCAAAAACAAAATTCGTGTTTTAAAAAAATCTCGTG
*
7433002 TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAAATCTCGTG
1 TTTCAAAAACAAAATTCGTGTTTT--AAAAAAATCTCGTG
7433042 TTTCAAAA
1 TTTCAAAA
7433050 TTTTCGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 21 0.52
40 19 0.47
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (38 bp):
TTTCAAAAACAAAATTCGTGTTTTAAAAAAATCTCGTG
Found at i:7433049 original size:18 final size:18
Alignment explanation
Indices: 7432965--7433084 Score: 84
Period size: 18 Copynumber: 6.5 Consensus size: 18
7432955 ATTTTTATGT
*
7432965 TTTCAAAAACAAATTTTGTG
1 TTTC-AAAA-AAATTTCGTG
* *
7432985 TTT-TAAAAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
*
7433002 TTTCAAAAAGAAAATTCGTG
1 TTTC-AAAA-AAATTTCGTG
*
7433022 TTTTCAAAAAAAATCTCGTG
1 -TTTC-AAAAAAATTTCGTG
*
7433042 TTTC--AAAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
**
7433058 TTTTTAAAAAATTTCGTG
1 TTTCAAAAAAATTTCGTG
*
7433076 TTTCTAAAA
1 TTTCAAAAA
7433085 TTCTTTTATT
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
16 13 0.16
17 11 0.14
18 22 0.27
19 7 0.09
20 19 0.23
21 9 0.11
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTCAAAAAAATTTCGTG
Found at i:7433067 original size:36 final size:36
Alignment explanation
Indices: 7433016--7433122 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 36
7433006 AAAAAGAAAA
*
7433016 TTCGTGTTTTCAAAAAAAATCTCGTGTTTCAAAATT-
1 TTCGTGTTTTTAAAAAAAAT-TCGTGTTTCAAAATTC
*
7433052 TTCGTGTTTTT-AAAAAATTTCGTGTTTCTAAAATTC
1 TTCGTGTTTTTAAAAAAAATTCGTGTTTC-AAAATTC
* *
7433088 TT-TTATTTTTAAAAAAAAAATTCGTGTTTTCAAAA
1 TTCGTGTTTTT--AAAAAAAATTCGTG-TTTCAAAA
7433123 AAAGAAAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
34 9 0.15
35 19 0.32
36 12 0.20
38 16 0.27
39 4 0.07
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (36 bp):
TTCGTGTTTTTAAAAAAAATTCGTGTTTCAAAATTC
Found at i:7439885 original size:52 final size:52
Alignment explanation
Indices: 7439814--7440155 Score: 465
Period size: 52 Copynumber: 6.8 Consensus size: 52
7439804 ATCAAGTGAC
* **
7439814 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7439866 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7439918 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
7439964 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7440016 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
7440062 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
**
7440114 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG
7440156 AAACAAAGTG
Statistics
Matches: 259, Mismatches: 19, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.33
52 174 0.67
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:7439936 original size:98 final size:98
Alignment explanation
Indices: 7439866--7440172 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
7439856 TGACAAGTGG
* *
7439866 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
7439931 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
7439964 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
7440029 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
7440062 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * **
7440127 ATAGCTTTA-G-CTACACTTATCTGATCAAGAAAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
7440160 AAAGTGATAAGTG
1 AAAGTGATAAGTG
7440173 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:7440020 original size:150 final size:144
Alignment explanation
Indices: 7439800--7440155 Score: 577
Period size: 150 Copynumber: 2.4 Consensus size: 144
7439790 TTTGAGTACT
7439800 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
7439865 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
7439930 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
7439950 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
7440015 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
7440080 TTCGGCTACACTTA
131 TTCGGCTACACTTA
*
7440094 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
7440156 AAACAAAGTG
Statistics
Matches: 197, Mismatches: 3, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
144 44 0.22
150 153 0.78
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:7440180 original size:37 final size:37
Alignment explanation
Indices: 7440136--7440244 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
7440126 GATAGCTTTA
7440136 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
7440173 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
7440210 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
7440245 ATCATACGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:7440932 original size:11 final size:11
Alignment explanation
Indices: 7440916--7440950 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
7440906 TCCTACTTTA
7440916 TTTTATTT-TT
1 TTTTATTTCTT
7440926 CTTTTATTTCTT
1 -TTTTATTTCTT
7440938 TTTTATTTCTT
1 TTTTATTTCTT
7440949 TT
1 TT
7440951 CTAGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 21 0.91
12 2 0.09
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTCTT
Found at i:7446272 original size:21 final size:22
Alignment explanation
Indices: 7446246--7446291 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
7446236 AATTTTACTG
* *
7446246 TTTAAAAATAATTTTATA-AAT
1 TTTAAAAATAAATTTAAATAAT
*
7446267 TTTAAAATTAAATTTAAATAAT
1 TTTAAAAATAAATTTAAATAAT
7446289 TTT
1 TTT
7446292 TTAGTTCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAAATAAATTTAAATAAT
Found at i:7447322 original size:17 final size:17
Alignment explanation
Indices: 7447300--7447332 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7447290 ATATTTAATA
7447300 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
7447317 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
7447333 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:7448197 original size:22 final size:22
Alignment explanation
Indices: 7448155--7448197 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7448145 TGATGCTGTT
*
7448155 TTGCTATCATTTTGTTATTATA
1 TTGCTATCATTTTATTATTATA
*
7448177 TTGCTA-CTATTTTATTGTTAT
1 TTGCTATC-ATTTTATTATTAT
7448198 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTGCTATCATTTTATTATTATA
Found at i:7455884 original size:22 final size:22
Alignment explanation
Indices: 7455858--7455900 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7455848 AGATTTCAAT
*
7455858 AAATAAAAAAATATTAATATTA
1 AAATAAAAAAATATAAATATTA
* *
7455880 AAATAATATAATATAAATATT
1 AAATAAAAAAATATAAATATT
7455901 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAAAAATATAAATATTA
Found at i:7455905 original size:25 final size:26
Alignment explanation
Indices: 7455877--7455925 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
7455867 AATATTAATA
* *
7455877 TTAAAATAATATAATATA-AATATTT
1 TTAAAAAAATATAAAATATAATATTT
*
7455902 TTAAAAAAATCTAAAATATAATAT
1 TTAAAAAAATATAAAATATAATAT
7455926 GAATAGGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAAAAAAATATAAAATATAATATTT
Found at i:7456350 original size:23 final size:24
Alignment explanation
Indices: 7456323--7456370 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
7456313 TATCCATTTC
7456323 ATTATTTAAAACATAATTA-AAAA
1 ATTATTTAAAACATAATTATAAAA
**
7456346 ATTATTTAAAATTTAATTATAAAA
1 ATTATTTAAAACATAATTATAAAA
7456370 A
1 A
7456371 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTATTTAAAACATAATTATAAAA
Found at i:7457497 original size:29 final size:28
Alignment explanation
Indices: 7457443--7457501 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
7457433 TTGATACATG
*
7457443 AATTTTGATTTGGTATAATTATATATAT
1 AATTTTGATTTGGTATAAATATATATAT
*
7457471 AATTTTGATTGTGGT-TCAAATGTATATAT
1 AATTTTGATT-TGGTAT-AAATATATATAT
7457500 AA
1 AA
7457502 AATTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.49
Consensus pattern (28 bp):
AATTTTGATTTGGTATAAATATATATAT
Found at i:7461451 original size:23 final size:23
Alignment explanation
Indices: 7461407--7461452 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7461397 ACAATTCCTT
* *
7461407 AAAATTTTGGCCTCCTCTTGTGG
1 AAAAATTTGGCCTCCTCATGTGG
7461430 AAAAATTTGGCCT-CTGCATGTGG
1 AAAAATTTGGCCTCCT-CATGTGG
7461453 CTTTGATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (23 bp):
AAAAATTTGGCCTCCTCATGTGG
Found at i:7472596 original size:25 final size:25
Alignment explanation
Indices: 7472567--7472615 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
7472557 TTAGACCGAA
7472567 AAGAAACATGCCAAAGCGGCAGACG
1 AAGAAACATGCCAAAGCGGCAGACG
*
7472592 AAGAAACGTGCCAAAGCGGCAGAC
1 AAGAAACATGCCAAAGCGGCAGAC
7472616 TATTGGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.29, T:0.04
Consensus pattern (25 bp):
AAGAAACATGCCAAAGCGGCAGACG
Found at i:7473619 original size:16 final size:16
Alignment explanation
Indices: 7473598--7473630 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7473588 AAATAAAGTA
*
7473598 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
7473614 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
7473630 A
1 A
7473631 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:7476326 original size:32 final size:33
Alignment explanation
Indices: 7476264--7476331 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
7476254 TGTCTCTTTC
* *
7476264 TTTTTTTGATTGAATTTTGTCACCAGATTTTGA
1 TTTTTTTGATTGAATTTTCTCACCAGATTTTAA
**
7476297 TTTTTTT-ATTGAATTTTACTCTTCA-ATTTTAA
1 TTTTTTTGATTGAATTTT-CTCACCAGATTTTAA
7476329 TTT
1 TTT
7476332 AAAATAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (33 bp):
TTTTTTTGATTGAATTTTCTCACCAGATTTTAA
Found at i:7476633 original size:30 final size:31
Alignment explanation
Indices: 7476576--7476635 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
7476566 TCAAATCATC
* *
7476576 AAAATCAATATTAAGTGATAAACTTTAATTA
1 AAAATAAATATTAAGTGACAAACTTTAATTA
*
7476607 AAAATAAATATT-AGTGACAAATTTTAATT
1 AAAATAAATATTAAGTGACAAACTTTAATT
7476636 TGAAAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (31 bp):
AAAATAAATATTAAGTGACAAACTTTAATTA
Found at i:7478961 original size:103 final size:104
Alignment explanation
Indices: 7478782--7479046 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 104
7478772 AACCGTTATT
* * * *
7478782 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
7478847 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
7478885 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
7478950 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* * **
7478989 GGTGGATATCGCACATAGCACCACTAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
7479047 TTATGTACAA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 65 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:7479415 original size:30 final size:30
Alignment explanation
Indices: 7479381--7479438 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7479371 CCACCCAACT
7479381 TTTTGAAAAATTACA-ATTTTGCCCCCAAAC
1 TTTTGAAAAATTACACA-TTTGCCCCCAAAC
* * *
7479411 TTTTGCATAATTACACATTTGTCCCCAA
1 TTTTGAAAAATTACACATTTGCCCCCAA
7479439 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (30 bp):
TTTTGAAAAATTACACATTTGCCCCCAAAC
Found at i:7486445 original size:103 final size:104
Alignment explanation
Indices: 7486266--7486530 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
7486256 AACCGTTATT
* * * *
7486266 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
7486331 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
7486369 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
7486434 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
7486473 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
7486531 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:7492731 original size:20 final size:21
Alignment explanation
Indices: 7492706--7492746 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7492696 CTTTTTTAAA
7492706 TATATAATATA-AATTATTTT
1 TATATAATATATAATTATTTT
* *
7492726 TATATATTATATTATTATTTT
1 TATATAATATATAATTATTTT
7492747 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATAATATATAATTATTTT
Found at i:7492732 original size:22 final size:21
Alignment explanation
Indices: 7492705--7492746 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7492695 ACTTTTTTAA
7492705 ATATATAATATAAATTATTTTT
1 ATATATAATAT-AATTATTTTT
* *
7492727 ATATATTATATTATTATTTT
1 ATATATAATATAATTATTTT
7492747 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATAATATAATTATTTTT
Found at i:7495777 original size:42 final size:42
Alignment explanation
Indices: 7495718--7495801 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
7495708 AATCCTAATT
*
7495718 GGGAAAATAATTCCCTTATTCTAATCAACCACTAAAACATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
* *
7495760 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
7495802 AATAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
Found at i:7495809 original size:42 final size:42
Alignment explanation
Indices: 7495720--7495814 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
7495710 TCCTAATTGG
* **
7495720 GAAAATAATTCCCTTATTCTAATCAACCACTAAAACATAAGG
1 GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
* *
7495762 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
*
7495804 TAAAAT-ATTCC
1 GAAAATAATTCC
7495815 TAGAATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 5 0.11
42 42 0.89
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.28
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
Found at i:7495846 original size:19 final size:19
Alignment explanation
Indices: 7495822--7495867 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
7495812 TCCTAGAATA
7495822 TGAATAAAACTTATCTACC
1 TGAATAAAACTTATCTACC
* *
7495841 TGAATAAGATTTATCTACC
1 TGAATAAAACTTATCTACC
*
7495860 TAAATAAA
1 TGAATAAA
7495868 TTTAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (19 bp):
TGAATAAAACTTATCTACC
Found at i:7512260 original size:17 final size:17
Alignment explanation
Indices: 7512224--7512268 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
7512214 CCGATATAAT
* *
7512224 AAATATATTT-ATTTTT
1 AAATATTTTTAATTTTA
*
7512240 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
7512257 AAATATTTTTAA
1 AAATATTTTTAA
7512269 AATACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:7512299 original size:38 final size:37
Alignment explanation
Indices: 7512245--7512326 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 37
7512235 TTTTTAAATT
*
7512245 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 TTTTT-ATTTTAAAATATTTTTAAAATAC-TTTTTTTAA
7512284 TTTTTATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTATTTTAAAATATTTTTAAAATACTTTTTTTAA
7512321 TTTTTA
1 TTTTTA
7512327 AAATAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 14 0.33
38 23 0.55
39 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
TTTTTATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:7512337 original size:21 final size:21
Alignment explanation
Indices: 7512299--7512338 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7512289 ATTTTAAAAT
**
7512299 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
7512320 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
7512339 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:7512345 original size:22 final size:21
Alignment explanation
Indices: 7512298--7512356 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
7512288 TATTTTAAAA
* *
7512298 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
7512318 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
7512341 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
7512357 AGGCCAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:7516901 original size:57 final size:61
Alignment explanation
Indices: 7516834--7516985 Score: 161
Period size: 57 Copynumber: 2.6 Consensus size: 61
7516824 TCCTTTTTTA
*
7516834 TTATTTTATTCATTCATTCATTTATTTACTTATTTA-TT-TAT-TTATTCA-TAATTCATT
1 TTATTTTATTCATTTATTCATTTATTTACTTATTTATTTATATATTATTCACTAATTCATT
* * * * * * **
7516891 TTATTTTATTCATTTATTTAATCATATACTTATCTATTTATATATTATTCACTTATTTTTT
1 TTATTTTATTCATTTATTCATTTATTTACTTATTTATTTATATATTATTCACTAATTCATT
* *
7516952 TTATTTTAATCCTTTTATTCATTTATTTA-TTATT
1 TTATTTT-ATTCATTTATTCATTTATTTACTTATT
7516986 CCTTCAATTT
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
57 30 0.41
58 2 0.03
59 3 0.04
60 7 0.09
61 17 0.23
62 15 0.20
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (61 bp):
TTATTTTATTCATTTATTCATTTATTTACTTATTTATTTATATATTATTCACTAATTCATT
Found at i:7517115 original size:23 final size:23
Alignment explanation
Indices: 7517071--7517116 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7517061 ATTATTATTA
*
7517071 CTATGTTATTATTATCTATTTAT
1 CTATGTTATTATTACCTATTTAT
*
7517094 CTAT-TTATTTATTACCTCTTTAT
1 CTATGTTA-TTATTACCTATTTAT
7517117 TTTATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (23 bp):
CTATGTTATTATTACCTATTTAT
Found at i:7517768 original size:17 final size:18
Alignment explanation
Indices: 7517746--7517779 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7517736 TCATTTATTT
*
7517746 ATTATTACTA-TAATATG
1 ATTATTAATATTAATATG
7517763 ATTATTAATATTAATAT
1 ATTATTAATATTAATAT
7517780 TATCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTATTAATATTAATATG
Found at i:7519847 original size:21 final size:20
Alignment explanation
Indices: 7519814--7519869 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
7519804 TTTTTATTTA
7519814 AAATTTAATTATAAAATATAT
1 AAATTTAATTATAAAAT-TAT
7519835 AAATATTAA-TATAAAATTAT
1 AAAT-TTAATTATAAAATTAT
*
7519855 -ACTTTATATTATAAA
1 AAATTTA-ATTATAAA
7519870 CAAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 9 0.29
21 12 0.39
22 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTAATTATAAAATTAT
Found at i:7520988 original size:24 final size:24
Alignment explanation
Indices: 7520960--7521006 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7520950 ACCACCTCAT
*
7520960 TCATGTCCATATCCTTGACCATGG
1 TCATGACCATATCCTTGACCATGG
*
7520984 TCATGACCATGTCCTTGACCATG
1 TCATGACCATATCCTTGACCATG
7521007 ACTGCTAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (24 bp):
TCATGACCATATCCTTGACCATGG
Found at i:7521354 original size:12 final size:12
Alignment explanation
Indices: 7521336--7521376 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
7521326 AAATAAAATT
7521336 CTAAAACTAAAA
1 CTAAAACTAAAA
*
7521348 ATAAAACTAAAA
1 CTAAAACTAAAA
7521360 CTAAAACTAAAA
1 CTAAAACTAAAA
7521372 CTAAA
1 CTAAA
7521377 GTATAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (12 bp):
CTAAAACTAAAA
Found at i:7521357 original size:18 final size:18
Alignment explanation
Indices: 7521323--7521376 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
7521313 ATTTAATAAA
7521323 TAAAAATAAAATTCTAAAAC
1 TAAAAATAAAA--CTAAAAC
7521343 TAAAAATAAAACTAAAAC
1 TAAAAATAAAACTAAAAC
*
7521361 TAAAACTAAAACTAAA
1 TAAAAATAAAACTAAA
7521377 GTATAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 22 0.67
20 11 0.33
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAAAATAAAACTAAAAC
Found at i:7521430 original size:9 final size:9
Alignment explanation
Indices: 7521416--7521449 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7521406 GTAGTGATTC
7521416 AATTCGGAT
1 AATTCGGAT
*
7521425 AATTCGGGT
1 AATTCGGAT
*
7521434 AATTCGGTT
1 AATTCGGAT
7521443 AATTCGG
1 AATTCGG
7521450 GTAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (9 bp):
AATTCGGAT
Found at i:7521439 original size:18 final size:18
Alignment explanation
Indices: 7521416--7521453 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7521406 GTAGTGATTC
7521416 AATTCGGATAATTCGGGT
1 AATTCGGATAATTCGGGT
*
7521434 AATTCGGTTAATTCGGGT
1 AATTCGGATAATTCGGGT
7521452 AA
1 AA
7521454 ATTTTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (18 bp):
AATTCGGATAATTCGGGT
Found at i:7522097 original size:28 final size:28
Alignment explanation
Indices: 7522056--7522111 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
7522046 CTTTGGCGTT
7522056 ATCTTGACTAGATGCTTCATTTCCTTCA
1 ATCTTGACTAGATGCTTCATTTCCTTCA
*
7522084 ATCTTGACTTGATGCTTCATTTCCTTCA
1 ATCTTGACTAGATGCTTCATTTCCTTCA
7522112 TTAATAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.45
Consensus pattern (28 bp):
ATCTTGACTAGATGCTTCATTTCCTTCA
Found at i:7527672 original size:31 final size:31
Alignment explanation
Indices: 7527588--7527669 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
7527578 CTCTTTACTT
*
7527588 TCCCCTAAAACTTTTACTCCCTCACATTTTC
1 TCCCCAAAAACTTTTACTCCCTCACATTTTC
*
7527619 TCCCCAAAAATTTTTACTCCCTCACATTTTC
1 TCCCCAAAAACTTTTACTCCCTCACATTTTC
7527650 TCCCC-AAAACTTTTACTCCC
1 TCCCCAAAAACTTTTACTCCC
7527670 CTCCCATCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 14 0.29
31 34 0.71
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (31 bp):
TCCCCAAAAACTTTTACTCCCTCACATTTTC
Found at i:7527774 original size:26 final size:27
Alignment explanation
Indices: 7527724--7527774 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
7527714 TTTTTGAATA
*
7527724 TCCCCCCCAAATTTTACTCCATTTATT
1 TCCCCCCAAAATTTTACTCCATTTATT
7527751 TCCCCCCAAAATTTTACTCC-TTTA
1 TCCCCCCAAAATTTTACTCCATTTA
7527775 GCCCCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (27 bp):
TCCCCCCAAAATTTTACTCCATTTATT
Found at i:7533459 original size:42 final size:41
Alignment explanation
Indices: 7533412--7533628 Score: 205
Period size: 42 Copynumber: 5.6 Consensus size: 41
7533402 ATTGAATATA
*
7533412 AAGGGGGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTG
1 AAGGGGGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTG
* *
7533454 AAGGGGGTTGCTAAGTGCTGATTCC-CCG-A-AT-CAT-T-
1 AAGGGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTG
* *
7533489 --GGTGGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTG
1 AAGGGGGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTG
* *
7533529 AAGGGGGTTGCTAAGTGCTGATTCC-CCG-A-CT-CAT-T-
1 AAGGGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTG
* *
7533564 --GGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
1 AAGGGGGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTG
*
7533604 AAAGGGGTTGCTAAGTGCTGATTCC
1 AAGGGGGTTGCTAAGTGCTGATTCC
7533629 CCGAATCACT
Statistics
Matches: 139, Mismatches: 18, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
33 43 0.31
34 5 0.04
35 2 0.01
36 2 0.01
37 6 0.04
38 6 0.04
39 2 0.01
40 2 0.01
41 4 0.03
42 67 0.48
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (41 bp):
AAGGGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTG
Found at i:7533501 original size:33 final size:34
Alignment explanation
Indices: 7533459--7533666 Score: 161
Period size: 33 Copynumber: 5.7 Consensus size: 34
7533449 ATGTGAAGGG
7533459 GGTTGCTAAGTGCTGATTCC-CCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
* * * *
7533492 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--AT-CAT-T---GGT
*
7533534 GGTTGCTAAGTGCTGATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
* * *
7533567 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGAATC----AT-TG---GT
*
7533609 GGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
*
7533642 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
7533667 TAACGGACAA
Statistics
Matches: 139, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
33 61 0.44
34 11 0.08
35 1 0.01
36 3 0.02
37 4 0.03
38 5 0.04
39 3 0.02
40 1 0.01
41 8 0.06
42 42 0.30
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
Found at i:7533540 original size:75 final size:75
Alignment explanation
Indices: 7533417--7533663 Score: 431
Period size: 75 Copynumber: 3.3 Consensus size: 75
7533407 ATATAAAGGG
7533417 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
7533482 AATCATTGGT
66 AATCATTGGT
7533492 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
*
7533557 ACTCATTGGT
66 AATCATTGGT
* * * *
7533567 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
*
7533632 AATCACTGGT
66 AATCATTGGT
*
7533642 GGTTGCTAAGTGCTGAATCCAC
1 GGTTGCTAAGTGCTGATTCCAC
7533664 CGATAACGGA
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 163 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
AATCATTGGT
Found at i:7537872 original size:11 final size:11
Alignment explanation
Indices: 7537856--7537894 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
7537846 AAAAAGTTAC
7537856 AATTTTTTTAT
1 AATTTTTTTAT
7537867 AA--TTTTTAT
1 AATTTTTTTAT
*
7537876 AATTTTTTTAC
1 AATTTTTTTAT
7537887 AATTTTTT
1 AATTTTTT
7537895 GTAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:7537879 original size:20 final size:20
Alignment explanation
Indices: 7537856--7537893 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7537846 AAAAAGTTAC
*
7537856 AATTTTTTTATAATTTTTAT
1 AATTTTTTTACAATTTTTAT
7537876 AATTTTTTTACAATTTTT
1 AATTTTTTTACAATTTTT
7537894 TGTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTTTACAATTTTTAT
Found at i:7537882 original size:10 final size:10
Alignment explanation
Indices: 7537859--7537900 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7537849 AAGTTACAAT
7537859 TTTTTTATAA
1 TTTTTTATAA
7537869 -TTTTTATAA
1 TTTTTTATAA
*
7537878 TTTTTTTACAA
1 -TTTTTTATAA
*
7537889 TTTTTTGTAA
1 TTTTTTATAA
7537899 TT
1 TT
7537901 ATTAATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 9 0.33
10 10 0.37
11 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:7537983 original size:18 final size:20
Alignment explanation
Indices: 7537962--7538002 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7537952 TTTATAATTT
*
7537962 TTTTATA-AT-TTATATATA
1 TTTTATAGATGTTATAAATA
*
7537980 TTTTCTAGATGTTATAAATA
1 TTTTATAGATGTTATAAATA
7538000 TTT
1 TTT
7538003 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTATAGATGTTATAAATA
Found at i:7538025 original size:11 final size:10
Alignment explanation
Indices: 7537998--7538030 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
7537988 ATGTTATAAA
7537998 TATTTAATTT
1 TATTTAATTT
7538008 T-TTTAATTT
1 TATTTAATTT
7538017 TAGTTTAATTT
1 TA-TTTAATTT
7538028 TAT
1 TAT
7538031 ATTTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
10 2 0.10
11 10 0.48
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TATTTAATTT
Found at i:7539700 original size:14 final size:13
Alignment explanation
Indices: 7539677--7539724 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
7539667 AATTCAAAGT
7539677 AAATAATAATTTA
1 AAATAATAATTTA
7539690 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
7539704 CAACAACAATTTA
1 AAATAATAATTTA
7539717 AAA-AATAA
1 AAATAATAA
7539725 ATAATAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:7541550 original size:40 final size:40
Alignment explanation
Indices: 7541471--7541581 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
7541461 GTGGTTTTAG
* * *
7541471 TCTGCTCCACTACAACTTCAGAGAGCA-AAGACTTGATGCGA
1 TCTGATCCACTACTACTT-AGGGAG-ATAAGACTTGATGCGA
* *
7541512 TCTGATCCACTACTGCTTAGGGAGATAAGAGTTGATGCGA
1 TCTGATCCACTACTACTTAGGGAGATAAGACTTGATGCGA
*
7541552 TCTGCTCCACTACTACTTAGGGAGATAAGA
1 TCTGATCCACTACTACTTAGGGAGATAAGA
7541582 TCAGTAATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 46 0.74
41 15 0.24
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
TCTGATCCACTACTACTTAGGGAGATAAGACTTGATGCGA
Found at i:7541727 original size:44 final size:44
Alignment explanation
Indices: 7541509--7541733 Score: 117
Period size: 44 Copynumber: 5.2 Consensus size: 44
7541499 AGACTTGATG
* * *
7541509 CGATCTGATCCACTACTGCTTAGGGAGATAAGAGT-TG--A--TG
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGA-TCTGTAATCTT
* * *
7541549 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCAGTAATCTT
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
* * ** ** * *
7541593 CAATGTATTCCACTGCTGCCCAGGGAGAT-AGAAC--TACTGGCTT
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAAT--CTT
* * * * * * * * * **
7541636 CAATGTACTCCACTG-TAATCTCAGGAAGGTAAAATCCGCCATCTT
1 CGATCTGCTCCACTGCT--GCTTAGGGAGATAAGATCTGTAATCTT
7541681 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
7541725 CGATCTGCT
1 CGATCTGCT
7541734 TCGCTGTCAA
Statistics
Matches: 137, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
39 1 0.01
40 32 0.23
41 3 0.02
42 2 0.01
43 21 0.15
44 58 0.42
45 18 0.13
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
Found at i:7541814 original size:89 final size:88
Alignment explanation
Indices: 7541721--7542205 Score: 413
Period size: 89 Copynumber: 5.5 Consensus size: 88
7541711 AGATCTGTAA
* * * *
7541721 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCTGCTATCTTCAGTCTGCTCTGCTGT
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT-T
*
7541786 CAGTACAGGAAGGCAAGACTAGTT
65 CAGTACAGGAAGGCAAGACTGGTT
* * * * *
7541810 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAAATCTGTTATCTTTAGTCTGCTCCGCTAT
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT-T
*
7541875 CAGTATAGGAAGGCAAGACTGGTT
65 CAGTACAGGAAGGCAAGACTGGTT
* * * * * *
7541899 CCTTCGATCTACTTCGCCGTCAGTATAGGAAGGCAAGATCTACTATCTTGAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT-T
**
7541964 CAGTACATAAAGGCAAGACTGGTT
65 CAGTACAGGAAGGCAAGACTGGTT
* * * * * * * *
7541988 TCTAT-GATCTGTTTCACCGTTAGTACAGGAAGGCAAGATCTGCTATCTT-TGACCAGCTCCACT
1 TCT-TCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCGCT
* * * * * *
7542051 ACA-AACGAGGGAGGTAAGACTTGTG
64 TCAGTAC-AGGAAGGCAAGACTGGTT
* * * ** * * *
7542076 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTTC
* ** * *
7542141 A--ACCGAGAGAGGCAAGGTTTGTG
66 AGTACAG-GA-AGGCAAGACTGGTT
* * * *
7542164 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGTAAGATCTG
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTG
7542206 TTGTATTCAA
Statistics
Matches: 328, Mismatches: 61, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
86 1 0.00
87 6 0.02
88 118 0.36
89 202 0.62
90 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTTC
AGTACAGGAAGGCAAGACTGGTT
Found at i:7541832 original size:44 final size:43
Alignment explanation
Indices: 7541721--7542025 Score: 220
Period size: 44 Copynumber: 6.9 Consensus size: 43
7541711 AGATCTGTAA
* * * * *
7541721 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCT-GCTA
1 TCTT-GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA-CTAG-TT
* *
7541766 TCTTCAGTCTGC-TCTGCTGTCAGTACAGGAAGGCAAGACTAGTT
1 TCTTGA-TCTGCTTC-GCCGTCAGTACAGGAAGGCAAGACTAGTT
* *
7541810 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAAATCT-GTT
1 TCTT-GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA-CTAGTT
* * ** * *
7541854 ATCTTTAGTCTGCTCCGCTATCAGTATAGGAAGGCAAGACTGGTT
1 -TCTTGA-TCTGCTTCGCCGTCAGTACAGGAAGGCAAGACTAGTT
* * * * *
7541899 CCTTCGATCTACTTCGCCGTCAGTATAGGAAGGCAAGATCTACTA
1 TCTT-GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA-CTAGTT
* * ** *
7541944 TCTTGAGTCTGCTCCGCTGTCAGTACATAAAGGCAAGACTGGTT
1 TCTTGA-TCTGCTTCGCCGTCAGTACAGGAAGGCAAGACTAGTT
* * *
7541988 TCTATGATCTGTTTCACCGTTAGTACAGGAAGGCAAGA
1 TCT-TGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA
7542026 TCTGCTATCT
Statistics
Matches: 205, Mismatches: 42, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
44 103 0.50
45 102 0.50
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGACTAGTT
Found at i:7542115 original size:88 final size:88
Alignment explanation
Indices: 7542013--7542821 Score: 1222
Period size: 88 Copynumber: 9.2 Consensus size: 88
7542003 ACCGTTAGTA
* * ** ** * * * **
7542013 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTACAAACGAGGGAGGTAAGACTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
*
7542078 TTCGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
*
7542101 CAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
7542166 TTTGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* * ** * * *
7542189 CAGGAAGGTAAGATCTGTTGTATTCAACCAGCTCCACTACAACCGAGTGAGGTAAGGCTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
* * **
7542254 TTCGATCTGCTTCGGTGTCAGGG
66 TTTGATCTGCTTCGCTGTCAATG
* *
7542277 CAGAAAGGCAAGATCTGTTGTCTTCAAACAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
7542342 TTTGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
7542365 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
* *
7542430 TTCGATCTGCTTCGCTGTCAACG
66 TTTGATCTGCTTCGCTGTCAATG
* *
7542453 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTTGCTACAACCGAGAGAGGGAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
*
7542518 TTTGATCTGCTTCGCTATCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* *
7542541 CAGGAAGGTAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGTAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
** *
7542606 TTTGATCTATTTCGCTGTCAACG
66 TTTGATCTGCTTCGCTGTCAATG
*
7542629 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAATCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
7542694 TTTGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* * * *
7542717 CAGGAAGGTAAGATCTGTTGTATTCAACCAGCTCTGCTACAATCGAGAGATGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
**
7542782 TTCAATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
*
7542805 CAAGAAGGCAAGATCTG
1 CAGGAAGGCAAGATCTG
7542822 GTAACTTCAT
Statistics
Matches: 656, Mismatches: 65, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 656 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (88 bp):
CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
TTTGATCTGCTTCGCTGTCAATG
Found at i:7544020 original size:9 final size:10
Alignment explanation
Indices: 7544000--7544024 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7543990 CCATTTTTAC
7544000 TTTTTCATTT
1 TTTTTCATTT
7544010 TTTTTCATTT
1 TTTTTCATTT
7544020 TTTTT
1 TTTTT
7544025 GGTTTGACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:7544858 original size:11 final size:11
Alignment explanation
Indices: 7544842--7544891 Score: 82
Period size: 11 Copynumber: 4.5 Consensus size: 11
7544832 TTGACTTTGA
*
7544842 TTTTTTTGATT
1 TTTTTTTGTTT
7544853 TTTTTTTGTTT
1 TTTTTTTGTTT
7544864 TTTTTTTGTTT
1 TTTTTTTGTTT
7544875 TTATTTTTGTTT
1 TT-TTTTTGTTT
7544887 TTTTT
1 TTTTT
7544892 AGTCTAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
11 26 0.70
12 11 0.30
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:7544868 original size:23 final size:23
Alignment explanation
Indices: 7544842--7544891 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
7544832 TTGACTTTGA
7544842 TTTTTTTGATTTT-TTTTTGTTT
1 TTTTTTTGATTTTATTTTTGTTT
*
7544864 TTTTTTTGTTTTTATTTTTGTTT
1 TTTTTTTGATTTTATTTTTGTTT
7544887 TTTTT
1 TTTTT
7544892 AGTCTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (23 bp):
TTTTTTTGATTTTATTTTTGTTT
Found at i:7548751 original size:127 final size:126
Alignment explanation
Indices: 7548522--7548761 Score: 274
Period size: 127 Copynumber: 1.9 Consensus size: 126
7548512 TTATTTCAAT
* *
7548522 TTTAAAAGGATATTCGGTTATTTAGGTCAACGAGAAAAATCGAAGCCCAATAAGTTAGGCCACGA
1 TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAGCCCAATAAGTTAGGCCACGA
* * *
7548587 TTTCTCGAATTTTTTAAATATAGAATATTACCTTTATTTTTGAAATTTTATACGTTTGGAAA
66 TTTCTCGAATTTCTAAAATATAGAATATTACCTTTA-TTTTAAAATTTTATACGTTTGGAAA
** * * **
7548649 TTTAAAAGGATATTTTGCTATTCAGGTTTAACGAG-AAAATCG-AGACCCAGTAAGTTAGGGTAC
1 TTTAAAAGGATATTCGGCTATTCAGG-TCAACGAGAAAAATCGAAG-CCCAATAAGTTAGGCCAC
* *
7548712 GA-TTCTTCGAATTTCCTAAAATGT-GAGATATTGCC-TTATTTTAAAATTTT
64 GATTTC-TCGAATTT-CTAAAATATAGA-ATATTACCTTTATTTTAAAATTTT
7548762 CTTTTTGAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
126 16 0.17
127 59 0.62
128 20 0.21
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (126 bp):
TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAGCCCAATAAGTTAGGCCACGA
TTTCTCGAATTTCTAAAATATAGAATATTACCTTTATTTTAAAATTTTATACGTTTGGAAA
Found at i:7549074 original size:13 final size:13
Alignment explanation
Indices: 7549056--7549104 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
7549046 AATTCAAAGT
7549056 AAATAATAATTTA
1 AAATAATAATTTA
7549069 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
7549083 CAACAACAATTTA
1 AAATAATAATTTA
*
7549096 AAAAAATAA
1 AAATAATAA
7549105 ATAATAAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:7552125 original size:12 final size:12
Alignment explanation
Indices: 7552110--7552141 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7552100 ATTAGATTAT
7552110 TTATTATTATTG
1 TTATTATTATTG
7552122 TTATTATTATTG
1 TTATTATTATTG
7552134 TT-TTATTA
1 TTATTATTA
7552142 GGCAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:7552505 original size:9 final size:9
Alignment explanation
Indices: 7552488--7552524 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7552478 TGAGTTTTCG
7552488 AATTCGAAT
1 AATTCGAAT
*
7552497 AACTCGAAT
1 AATTCGAAT
7552506 AATTCGAAT
1 AATTCGAAT
7552515 AATTCGAAT
1 AATTCGAAT
7552524 A
1 A
7552525 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7555382 original size:5 final size:5
Alignment explanation
Indices: 7555374--7555422 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
7555364 AGTTAAGTTA
7555374 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
7555423 AAAGAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:7556414 original size:25 final size:25
Alignment explanation
Indices: 7556386--7556488 Score: 131
Period size: 25 Copynumber: 4.2 Consensus size: 25
7556376 TTTAGCGCGT
7556386 TCTCTGATTATTAGCACGTTGGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
*
7556411 TCTCTGATTATTAGCATGTTGGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
* **
7556436 TCTCTGATTACTAGCACGTCAGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
* *
7556461 TCTCTG--T-TTAGCACATTTGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
7556483 TCTCTG
1 TCTCTG
7556489 TATAGCACTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.25
23 1 0.01
25 51 0.74
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (25 bp):
TCTCTGATTATTAGCACGTTGGTGC
Found at i:7556461 original size:50 final size:48
Alignment explanation
Indices: 7556386--7556518 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 48
7556376 TTTAGCGCGT
** **
7556386 TCTCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCATGTTGGTGC
1 TCTCTGATTA-TAGCACGTCAGTGCTCTCTG-TTATTAGCACATTGGTGC
*
7556436 TCTCTGATTACTAGCACGTCAGTGCTCTCTG-T-TTAGCACATTTGTGC
1 TCTCTGATTA-TAGCACGTCAGTGCTCTCTGTTATTAGCACATTGGTGC
*
7556483 TCTCTG--TATAGCACTTCAGTGCTCTCTGTTCATTAG
1 TCTCTGATTATAGCACGTCAGTGCTCTCTGTT-ATTAG
7556519 TGCATAACAA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
44 19 0.26
45 3 0.04
47 22 0.30
48 1 0.01
50 28 0.38
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (48 bp):
TCTCTGATTATAGCACGTCAGTGCTCTCTGTTATTAGCACATTGGTGC
Found at i:7556482 original size:22 final size:22
Alignment explanation
Indices: 7556432--7556512 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 22
7556422 TAGCATGTTG
*
7556432 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTG-TT--TAGCACTTCA
*
7556457 GTGCTCTCTGTTTAGCACATT-T
1 GTGCTCTCTGTTTAGCAC-TTCA
*
7556479 GTGCTCTCTGTATAGCACTTCA
1 GTGCTCTCTGTTTAGCACTTCA
7556501 GTGCTCTCTGTT
1 GTGCTCTCTGTT
7556513 CATTAGTGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
21 2 0.04
22 34 0.69
23 1 0.02
24 2 0.04
25 10 0.20
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.40
Consensus pattern (22 bp):
GTGCTCTCTGTTTAGCACTTCA
Found at i:7566012 original size:44 final size:44
Alignment explanation
Indices: 7565949--7566034 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
7565939 ATTGTTTTTG
*
7565949 AGGTTGAAAAAATTCCAACTAAAGTTTAATCCAGTAAAATGTTA
1 AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGTTA
7565993 AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGT
1 AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGT
7566035 ACCTTCGGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (44 bp):
AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGTTA
Found at i:7567997 original size:17 final size:17
Alignment explanation
Indices: 7567975--7568011 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7567965 AACTAAAAGC
7567975 TATCTGTCATGGTCAGA
1 TATCTGTCATGGTCAGA
7567992 TATCTGTCATGGTCAGA
1 TATCTGTCATGGTCAGA
7568009 TAT
1 TAT
7568012 ACCAAAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (17 bp):
TATCTGTCATGGTCAGA
Found at i:7569217 original size:44 final size:44
Alignment explanation
Indices: 7569154--7569708 Score: 562
Period size: 44 Copynumber: 12.6 Consensus size: 44
7569144 TCGTGGCGAG
* *
7569154 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTAAAGTTATAAA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * *
7569198 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAACCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * *
7569242 TCTTATCT-TCCTGAAGTTGCAATGGAGCAAATTAAAGCCACAAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * * *
7569286 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTCAAGATAGTAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * *
7569331 TCTTATCTCTCAGAATTTGCAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
7569375 TTTTATCTCCCTG-AGTTGCAGTGAAGCAGATTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * * *
7569419 TCTTATCTTTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
7569463 TTTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * *
7569508 TCTTATCACTCTGAAGTTGTAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
*
7569552 TCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
7569596 TCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGATACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * * *
7569640 TCTTATTTC-CTTGAAGATGTAGTGGAGTAGATTGAAA-TTACAAT
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAA
* * * *
7569684 TCCTATATCCCTGAAGTTGTAGTGG
1 TCTTATCTCTCTGAAGTTGCAGTGG
7569709 GTTAGACTGA
Statistics
Matches: 422, Mismatches: 79, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
43 23 0.05
44 302 0.72
45 97 0.23
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
Found at i:7569674 original size:177 final size:177
Alignment explanation
Indices: 7569165--7569675 Score: 682
Period size: 177 Copynumber: 2.9 Consensus size: 177
7569155 CTTATCTCCT
* * * * *
7569165 TGAAGTTGCAGTGGAGCAGATTAAAGTTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * *
7569230 TAAACCTACAAATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTAAAGCCACAAATCTTATCTC
66 TAAAGCTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
* * * *
7569295 CCTAAAGTTGTAGTGGAGCAGATTCAAGATAGTAAATCTTATCTCTC
131 CCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
* * * * *
7569342 AGAATTTGCAGTAGAGCAGATTAAAGCTACAAATTTTATCTCCCTG-AGTTGCAGTGAAGCAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
7569406 TGAAGATAGCAAATCTTATCTTTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAATTTTATCT
66 TAAAGCTA-CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
7569471 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
130 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
* *
7569519 TGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
7569584 TAAAGCTACAAATCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGATACAAATCTTATTTC
66 TAAAGCTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
* * *
7569649 CTTGAAGATGTAGTGGAGTAGATTGAA
131 CCTGAAGTTGTAGTGGAGCAGATTGAA
7569676 ATTACAATTC
Statistics
Matches: 284, Mismatches: 48, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
176 20 0.07
177 241 0.85
178 23 0.08
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (177 bp):
TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
TAAAGCTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
CCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
Found at i:7570519 original size:13 final size:13
Alignment explanation
Indices: 7570460--7570519 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
7570450 CCAAGTACTT
7570460 TTTATATTTAAAAA
1 TTTATATTT-AAAA
* *
7570474 GTAATATTTAAAA
1 TTTATATTTAAAA
7570487 TTTATACTTTAAAA
1 TTTATA-TTTAAAA
7570501 ---ATATTTAAAA
1 TTTATATTTAAAA
7570511 TTTATATTT
1 TTTATATTT
7570520 CATATATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
10 7 0.18
11 3 0.08
13 14 0.37
14 14 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
TTTATATTTAAAA
Found at i:7577717 original size:29 final size:29
Alignment explanation
Indices: 7577662--7577717 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7577652 TTTTTTCTTT
*
7577662 TTAATAATAAAAGGACTAAATTGATCAAC
1 TTAATAATAAAAGGACTAAATTAATCAAC
* *
7577691 TTAATAATAAAATGACTAATTTAATCA
1 TTAATAATAAAAGGACTAAATTAATCA
7577718 TGTCCCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (29 bp):
TTAATAATAAAAGGACTAAATTAATCAAC
Found at i:7578187 original size:17 final size:16
Alignment explanation
Indices: 7578150--7578186 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7578140 AAAACCAAGA
7578150 TTTTTACAACATGCAT
1 TTTTTACAACATGCAT
* *
7578166 TTTTTACAATATTCAT
1 TTTTTACAACATGCAT
7578182 TTTTT
1 TTTTT
7578187 TTTCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTTACAACATGCAT
Found at i:7581048 original size:33 final size:33
Alignment explanation
Indices: 7580973--7581087 Score: 81
Period size: 33 Copynumber: 3.5 Consensus size: 33
7580963 ATAGTCCAAC
* * *
7580973 TATGGTCTTACACATGCATTGCCATGACCCTGT
1 TATGGTCTTACACATGCAGTGCCATAACCCAGT
* * ** *
7581006 CATGATCTTACATTTGTAGTGCCATAACCCAGT
1 TATGGTCTTACACATGCAGTGCCATAACCCAGT
* * **
7581039 TATGGTCTTATCATCA-G-AATGCCATAGCCCAAC
1 TATGGTCTTA-CA-CATGCAGTGCCATAACCCAGT
*
7581072 TATGGTTTTACACATG
1 TATGGTCTTACACATG
7581088 TATCTATACT
Statistics
Matches: 62, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
31 2 0.03
32 3 0.05
33 54 0.87
34 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (33 bp):
TATGGTCTTACACATGCAGTGCCATAACCCAGT
Found at i:7598222 original size:19 final size:20
Alignment explanation
Indices: 7598197--7598245 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
7598187 TTCATTCTTC
*
7598197 ATCTATTTTTTTTATATTTT
1 ATCTATTTTTTATATATTTT
*
7598217 -TCTATTATTTATATATTTT
1 ATCTATTTTTTATATATTTT
*
7598236 ATATATTTTT
1 ATCTATTTTT
7598246 AATTTCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
ATCTATTTTTTATATATTTT
Found at i:7605541 original size:9 final size:9
Alignment explanation
Indices: 7605524--7605560 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7605514 TGAGTTTTTG
7605524 AATTCGAAT
1 AATTCGAAT
*
7605533 AACTCGAAT
1 AATTCGAAT
7605542 AATTCGAAT
1 AATTCGAAT
7605551 AATTCGAAT
1 AATTCGAAT
7605560 A
1 A
7605561 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7605802 original size:19 final size:20
Alignment explanation
Indices: 7605762--7605802 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
7605752 CAAAAACCCT
*
7605762 CAAAATCTTTTATTTTCCCC
1 CAAAATCTTTTATCTTCCCC
7605782 CAAAAT-TTTTA-CTTCCTCC
1 CAAAATCTTTTATCTTCC-CC
7605801 CA
1 CA
7605803 CTTTTCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (20 bp):
CAAAATCTTTTATCTTCCCC
Found at i:7620613 original size:28 final size:28
Alignment explanation
Indices: 7620582--7620635 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
7620572 GAAATTTTCC
*
7620582 AAAAAATTTCATTTC-CCCTTTGTTTTAA
1 AAAAAATCTCATTTCTCCCTTT-TTTTAA
*
7620610 AAAAAATCTCTTTTCTCCCTTTTTTT
1 AAAAAATCTCATTTCTCCCTTTTTTT
7620636 CCTCTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.28, C:0.20, G:0.02, T:0.50
Consensus pattern (28 bp):
AAAAAATCTCATTTCTCCCTTTTTTTAA
Found at i:7620714 original size:36 final size:36
Alignment explanation
Indices: 7620667--7620739 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7620657 CGATCATGGG
7620667 AGCTGTCATAGCTCCGTCACGGTTCCAGTCATCAGC
1 AGCTGTCATAGCTCCGTCACGGTTCCAGTCATCAGC
7620703 AGCTGTCATAGCTCCGTCACGGTTCCAGTCATCAGC
1 AGCTGTCATAGCTCCGTCACGGTTCCAGTCATCAGC
7620739 A
1 A
7620740 ACAGCAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.25
Consensus pattern (36 bp):
AGCTGTCATAGCTCCGTCACGGTTCCAGTCATCAGC
Found at i:7623151 original size:3 final size:3
Alignment explanation
Indices: 7623143--7623180 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
7623133 AATAAATAGG
*
7623143 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7623181 GGACTAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7624729 original size:98 final size:98
Alignment explanation
Indices: 7624567--7625224 Score: 1055
Period size: 98 Copynumber: 6.7 Consensus size: 98
7624557 CACCGTTGAG
* * * * *
7624567 GCTTCAATCTGTTTCGCTGCATCACCTGGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAA
1 GCTTCAATCTGCTCCGCTGCATCGCC-AGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAA
* * *
7624632 TTGCAATGTCGGGGAAGTGAGGTTCGCCGTTGTA
65 TTGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
* * * * * *
7624666 ACTTCAATCTGTTCCACTGCATCGCCAAAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAAT
1 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
*
7624731 TGCAATGTCAGGGAAGTGAGATTCACTGTTGTA
66 TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
*
7624764 GCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
1 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
*
7624829 TGCAATGTCGGGGAAGTGAGATTCGCTGTTGTA
66 TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
* * *
7624862 GCTTCAATCTGCTCCGCTGTATCGCCAGAAGTAAGATTCACCGCTGTGGCTTCGATCTTTTAAAT
1 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
7624927 TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
66 TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
* *
7624960 GCTTCAATCTGCTCCGCTGTATCGCCAGAAGTAAGATTCGCCGATGTGGCTTCGATCTTTTAAAT
1 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
*
7625025 TGCAATATCAGGGAAGTGAGATTCGCTGTTGTA
66 TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
* *
7625058 GCTTCAATCTGCTCCGCTGCGTCGCCAGAAGTAAGATTCGCCGCTGTGGCTTCGATCTTTTAAAT
1 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
* *
7625123 TGCAATGTCGGGGAAGTGAGATTCACTGTTGTA
66 TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
*
7625156 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATATTTTAAAT
1 GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
7625221 TGCA
66 TGCA
7625225 GACTATGATT
Statistics
Matches: 522, Mismatches: 37, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
98 500 0.96
99 22 0.04
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (98 bp):
GCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAAT
TGCAATGTCAGGGAAGTGAGATTCGCTGTTGTA
Found at i:7638103 original size:7 final size:7
Alignment explanation
Indices: 7638091--7638142 Score: 59
Period size: 7 Copynumber: 6.7 Consensus size: 7
7638081 TCTATAATTT
7638091 TTTTTTA
1 TTTTTTA
7638098 TTTTTTTA
1 -TTTTTTA
7638106 TTTTTTAAA
1 TTTTTT--A
7638115 TTATATTTA
1 TT-T-TTTA
7638124 TTTTTTA
1 TTTTTTA
7638131 TTTTTTA
1 TTTTTTA
7638138 TTTTT
1 TTTTT
7638143 AATTAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 22 0.55
8 8 0.20
9 6 0.15
10 1 0.03
11 3 0.08
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:7638111 original size:32 final size:31
Alignment explanation
Indices: 7638087--7638147 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
7638077 TTTTTCTATA
7638087 ATTT-TTTTTTATTTTTTTATTTTTTAAATTAT
1 ATTTATTTTTTA-TTTTTTATTTTTT-AATTAT
7638119 ATTTATTTTTTATTTTTTA-TTTTTAATTA
1 ATTTATTTTTTATTTTTTATTTTTTAATTA
7638148 AAATATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 5 0.18
31 5 0.18
32 11 0.39
33 7 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (31 bp):
ATTTATTTTTTATTTTTTATTTTTTAATTAT
Found at i:7638972 original size:13 final size:14
Alignment explanation
Indices: 7638944--7638973 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7638934 TATAAACATT
7638944 ATTTTATTTCTTAA
1 ATTTTATTTCTTAA
7638958 ATTTTATTT-TTAA
1 ATTTTATTTCTTAA
7638971 ATT
1 ATT
7638974 CTTGGATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTATTTCTTAA
Found at i:7658046 original size:43 final size:43
Alignment explanation
Indices: 7657980--7658138 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
7657970 ATCTCTTACA
*
7657980 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* * * **
7658023 ATGCCACTGTTCCAGACAG-GGTCTTACACGAAATCGTATAT-G
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * * *
7658065 ATGCCAATGTTCCAAACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AATC-AAATATCG
*
7658109 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
7658139 ATAACTCATA
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.28
43 39 0.41
44 29 0.31
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:7658132 original size:86 final size:85
Alignment explanation
Indices: 7657980--7658139 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 85
7657970 ATCTCTTACA
* * * *
7657980 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCCAGACAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
7658045 CTTACACGAAATCGTATATG
66 CTTACACGAAATCGTATATG
* *
7658065 ATGCCAATGTTCCAAACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAATGTCCCAAACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAGACAG
7658127 TGGTCTTACACGA
63 -GGTCTTACACGA
7658140 TAACTCATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 28 0.43
86 33 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (85 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCGTATATG
Found at i:7658816 original size:16 final size:14
Alignment explanation
Indices: 7658781--7658808 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7658771 CACAAACGAT
7658781 AAAATTTTCACACA
1 AAAATTTTCACACA
7658795 AAAATTTTCACACA
1 AAAATTTTCACACA
7658809 TATAAATTAA
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:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTTTCACACA
Found at i:7673728 original size:179 final size:177
Alignment explanation
Indices: 7673423--7673767 Score: 546
Period size: 179 Copynumber: 1.9 Consensus size: 177
7673413 AGGGTATTCA
* * ** * * *
7673423 ATATGATAGAGATATTTGATCAGTTCTAAAATTTATATGCATGACAAATACAATTATATTGATAA
1 ATATAATAGAGATATTTGACCAGTTAAAAAATTTATATACATGACAAATACAATTATACTAATAA
*
7673488 ATTCAATTAGTTTTTACATTATGTAAGTGGAGCCCTCCTATGGACTTATACATAATTATTTATTA
66 ATTCAATTAGTTTTTACATTATGTAAGTGGACCCCTCCTATGGACTTATACATAATTATTTATTA
*
7673553 CATCAAGTAATTTTTTTTTCTCAAATATGAAACTTTCATGTTTAGATAG
131 CACCAAGT-A-TTTTTTTTCTCAAATATGAAACTTTCATGTTTAGATAG
*
7673602 ATATAATAGAGATATTTGACCAGTTAAAAAATTTATATACATGACAAATACAATTTTACTAATAA
1 ATATAATAGAGATATTTGACCAGTTAAAAAATTTATATACATGACAAATACAATTATACTAATAA
*
7673667 ATTTAATTAGTTTTTACATTATGTAAGTGGACCCCTCCTATGGACTTATACATAATTATTTATTA
66 ATTCAATTAGTTTTTACATTATGTAAGTGGACCCCTCCTATGGACTTATACATAATTATTTATTA
* **
7673732 CCCCTTGTATTTTTTTTCTCAAATATGAAACTTTCA
131 CACCAAGTATTTTTTTTCTCAAATATGAAACTTTCA
7673768 CATCCCAACT
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
177 27 0.18
178 1 0.01
179 124 0.82
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (177 bp):
ATATAATAGAGATATTTGACCAGTTAAAAAATTTATATACATGACAAATACAATTATACTAATAA
ATTCAATTAGTTTTTACATTATGTAAGTGGACCCCTCCTATGGACTTATACATAATTATTTATTA
CACCAAGTATTTTTTTTCTCAAATATGAAACTTTCATGTTTAGATAG
Found at i:7676345 original size:9 final size:9
Alignment explanation
Indices: 7676317--7676588 Score: 209
Period size: 9 Copynumber: 30.0 Consensus size: 9
7676307 GTCAACACGC
*
7676317 ATGTAAATT
1 ATGTAAGTT
* *
7676326 ATTTAATTT
1 ATGTAAGTT
7676335 ATGTAAGTT
1 ATGTAAGTT
7676344 ATGTAAGTT
1 ATGTAAGTT
* *
7676353 ATTTAATTT
1 ATGTAAGTT
7676362 ATGTAAGTT
1 ATGTAAGTT
7676371 ATGTAAGTT
1 ATGTAAGTT
*
7676380 A-GGAAGGTT
1 ATGTAA-GTT
7676389 ATGT--GTT
1 ATGTAAGTT
7676396 ATGTAAGTT
1 ATGTAAGTT
*
7676405 ATTTAAGTT
1 ATGTAAGTT
7676414 ATGTAAGTT
1 ATGTAAGTT
*
7676423 ATTTAAGTT
1 ATGTAAGTT
* *
7676432 ATTTAATTT
1 ATGTAAGTT
7676441 ATGTAAGTT
1 ATGTAAGTT
7676450 ATGTAAGTT
1 ATGTAAGTT
* *
7676459 ATTTAATTT
1 ATGTAAGTT
7676468 ATGTAAGCTAT
1 ATGTAAG-T-T
* * *
7676479 TTAGAAAAAATT
1 AT-G--TAAGTT
7676491 ATGTAAGTT
1 ATGTAAGTT
7676500 ATGTACTAAGTT
1 ATG---TAAGTT
7676512 ATGT-A-TT
1 ATGTAAGTT
* *
7676519 ATGTAAATA
1 ATGTAAGTT
7676528 ATGTAAGTT
1 ATGTAAGTT
*
7676537 A-GGAAGGTT
1 ATGTAA-GTT
7676546 ATGT-A-TT
1 ATGTAAGTT
7676553 ATGTAAGTT
1 ATGTAAGTT
*
7676562 ATGTAATTT
1 ATGTAAGTT
*
7676571 ATATAAGTT
1 ATGTAAGTT
*
7676580 ATGCAAGTT
1 ATGTAAGTT
7676589 TATATATAAG
Statistics
Matches: 209, Mismatches: 36, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
7 19 0.09
8 9 0.04
9 160 0.77
10 3 0.01
11 3 0.01
12 12 0.06
13 1 0.00
14 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:7676355 original size:27 final size:27
Alignment explanation
Indices: 7676317--7676588 Score: 235
Period size: 27 Copynumber: 10.3 Consensus size: 27
7676307 GTCAACACGC
*
7676317 ATGTAAATTATTTAATTTATGTAAGTT
1 ATGTAAGTTATTTAATTTATGTAAGTT
7676344 ATGTAAGTTATTTAATTTATGTAAGTT
1 ATGTAAGTTATTTAATTTATGTAAGTT
** *
7676371 ATGTAAGTTA-GGAAGGTTATGT--GTT
1 ATGTAAGTTATTTAA-TTTATGTAAGTT
*
7676396 ATGTAAGTTATTTAAGTTATGTAAGTT
1 ATGTAAGTTATTTAATTTATGTAAGTT
*
7676423 ATTTAAGTTATTTAATTTATGTAAGTT
1 ATGTAAGTTATTTAATTTATGTAAGTT
*
7676450 ATGTAAGTTATTTAATTTATGTAAGCT
1 ATGTAAGTTATTTAATTTATGTAAGTT
* ** *
7676477 AT-TTAG--A-AAAAATTATGTAAGTT
1 ATGTAAGTTATTTAATTTATGTAAGTT
* * *
7676500 ATGTACTAAGTTATGT-A-TTATGTAAATA
1 ATG---TAAGTTATTTAATTTATGTAAGTT
** *
7676528 ATGTAAGTTA-GGAAGGTTATGT-A-TT
1 ATGTAAGTTATTTAA-TTTATGTAAGTT
* *
7676553 ATGTAAGTTATGTAATTTATATAAGTT
1 ATGTAAGTTATTTAATTTATGTAAGTT
*
7676580 ATGCAAGTT
1 ATGTAAGTT
7676589 TATATATAAG
Statistics
Matches: 202, Mismatches: 26, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
23 14 0.07
24 2 0.01
25 44 0.22
26 12 0.06
27 116 0.57
28 12 0.06
29 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (27 bp):
ATGTAAGTTATTTAATTTATGTAAGTT
Found at i:7676735 original size:17 final size:18
Alignment explanation
Indices: 7676703--7676736 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7676693 TGATTGATAA
7676703 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
7676721 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
7676737 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:7676774 original size:9 final size:9
Alignment explanation
Indices: 7676760--7676794 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
7676750 TAAATATTTA
7676760 TAAGTTATG
1 TAAGTTATG
*
7676769 TAAGTTATA
1 TAAGTTATG
*
7676778 TAATTTATG
1 TAAGTTATG
7676787 TAAGTTAT
1 TAAGTTAT
7676795 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7676785 original size:18 final size:18
Alignment explanation
Indices: 7676758--7676802 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
7676748 TATAAATATT
*
7676758 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
7676776 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
7676794 TATAATTTA
1 TATAATTTA
7676803 AAAATTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Found at i:7677459 original size:13 final size:13
Alignment explanation
Indices: 7677426--7677463 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
7677416 AAAGAACTTG
7677426 CAACAACATTAAC
1 CAACAACATTAAC
*
7677439 C-CCTAACATTAAC
1 CAAC-AACATTAAC
7677452 CAACAACATTAA
1 CAACAACATTAA
7677464 GCAGAACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (13 bp):
CAACAACATTAAC
Found at i:7679478 original size:7 final size:7
Alignment explanation
Indices: 7679463--7679515 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
7679453 CCTTAGACAT
*
7679463 TAAATCC
1 TAAACCC
7679470 TAAACCC
1 TAAACCC
7679477 TAAACCC
1 TAAACCC
* *
7679484 TTAACAC
1 TAAACCC
7679491 TAAACCC
1 TAAACCC
*
7679498 TTAACCC
1 TAAACCC
*
7679505 TTAACCC
1 TAAACCC
7679512 TAAA
1 TAAA
7679516 TTAACCTAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:7679493 original size:14 final size:14
Alignment explanation
Indices: 7679453--7679512 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
7679443 AAACTCTATT
* *
7679453 CCTTAGACATTAAAT
1 CCTTA-ACACTAAAC
* *
7679468 CCTAAACCCTAAAC
1 CCTTAACACTAAAC
7679482 CCTTAACACTAAAC
1 CCTTAACACTAAAC
* *
7679496 CCTTAACCCTTAAC
1 CCTTAACACTAAAC
7679510 CCT
1 CCT
7679513 AAATTAACCT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
14 33 0.89
15 4 0.11
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.25
Consensus pattern (14 bp):
CCTTAACACTAAAC
Found at i:7679493 original size:21 final size:21
Alignment explanation
Indices: 7679469--7679515 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7679459 ACATTAAATC
7679469 CTAAACCCTAAACCCTTAACA
1 CTAAACCCTAAACCCTTAACA
* *
7679490 CTAAACCCTTAACCCTTAACC
1 CTAAACCCTAAACCCTTAACA
7679511 CTAAA
1 CTAAA
7679516 TTAACCTAGA
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:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CTAAACCCTAAACCCTTAACA
Found at i:7679714 original size:15 final size:16
Alignment explanation
Indices: 7679692--7679734 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
7679682 ACATTAACTA
7679692 TAAACCCTTAAACCCC
1 TAAACCCTTAAACCCC
7679708 T-AACCCTT-AA-CCC
1 TAAACCCTTAAACCCC
*
7679721 TAAACACTTAAACC
1 TAAACCCTTAAACC
7679735 TTAGACCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 9 0.39
16 2 0.09
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAACCCTTAAACCCC
Found at i:7679834 original size:14 final size:14
Alignment explanation
Indices: 7679814--7679846 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7679804 TAGAACATAT
7679814 ATAAACCCTAAATC
1 ATAAACCCTAAATC
*
7679828 CTAAACCCTAAATC
1 ATAAACCCTAAATC
7679842 ATAAA
1 ATAAA
7679847 ACATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAACCCTAAATC
Found at i:7679872 original size:39 final size:40
Alignment explanation
Indices: 7679786--7679873 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
7679776 TCAGCCATAT
* * *
7679786 TCCTTAAACCTTAAATCATAGAACATATATAAACCCTAAA
1 TCCTTAAACCCTAAATCATAAAACATATATAAACCATAAA
*
7679826 TCC-TAAACCCTAAATCATAAAACATATATAAACTATAAA
1 TCCTTAAACCCTAAATCATAAAACATATATAAACCATAAA
7679865 -CCTTAAACC
1 TCCTTAAACC
7679874 TCAACCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.05
39 38 0.88
40 3 0.07
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (40 bp):
TCCTTAAACCCTAAATCATAAAACATATATAAACCATAAA
Found at i:7679892 original size:7 final size:7
Alignment explanation
Indices: 7679882--7679907 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7679872 CCTCAACCTT
7679882 TAAACAA
1 TAAACAA
7679889 TAAACAA
1 TAAACAA
7679896 TAAACAA
1 TAAACAA
7679903 TAAAC
1 TAAAC
7679908 CGTAAGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACAA
Found at i:7681686 original size:21 final size:21
Alignment explanation
Indices: 7681661--7681702 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7681651 AAATTTTAAT
** *
7681661 TACATAACTAAATAATTAAAA
1 TACATAAAAAAATAAGTAAAA
7681682 TACATAAAAAAATAAGTAAAA
1 TACATAAAAAAATAAGTAAAA
7681703 ATTAAATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (21 bp):
TACATAAAAAAATAAGTAAAA
Found at i:7685199 original size:14 final size:14
Alignment explanation
Indices: 7685180--7685207 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7685170 TACTATAATA
7685180 CTATATTTGATGTC
1 CTATATTTGATGTC
7685194 CTATATTTGATGTC
1 CTATATTTGATGTC
7685208 AAGAACATCG
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:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
CTATATTTGATGTC
Found at i:7688695 original size:23 final size:23
Alignment explanation
Indices: 7688665--7688710 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
7688655 CGGCTTGTGT
*
7688665 GCACTTGTGTCTGATACATTCTA
1 GCACTTGTGTCTGATACAATCTA
7688688 GCACTTGTGTCTGATACAATCTA
1 GCACTTGTGTCTGATACAATCTA
7688711 CAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (23 bp):
GCACTTGTGTCTGATACAATCTA
Done.