Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 23 of 25
Found at i:3573177 original size:28 final size:28
Alignment explanation
Indices: 3573133--3573187 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3573123 CATCACTTAT
3573133 AGGTTTGATTTCCTAAACCACCAACAAC
1 AGGTTTGATTTCCTAAACCACCAACAAC
*
3573161 AGGTTTGATTTCTTAAACCACCAACAA
1 AGGTTTGATTTCCTAAACCACCAACAA
3573188 TAGTAGTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (28 bp):
AGGTTTGATTTCCTAAACCACCAACAAC
Found at i:3573757 original size:15 final size:16
Alignment explanation
Indices: 3573737--3573797 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
3573727 GAGAAGAAGG
3573737 AAAAAAAAAGATAA-AA
1 AAAAAAAAAGA-AAGAA
*
3573753 AAAAAGAAAGAAAGAA
1 AAAAAAAAAGAAAGAA
3573769 AAAAGAAAAAGAAAAGATA
1 AAAA-AAAAAG-AAAGA-A
*
3573788 GAAAAAAAAG
1 AAAAAAAAAG
3573798 TGAAAAAGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.05
16 16 0.42
17 5 0.13
18 11 0.29
19 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAGAA
Found at i:3573773 original size:11 final size:11
Alignment explanation
Indices: 3573730--3573794 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 11
3573720 AACAAGAGAG
*
3573730 AAGAAGGAAAA
1 AAGAAAGAAAA
*
3573741 AA-AAAGATAA
1 AAGAAAGAAAA
*
3573751 AA-AAA-AAGA
1 AAGAAAGAAAA
3573760 AAGAAAGAAAA
1 AAGAAAGAAAA
3573771 AAGAAA-AAGAA
1 AAGAAAGAA-AA
*
3573782 AAGATAGAAAA
1 AAGAAAGAAAA
3573793 AA
1 AA
3573795 AAGTGAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 4 0.09
10 16 0.36
11 22 0.50
12 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:3573791 original size:30 final size:26
Alignment explanation
Indices: 3573730--3573796 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
3573720 AACAAGAGAG
* *
3573730 AAGAAGGAAAAAAAAAGATAAAAAAA
1 AAGAAAGAAAAAAAAAGAAAAAAAAA
*
3573756 AAGAAAGAAAGAAAAAAG-AAAAAGAA
1 AAGAAAGAAA-AAAAAAGAAAAAAAAA
*
3573782 AAGATAGAAAAAAAA
1 AAGAAAGAAAAAAAA
3573797 GTGAAAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.14
26 24 0.67
27 7 0.19
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (26 bp):
AAGAAAGAAAAAAAAAGAAAAAAAAA
Found at i:3573802 original size:26 final size:26
Alignment explanation
Indices: 3573738--3573805 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
3573728 AGAAGAAGGA
3573738 AAAAAAAAGAT-AAAAA-AAAAGAAAG
1 AAAAAAAAG-TGAAAAAGAAAAGAAAG
* *
3573763 AAAGAAAAA-AGAAAAAGAAAAGATAG
1 AAA-AAAAAGTGAAAAAGAAAAGAAAG
3573789 AAAAAAAAGTGAAAAAG
1 AAAAAAAAGTGAAAAAG
3573806 GATAAGTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 13 0.36
26 23 0.64
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAAAAAAGTGAAAAAGAAAAGAAAG
Found at i:3576223 original size:19 final size:19
Alignment explanation
Indices: 3576199--3576251 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
3576189 TTGATACATC
*
3576199 GTATCGATACATGTTC-ATT
1 GTATCGATACATG-ACAATT
3576218 GTATCGATACATAGACAATT
1 GTATCGATACAT-GACAATT
3576238 GTATCGATACATGA
1 GTATCGATACATGA
3576252 AACTGGCAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (19 bp):
GTATCGATACATGACAATT
Found at i:3576305 original size:20 final size:20
Alignment explanation
Indices: 3576280--3576332 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3576270 TATCACTGTT
*
3576280 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
3576300 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
3576320 TGTATCGATACAT
1 TGTATCGATACAT
3576333 TGCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:3578165 original size:32 final size:33
Alignment explanation
Indices: 3578108--3578172 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
3578098 TACAAGCCAA
*
3578108 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGAAACATA-TTTTTGTGTATCGATACAT
3578142 TGTATCGAAACATA-TTTTGTGTATCGATACA
1 TGTATCGAAACATATTTTTGTGTATCGATACA
3578173 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.57
34 13 0.43
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGAAACATATTTTTGTGTATCGATACAT
Found at i:3580654 original size:13 final size:13
Alignment explanation
Indices: 3580638--3580673 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3580628 AATCCCCCTA
3580638 TATCGATACAGTG
1 TATCGATACAGTG
*
3580651 TATCGATACATTG
1 TATCGATACAGTG
3580664 TATCGATACA
1 TATCGATACA
3580674 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:3586295 original size:13 final size:13
Alignment explanation
Indices: 3586277--3586302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3586267 ATATTTTTTG
3586277 TGTATCGATACAT
1 TGTATCGATACAT
3586290 TGTATCGATACAT
1 TGTATCGATACAT
3586303 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3586313 original size:32 final size:33
Alignment explanation
Indices: 3586256--3586320 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
3586246 TACAAGCCAA
3586256 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
3586290 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
3586321 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:3586314 original size:19 final size:19
Alignment explanation
Indices: 3586256--3586320 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
3586246 TACAAGCCAA
3586256 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
3586277 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
3586290 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3586309 TGTATCGATACA
1 TGTATCGATACA
3586321 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:3592877 original size:52 final size:52
Alignment explanation
Indices: 3592729--3592857 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
3592719 CGAAATATGA
*
3592729 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
3592781 AAATTTACCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
3592833 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3592858 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:3592957 original size:19 final size:18
Alignment explanation
Indices: 3592933--3593030 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
3592923 TAGCTTACAT
3592933 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3592952 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3592965 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3592984 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3592997 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
3593017 CGTATCGATACAAA
1 TGTATCGATACAAA
3593031 TCGTTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.37
20 12 0.18
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3592969 original size:32 final size:32
Alignment explanation
Indices: 3592928--3593028 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
3592918 GGCAGTAGCT
*
3592928 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
3592960 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
3592992 TACATTGTATCGATACAACACTTTACGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
3593025 TACA
1 TACA
3593029 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 52 0.79
33 14 0.21
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:3592970 original size:13 final size:13
Alignment explanation
Indices: 3592952--3593008 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
3592942 ACAAAACTTA
3592952 TGTATCGATACAT
1 TGTATCGATACAT
3592965 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
3592983 ATGTATCGATACAT
1 -TGTATCGATACAT
3592997 TGTATCGATACA
1 TGTATCGATACA
3593009 ACACTTTACG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3595463 original size:13 final size:13
Alignment explanation
Indices: 3595445--3595471 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3595435 ACAATATTTC
3595445 TTGTATCGATACA
1 TTGTATCGATACA
3595458 TTGTATCGATACA
1 TTGTATCGATACA
3595471 T
1 T
3595472 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3597973 original size:13 final size:13
Alignment explanation
Indices: 3597955--3597979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3597945 ATTATGCTTT
3597955 GTATCGATACATA
1 GTATCGATACATA
3597968 GTATCGATACAT
1 GTATCGATACAT
3597980 GTTCATTGTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATA
Found at i:3597996 original size:19 final size:20
Alignment explanation
Indices: 3597968--3598019 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3597958 TCGATACATA
**
3597968 GTATCGATACATGTTC-ATT
1 GTATCGATACATGGACAATT
*
3597987 GTATCAATACATGGACAATT
1 GTATCGATACATGGACAATT
3598007 GTATCGATACATG
1 GTATCGATACATG
3598020 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACATGGACAATT
Found at i:3598074 original size:20 final size:20
Alignment explanation
Indices: 3598049--3598086 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3598039 TACCACTGTT
3598049 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
3598069 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
3598087 CGATACATGA
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:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:3598085 original size:13 final size:13
Alignment explanation
Indices: 3598069--3598116 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
3598059 CATGGTATAA
3598069 TGTATCGATACAT
1 TGTATCGATACAT
3598082 TGTATCGATACA-
1 TGTATCGATACAT
3598094 TG-AT-G--A-AT
1 TGTATCGATACAT
3598102 TGTATCGATACAT
1 TGTATCGATACAT
3598115 TG
1 TG
3598117 CTTGTAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3598090 original size:33 final size:33
Alignment explanation
Indices: 3598048--3598116 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
3598038 CTACCACTGT
3598048 TTGTATCGATACATGGTAT-AA-TGTATCGATACA
1 TTGTATCGATACAT-G-ATGAATTGTATCGATACA
3598081 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
3598114 TTG
1 TTG
3598117 CTTGTAACAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 29 0.85
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:3599967 original size:20 final size:20
Alignment explanation
Indices: 3599938--3599998 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
3599928 CACTTAGTAT
*
3599938 TGATACATTGTATCGATACA
1 TGATAAATTGTATCGATACA
* *
3599958 TGATGAATTGTATCAATACA
1 TGATAAATTGTATCGATACA
* *
3599978 TGGTAAAATGTATCGATACA
1 TGATAAATTGTATCGATACA
3599998 T
1 T
3599999 TGAGCCCAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
TGATAAATTGTATCGATACA
Found at i:3601561 original size:32 final size:31
Alignment explanation
Indices: 3601520--3601582 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
3601510 CTCATAAATG
3601520 AATATATTAAAATTGATATAAAATAAATTATT
1 AATATATTAAAATTGATAT-AAATAAATTATT
* *
3601552 AATATATTAAAATTTATATAAATATATTATT
1 AATATATTAAAATTGATATAAATAAATTATT
3601583 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
AATATATTAAAATTGATATAAATAAATTATT
Found at i:3601592 original size:20 final size:20
Alignment explanation
Indices: 3601569--3601608 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3601559 TAAAATTTAT
* *
3601569 ATAAATATATTATTTAAAAA
1 ATAAATATAGTATATAAAAA
*
3601589 ATAATTATAGTATATAAAAA
1 ATAAATATAGTATATAAAAA
3601609 TAATTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAAATATAGTATATAAAAA
Found at i:3601981 original size:17 final size:19
Alignment explanation
Indices: 3601952--3601987 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3601942 AAGTATTATA
3601952 ATTTTATATAATT-TTTTT
1 ATTTTATATAATTCTTTTT
3601970 ATTTTA-ATAATTCTTTTT
1 ATTTTATATAATTCTTTTT
3601988 TATAAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTATATAATTCTTTTT
Found at i:3602048 original size:18 final size:20
Alignment explanation
Indices: 3602017--3602053 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
3602007 AAAGCATTAT
*
3602017 AAATTTATATATTT-TTTTA
1 AAATTAATATATTTATTTTA
3602036 AAATTAATA-ATTTATTTT
1 AAATTAATATATTTATTTT
3602054 TTATATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AAATTAATATATTTATTTTA
Found at i:3602844 original size:67 final size:67
Alignment explanation
Indices: 3602772--3602900 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 67
3602762 TTTTTTATAT
* **
3602772 GTTCAAAGTA-TATATATTTAAATAAAATTTTACATTTTAATAATTTATTTTAT-TGAGATTTTA
1 GTTCAAAGTATTATAAATTTAAAT-AAATTTTACATGCTAATAATTTATTTTATAT-AGATTTTA
3602835 ACAC
64 ACAC
*
3602839 GTTCAAAGTATTATAAATTTATATAAATTTTACATGCTAATAATTTATTTTATATAGATTTT
1 GTTCAAAGTATTATAAATTTAAATAAATTTTACATGCTAATAATTTATTTTATATAGATTTT
3602901 GACATATTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 44 0.79
68 12 0.21
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (67 bp):
GTTCAAAGTATTATAAATTTAAATAAATTTTACATGCTAATAATTTATTTTATATAGATTTTAAC
AC
Found at i:3603077 original size:25 final size:22
Alignment explanation
Indices: 3603018--3603065 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
3603008 CATATATATA
* *
3603018 TTTAAGTTGTGTTTTATTATTT
1 TTTATGTTGTATTTTATTATTT
*
3603040 TTTATGTGGTATTTTAATTATTT
1 TTTATGTTGTATTTT-ATTATTT
3603063 TTT
1 TTT
3603066 TCTTGTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (22 bp):
TTTATGTTGTATTTTATTATTT
Found at i:3605024 original size:156 final size:153
Alignment explanation
Indices: 3604663--3605060 Score: 464
Period size: 156 Copynumber: 2.6 Consensus size: 153
3604653 AAAATACCCT
* **
3604663 TAGGGTCA-ACCTTCGACAT-AAGTATCTCGGTAACTCTGAA-GGACTTAAAAATGATCATAAAT
1 TAGGGT-ATACCTTCGACATAAAGTATCCCGGTAACTCT-AATGGACACAAAAATGATCATAAAT
** * * * * *
3604725 GGGATGATTTTATCCTAAATGCACACTTTTGGCATAAAAGCATCTAATGACAACCTATGACTCAA
64 GGGATGAACTTATCCTAAATACACACCTTTAGCAGAAAAGCATCTAATGACAACCTAGGACTCAA
* * *
3604790 TTCTAGGATATTAAGAAAATGCTCC
129 TTCTAGAAAATTAAGAAAATGCTCA
* * ** * * *
3604815 TAAGGTTTACCTTCGACATGAAAGTATCCCGGTAACTCTAATAAACACTAAAATGATTATAAATT
1 TAGGGTATACCTTCGACAT-AAAGTATCCCGGTAACTCTAATGGACACAAAAATGATCATAAATG
*
3604880 GGATGAACTTATCCTAAATACACACCTTTAGCAGAAAAGCATC-ACGGTGACAACCTAGGACTCA
65 GGATGAACTTATCCTAAATACACACCTTTAGCAGAAAAGCATCTA--ATGACAACCTAGGACTCA
3604944 ATTCTAAGAAAATTACA-AAAATGCTCA
128 ATTCT-AGAAAATTA-AGAAAATGCTCA
* *
3604971 TAGGGTATACCTTCGACATAAAAGTATCCCGGTAACCCTAATGGACACCAAAATGATCATAAATG
1 TAGGGTATACCTTCGACAT-AAAGTATCCCGGTAACTCTAATGGACACAAAAATGATCATAAATG
* *
3605036 GGATAAACCTATCCTAAATACACAC
65 GGATGAACTTATCCTAAATACACAC
3605061 TTTCGACGTA
Statistics
Matches: 206, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
152 16 0.08
153 3 0.01
154 70 0.34
155 21 0.10
156 95 0.46
157 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (153 bp):
TAGGGTATACCTTCGACATAAAGTATCCCGGTAACTCTAATGGACACAAAAATGATCATAAATGG
GATGAACTTATCCTAAATACACACCTTTAGCAGAAAAGCATCTAATGACAACCTAGGACTCAATT
CTAGAAAATTAAGAAAATGCTCA
Found at i:3605094 original size:156 final size:153
Alignment explanation
Indices: 3604663--3605121 Score: 457
Period size: 156 Copynumber: 3.0 Consensus size: 153
3604653 AAAATACCCT
* **
3604663 TAGGGTCA-ACCTTCGACAT-AAGTATCTCGGTAACTCTGAA-GGACTTAAAAATGATCATAAAT
1 TAGGGT-ATACCTTCGACATAAAGTATCCCGGTAACTCT-AATGGACACAAAAATGATCATAAAT
** * * * * *
3604725 GGGATGATTTTATCCTAAATGCACACTTTTGGCATAAAAGCAT-CTAATGACAACCTATGACTCA
64 GGGATGAACTTATCCTAAATACACAC-TTTAGCGTAAAAGCATCCTGATGACAACCTAGGACTCA
* * *
3604789 ATTCTAGGATATTAAGAAAATGCTCC
128 ATTCTAGAAAATTAAGAAAATGCTCA
* * ** * * *
3604815 TAAGGTTTACCTTCGACATGAAAGTATCCCGGTAACTCTAATAAACACTAAAATGATTATAAATT
1 TAGGGTATACCTTCGACAT-AAAGTATCCCGGTAACTCTAATGGACACAAAAATGATCATAAATG
*
3604880 GGATGAACTTATCCTAAATACACACCTTTAGCAG-AAAAGCATCAC-GGTGACAACCTAGGACTC
65 GGATGAACTTATCCTAAATACACA-CTTTAGC-GTAAAAGCATC-CTGATGACAACCTAGGACTC
3604943 AATTCTAAGAAAATTACA-AAAATGCTCA
127 AATTCT-AGAAAATTA-AGAAAATGCTCA
* *
3604971 TAGGGTATACCTTCGACATAAAAGTATCCCGGTAACCCTAATGGACACCAAAATGATCATAAATG
1 TAGGGTATACCTTCGACAT-AAAGTATCCCGGTAACTCTAATGGACACAAAAATGATCATAAATG
* * * * * * * *
3605036 GGATAAACCTATCCTAAATACACACTTTCGACGTAACATCATCCTGATGACAATCTAGGATTCGA
65 GGATGAACTTATCCTAAATACACACTTTAG-CGTAAAAGCATCCTGATGACAACCTAGGACTCAA
*
3605101 TT-TCAGGAAAATTATGAAAAT
129 TTCT-A-GAAAATTAAGAAAAT
3605122 ACCCTTAAGT
Statistics
Matches: 251, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
152 16 0.06
153 2 0.01
154 67 0.27
155 31 0.12
156 134 0.53
157 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (153 bp):
TAGGGTATACCTTCGACATAAAGTATCCCGGTAACTCTAATGGACACAAAAATGATCATAAATGG
GATGAACTTATCCTAAATACACACTTTAGCGTAAAAGCATCCTGATGACAACCTAGGACTCAATT
CTAGAAAATTAAGAAAATGCTCA
Found at i:3605219 original size:27 final size:27
Alignment explanation
Indices: 3605170--3605221 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3605160 AACACGAAAG
*
3605170 TATTATAAAAAGGATGAATTTTACCAT
1 TATTATAAAAAGGATGAACTTTACCAT
*
3605197 TATTATAAAAAGGATGACCTTTACC
1 TATTATAAAAAGGATGAACTTTACC
3605222 CTAAATGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (27 bp):
TATTATAAAAAGGATGAACTTTACCAT
Found at i:3605960 original size:29 final size:30
Alignment explanation
Indices: 3605904--3605965 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
3605894 CTTATACAAC
*
3605904 AAATTTTGCAAAAATTACAAATTAGTTCCT
1 AAATTTTGCAAAAATTACAAATAAGTTCCT
*
3605934 AAATTTT-CTAAAATTACAAA-AAGGTTCCT
1 AAATTTTGCAAAAATTACAAATAA-GTTCCT
3605963 AAA
1 AAA
3605966 ATATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.03
29 21 0.72
30 7 0.24
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTTTGCAAAAATTACAAATAAGTTCCT
Found at i:3605975 original size:29 final size:29
Alignment explanation
Indices: 3605912--3605976 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
3605902 ACAAATTTTG
* *
3605912 CAAAAATTACAAATTAGTTCCTAAATTTT
1 CAAAAATTACAAATAAGTTCCTAAATATT
*
3605941 CTAAAATTACAAA-AAGGTTCCTAAAATATT
1 CAAAAATTACAAATAA-GTTCCT-AAATATT
3605971 -AAAAAT
1 CAAAAAT
3605977 GTCTAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 23 0.77
30 6 0.20
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (29 bp):
CAAAAATTACAAATAAGTTCCTAAATATT
Found at i:3611493 original size:16 final size:17
Alignment explanation
Indices: 3611458--3611497 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3611448 GAAGTATAAG
*
3611458 TTTTTAAATGAATTTTTA
1 TTTTTAAA-GAATTTATA
3611476 TTTTTAAA-AATTTATA
1 TTTTTAAAGAATTTATA
3611492 TTTTTA
1 TTTTTA
3611498 TCAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
18 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAAAGAATTTATA
Found at i:3617509 original size:20 final size:20
Alignment explanation
Indices: 3617480--3617554 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
3617470 TTTTACCCAG
3617480 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3617500 ATGCATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
3617520 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
3617540 ATATATCGATACATT
1 ATGTATCGATACATT
3617555 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3622204 original size:177 final size:176
Alignment explanation
Indices: 3621909--3622263 Score: 656
Period size: 177 Copynumber: 2.0 Consensus size: 176
3621899 TTGCTTCTTA
*
3621909 ATTCGAAGGTTCACCAAAATACATTATTGAAGGTGTTAAACGAAGCATACGTAGCACCCGATGTA
1 ATTCGAAGGTTCACCAAAATACATTATTGAAGGTGTTAAACGAAGCATACGTACCACCCGATGTA
*
3621974 TCTGTGGATAAATTGGATTGGTTGGTGAATAATATCATGGATGATAATTATATCTCCTTTACCGA
66 TCTGTGGATAAATTGGATCGGTTGGTGAATAATATCATGGATGATAATTATATCTCCTTTACCGA
3622039 TGATGAAATCCCACCTGGAGGTAGGGGCAGTTATAAGGCTTTACAC
131 TGATGAAATCCCACCTGGAGGTAGGGGCAGTTATAAGGCTTTACAC
* *
3622085 ATTCGAAGGTTCACCAAAATACATTGTTGAAGGTGTTAAACGAAGCATACAGTACCACTCGATGT
1 ATTCGAAGGTTCACCAAAATACATTATTGAAGGTGTTAAACGAAGCATAC-GTACCACCCGATGT
*
3622150 ATCTGTGGATAAATTGGATCGGTTGGTGAATAATATCATGGCTGATAATTATATCTCCTTTACCG
65 ATCTGTGGATAAATTGGATCGGTTGGTGAATAATATCATGGATGATAATTATATCTCCTTTACCG
3622215 ATGATGAAATCCCACCTGGAGGTAGGGGCAGTTATAAGGCTTTACAC
130 ATGATGAAATCCCACCTGGAGGTAGGGGCAGTTATAAGGCTTTACAC
3622262 AT
1 AT
3622264 CACTACCTAT
Statistics
Matches: 173, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
176 49 0.28
177 124 0.72
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (176 bp):
ATTCGAAGGTTCACCAAAATACATTATTGAAGGTGTTAAACGAAGCATACGTACCACCCGATGTA
TCTGTGGATAAATTGGATCGGTTGGTGAATAATATCATGGATGATAATTATATCTCCTTTACCGA
TGATGAAATCCCACCTGGAGGTAGGGGCAGTTATAAGGCTTTACAC
Found at i:3626879 original size:20 final size:20
Alignment explanation
Indices: 3626856--3626922 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
3626846 AAGTACCCAG
*
3626856 ATGTATCGATACATTTTTCA
1 ATGTATCAATACATTTTTCA
* * *
3626876 ATGTATCAATACATGTATGA
1 ATGTATCAATACATTTTTCA
*
3626896 ATGTATCAATACATTCTTCA
1 ATGTATCAATACATTTTTCA
3626916 ATGTATC
1 ATGTATC
3626923 GACACATTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:3626929 original size:20 final size:20
Alignment explanation
Indices: 3626856--3626932 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
3626846 AAGTACCCAG
* *
3626856 ATGTATCGATACATTTTTCA
1 ATGTATCAATACATTCTTCA
* *
3626876 ATGTATCAATACATGT-ATGA
1 ATGTATCAATACAT-TCTTCA
3626896 ATGTATCAATACATTCTTCA
1 ATGTATCAATACATTCTTCA
* *
3626916 ATGTATCGACACATTCT
1 ATGTATCAATACATTCT
3626933 GTCTTTTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATTCTTCA
Found at i:3630782 original size:51 final size:50
Alignment explanation
Indices: 3630652--3630787 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 50
3630642 AAAATTAGTA
* * *
3630652 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * * *
3630703 TTCTAAAAAATAAAATCGAGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
3630755 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
3630788 TCGGAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
51 36 0.51
52 34 0.49
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:3630853 original size:79 final size:79
Alignment explanation
Indices: 3630722--3631540 Score: 1305
Period size: 79 Copynumber: 10.4 Consensus size: 79
3630712 ATAAAATCGA
* *
3630722 GGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
3630787 CTCGGAAATAACAG
66 CTCGGAAATAACGG
* * * *
3630801 GGTTAGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTTTCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
3630866 CTCGAAAATAACGG
66 CTCGGAAATAACGG
* * **
3630880 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTAAGAAATAAAGTCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
3630945 CTCAGAAATAACGG
66 CTCGGAAATAACGG
*
3630959 GGTTGGAGTATCCCCGAATGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
3631024 CTCGAAAATAACGG
66 CTCGGAAATAACGG
* *
3631038 GGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
3631103 CTCGGAAATAACGG
66 CTCGGAAATAACGG
* * *
3631117 GGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTAGAGATAAAATCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
3631182 CTCAGAAATAACGG
66 CTCGGAAATAACGG
* **
3631196 GATTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAGTCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
3631261 CTCGGAAATAACGG
66 CTCGGAAATAACGG
* *
3631275 GGTTGGAGTATCCCCGAATGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
**
3631340 CTCAAAAATAACGG
66 CTCGGAAATAACGG
* * *
3631354 GGTTAGAGTATCCCCGATTGTGAAGAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
3631419 CTCGGAAATAACGG
66 CTCGGAAATAACGG
* * * *
3631433 AGTTGGAGTATCCCCGATTATTAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
3631498 CTCGGAAATAACGG
66 CTCGGAAATAACGG
* *
3631512 GATTGGAGTATCTCCGATTGTGAAAAATT
1 GGTTGGAGTATCCCCGATTGTGAAAAATT
3631541 AAGAAACTTA
Statistics
Matches: 678, Mismatches: 62, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 678 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CTCGGAAATAACGG
Found at i:3632822 original size:35 final size:35
Alignment explanation
Indices: 3632753--3632971 Score: 390
Period size: 35 Copynumber: 6.3 Consensus size: 35
3632743 CCTTTTTATG
3632753 CATCATTCCATGCCTTCATTTTT-TATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
3632787 CATCATTCCATGCTTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3632822 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
3632857 CATCATTCCATGCCTTTATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
3632892 CATCATTCCATGCCTTCATTTTT-TTTTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3632926 CAT-ATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3632960 CATCATTCCATG
1 CATCATTCCATG
3632972 TTTTTTTTAT
Statistics
Matches: 176, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
33 19 0.11
34 48 0.27
35 109 0.62
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (35 bp):
CATCATTCCATGCCTTCATTTTTATATTCCATGCC
Found at i:3632955 original size:103 final size:104
Alignment explanation
Indices: 3632753--3632971 Score: 388
Period size: 103 Copynumber: 2.1 Consensus size: 104
3632743 CCTTTTTATG
*
3632753 CATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCTTTCATTTTTATATTCCA
1 CATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCA
3632818 TGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
66 TGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
* *
3632857 CATCATTCCATGCCTTTATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTT-TTTTCC
1 CATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3632921 ATGCCCAT-ATTCCATGCCTTCATTTTTATATTCCATGCC
65 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
3632960 CATCATTCCATG
1 CATCATTCCATG
3632972 TTTTTTTTAT
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
103 43 0.39
104 35 0.32
105 33 0.30
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (104 bp):
CATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCA
TGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
Found at i:3633863 original size:40 final size:42
Alignment explanation
Indices: 3633742--3633882 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 42
3633732 ACGAAATACT
* * * * * *
3633742 TCCTGCTCTATAAGGATAAAG-AAA-AAGGAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGAAAAGAAGGGAAA-GAAGTGTG
*
3633783 TCCTGTTCTTTGAGGACAAAGGAAAAGAAGGGAAAGAAGTGTG
1 TCCTGCTCTTTGAGGACAAA-GAAAAGAAGGGAAAGAAGTGTG
*
3633826 TCCTGCTCTTTGAGGAC-AA-AAGAGAAGGGAAAGAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGAAAAGAAGGGAAAGAAGTGTG
*
3633866 TCCTGCTCTTTAAGGAC
1 TCCTGCTCTTTGAGGAC
3633883 TGAAAAGTGC
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
40 36 0.41
41 16 0.18
42 3 0.03
43 25 0.29
44 7 0.08
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (42 bp):
TCCTGCTCTTTGAGGACAAAGAAAAGAAGGGAAAGAAGTGTG
Found at i:3633955 original size:61 final size:60
Alignment explanation
Indices: 3633865--3634678 Score: 881
Period size: 61 Copynumber: 13.9 Consensus size: 60
3633855 AAAGAAGTGT
* * * *
3633865 GTCCTGCTCTTTAAGGACT-GAAAAGTGCCACCAACTCGTGCGGTCTTTGGAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAGAAAAGGC
* * **
3633926 GTCCTGCACTTTGAGGACTGGAAGA-TGCCACCAA-TTAGTGTGAGATTTGTAAAGAGAAA-GC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTT-GTGTG-GGCTT-TAAAGA-AAAGGC
*
3633987 ATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGC
*
3634042 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGC
* *
3634103 ATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAATTTGTGTGGGCTTT---G-AAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGC
* *
3634158 GTCCTGCTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGC
* *
3634219 ATCCTGCTCTTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGC
*
3634274 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGC
* * * *
3634335 ATGCTACTCTTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTGGGCTTT---G-AAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGC
* * *
3634390 GTCCTGCTCTTTAAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGC
* * *
3634451 ATCCTGCTCTTTGAGGA-TTGAAAAGCGCCACCAACTTGTGTGGGCTTT----AAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGC
* * * **
3634506 GCCCTGCTCATTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGC
* **
3634567 GTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGC
* *
3634627 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAA
1 GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
3634679 AGATGTCCTG
Statistics
Matches: 654, Mismatches: 53, Indels: 92
0.82 0.07 0.12
Matches are distributed among these distances:
54 3 0.00
55 244 0.37
56 5 0.01
59 1 0.00
60 72 0.11
61 290 0.44
62 38 0.06
63 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGC
Found at i:3634083 original size:116 final size:116
Alignment explanation
Indices: 3633866--3634680 Score: 1179
Period size: 116 Copynumber: 6.9 Consensus size: 116
3633856 AAGAAGTGTG
* * * *
3633866 TCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGCGGTCTTTGGAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCT
* * * * * *
3633931 GCACTTTGAGGACTGGAAGATGCCACCAA-TTAGTGTGAGATTTGTAAA-GAGAAA-GCA
60 GCTCTTTGAGGACTGAAAGGTGCCACCAACTT-GTGTGGGCTTT-AAAAGGA-AAAGGCA
3633988 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3634053 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
3634104 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAATTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
3634169 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
3634220 TCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3634285 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
3634336 TGCTACTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* *
3634401 TAAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
3634452 TCCTGCTCTTTGAGGATTGAAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGCCCTGCTCAT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* ** *
3634517 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
3634568 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AA----AAGGCGTCCT
* *
3634632 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAG
60 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
3634681 ATGTCCTGTT
Statistics
Matches: 641, Mismatches: 42, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
115 32 0.05
116 509 0.79
117 4 0.01
121 22 0.03
122 74 0.12
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:3634218 original size:177 final size:172
Alignment explanation
Indices: 3633865--3634972 Score: 1136
Period size: 177 Copynumber: 6.5 Consensus size: 172
3633855 AAAGAAGTGT
* * * * * *
3633865 GTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGCGGTCTTTGGAAA-GAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTC
* * * * *
3633929 CTGCACTTTGAGGACTG-GAAGATGCCACCAA-TTAGTGTGAGATTTGTAAAGAGAAAGCATCCT
65 CTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTT-GTGTGGGCTTTG--AA-AG---GCGTCCT
*
3633992 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGC
122 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
*
3634042 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
*
3634107 TGCTCTTTGAGGACTGAAAAGTGCCACCAATTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
*
3634172 AGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
131 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGC
* * *
3634219 ATCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
3634278 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATGCTACT
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCT
* *
3634343 CTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGC
125 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
* * *
3634390 GTCCTGCTCTTTAAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
3634455 TGCTCTTTGAGGATTGAAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGCCCTGCTCATTGA
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
3634520 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGC
131 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AAGGC
**
3634567 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * ** *
3634631 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGATGTCCTGTTCTTTG
66 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
* *
3634696 AGGACT-AAAGG-GCGA--AA---G-G-AGG----G---A-GC
130 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
* *
3634722 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT---A--AAAA-GAGTC
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * *
3634780 CTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGC
65 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG--AA-AG---GCGTCCTGC
* * *
3634845 TCTTTGAGGACTGGAAA-ATGCCACCAATTTGTGTGGGCTTT-AAGAGGC
124 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
3634893 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTC
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
*
3634951 CTACTCTTTGAGGACTGAAAAG
65 CTGCTCTTTGAGGACTGAAAAG
3634973 GGTGAGAGAA
Statistics
Matches: 796, Mismatches: 79, Indels: 118
0.80 0.08 0.12
Matches are distributed among these distances:
149 27 0.03
150 19 0.02
151 4 0.01
152 2 0.00
153 1 0.00
155 38 0.05
156 25 0.03
157 8 0.01
159 2 0.00
162 1 0.00
163 1 0.00
164 3 0.00
168 2 0.00
169 1 0.00
170 5 0.01
171 267 0.34
172 1 0.00
173 3 0.00
174 2 0.00
175 5 0.01
176 65 0.08
177 309 0.39
178 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (172 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
Found at i:3634278 original size:232 final size:232
Alignment explanation
Indices: 3633866--3634970 Score: 1316
Period size: 232 Copynumber: 4.8 Consensus size: 232
3633856 AAGAAGTGTG
* * * *
3633866 TCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGCGGTCTTTGGAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCGTCCT
* * * * * *
3633931 GCACTTTGAGGACTGGAAGATGCCACCAA-TTAGTGTGAGATTTGTAAAGAGAAA-GCATCCTGC
61 GCTCTTTGAGGACTGAAAGGTGCCACCAACTT-GTGTGGGCTTT-AAAAGA-AAAGGCATCCTGC
3633994 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
123 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
3634059 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
188 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
3634104 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAATTTGTGTGGGCTTTG-AAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
*
3634168 TTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCATCCTGCTCTTTGA
*
3634233 GGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
130 GGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
3634298 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
195 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
3634336 TGCTACTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
* *
3634400 TTAAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCATCCTGCTCTTTGA
* * * *
3634465 GGATTGAAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGCCCTGCTCATTGAGGACTGAAAG
130 GGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
* ** *
3634530 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCG
195 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
3634568 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-GAA----AAGGCGTCCT
* * * *
3634632 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAG---ATG--TCCTGTTC
61 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* * *
3634692 TTTGAGGACT--AAAGGGCGA--AA---G-GAGGG-------A-GCGTCCTGCTCTTTGAGGACT
125 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
* *
3634741 AGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAA--AAGA-G--
190 -GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
3634778 TCCTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAA-AG---GCGTCCT
* * *
3634843 GCTCTTTGAGGACTGGAAA-ATGCCACCAATTTGTGTGGGCTTT--AAG---AGGCGTCCTGCTC
61 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* * *
3634902 TTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACT
125 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
3634967 GAAA
190 GAAA
3634971 AGGGTGAGAG
Statistics
Matches: 772, Mismatches: 60, Indels: 83
0.84 0.07 0.09
Matches are distributed among these distances:
207 1 0.00
208 7 0.01
210 55 0.07
211 54 0.07
212 8 0.01
213 1 0.00
214 2 0.00
215 3 0.00
216 43 0.06
217 5 0.01
218 4 0.01
224 4 0.01
225 5 0.01
226 20 0.03
228 2 0.00
230 7 0.01
231 33 0.04
232 416 0.54
233 4 0.01
234 2 0.00
237 23 0.03
238 73 0.09
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (232 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTGAG
GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:3634781 original size:94 final size:96
Alignment explanation
Indices: 3634625--3634801 Score: 306
Period size: 94 Copynumber: 1.9 Consensus size: 96
3634615 AAAGGCGAAG
3634625 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGATGTCCTGT
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGATGTCCTGT
3634690 TCTTTGAGGACT-AAAGGGCGAAAGGAGGGA
66 TCTTTGAGGACTGAAAGGGCGAAAGGAGGGA
* *
3634720 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-GTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTT-AAAAGATGTCCTG
3634783 TTCTTTGAGGACTGAAAGG
65 TTCTTTGAGGACTGAAAGG
3634802 TGCCACCAAC
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
94 44 0.56
95 34 0.44
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (96 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGATGTCCTGT
TCTTTGAGGACTGAAAGGGCGAAAGGAGGGA
Found at i:3634806 original size:55 final size:55
Alignment explanation
Indices: 3634722--3634972 Score: 308
Period size: 55 Copynumber: 4.5 Consensus size: 55
3634712 AGGAGGGAGC
3634722 GTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 GTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
3634777 GTCCTGTTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT--AAA-A-AGA
* * * * *
3634836 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAGAGGC
1 G--TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * *
3634893 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
3634948 GTCCTACTCTTTGAGGACTGAAAAG
1 GTCCTGCTCTTTGAGGACTGGAAAG
3634973 GGTGAGAGAA
Statistics
Matches: 172, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
53 1 0.01
54 2 0.01
55 115 0.67
57 4 0.02
58 2 0.01
59 5 0.03
61 39 0.23
62 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
Found at i:3634927 original size:116 final size:115
Alignment explanation
Indices: 3634723--3634945 Score: 351
Period size: 116 Copynumber: 1.9 Consensus size: 115
3634713 GGAGGGAGCG
* *
3634723 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGTTCTT
1 TCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCTCTT
3634788 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGAGAAAGCA
* * * *
3634839 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAATTTGTGTGGGCTTTAAGAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGG-AAATGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCTCT
3634903 TTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
3634946 GCGTCCTACT
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
115 6 0.06
116 89 0.90
117 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (115 bp):
TCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAAGCA
Found at i:3635087 original size:54 final size:55
Alignment explanation
Indices: 3634989--3635122 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 55
3634979 AGAAGAGAGT
* * * * *
3634989 GTCCTGCTTTTTGAAGACTAGGAA-GTGGCATCAACTTGTGTGGGCTTTAAAAAGA
1 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGA
* * *
3635044 GTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGA
*
3635098 GTCCTACTCTTTGAGGACTGGAAGG
1 GTCCTGCTCTTTGAGGACTGGAAGG
3635123 GCTAAAAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.04
54 43 0.63
55 22 0.32
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGA
Found at i:3641310 original size:51 final size:50
Alignment explanation
Indices: 3641194--3641329 Score: 166
Period size: 51 Copynumber: 2.6 Consensus size: 50
3641184 AAAATTAGTA
* * *
3641194 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAATGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAATGATG
* *
3641245 TTCTAAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-TGATG
*
3641297 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
3641330 TCGGAAATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
51 37 0.51
52 36 0.49
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAATGATG
Found at i:3641403 original size:79 final size:79
Alignment explanation
Indices: 3641261--3641766 Score: 805
Period size: 79 Copynumber: 6.4 Consensus size: 79
3641251 AAAATAAAAT
* *
3641261 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3641326 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
** * * * * *
3641340 CAAGGTTGGAGTATCCCCGATTGTAAAAAATTAATATTTTAGAAATAAAATCGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
3641405 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * *
3641419 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3641484 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
3641498 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3641563 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
3641577 CGGGGTTGGAGTATCCCCGATTGTGAAGAATTGATGTTTTAGAAATAAAGCCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
3641642 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * * *
3641656 CGGAGTTGGAGTATCCCCGATTATTAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3641721 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
3641735 CGGGATTGGAGTATCTCCGATTGTGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT
3641767 AAGAAACTTA
Statistics
Matches: 387, Mismatches: 40, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 387 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:3643050 original size:35 final size:35
Alignment explanation
Indices: 3642981--3643200 Score: 408
Period size: 35 Copynumber: 6.3 Consensus size: 35
3642971 CCTTTTTATG
3642981 CATCATTCCATGCCTTCATTTTT-TATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
3643015 CATCATTCCATGCCGTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3643050 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
3643085 CATCATTCCATGCCTTTATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3643120 CATCATTCCATGCCTTCATTTTT-TATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3643154 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
3643189 CATCATTCCATG
1 CATCATTCCATG
3643201 TTTTTTTTTT
Statistics
Matches: 180, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
34 56 0.31
35 124 0.69
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
CATCATTCCATGCCTTCATTTTTATATTCCATGCC
Found at i:3643129 original size:14 final size:14
Alignment explanation
Indices: 3643110--3643167 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 14
3643100 TTATTTTTAT
3643110 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
3643124 ATTCCATGCCTTCATTTTTT
1 ATTCCATGCC--CA----TC
3643144 ATTCCATGCCCATC
1 ATTCCATGCCCATC
3643158 ATTCCATGCC
1 ATTCCATGCC
3643168 TTCATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 21 0.58
16 2 0.06
18 2 0.06
20 11 0.31
ACGTcount: A:0.19, C:0.36, G:0.07, T:0.38
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:3643161 original size:104 final size:104
Alignment explanation
Indices: 3642981--3643200 Score: 406
Period size: 104 Copynumber: 2.1 Consensus size: 104
3642971 CCTTTTTATG
3642981 CATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCGTCATTTTTATATTCCA
1 CATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCGTCATTTTTATATTCCA
3643046 TGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
66 TGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
* *
3643085 CATCATTCCATGCCTTTATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 CATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCCATGCCGTCATTTTTATATTCC
3643149 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
65 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
3643189 CATCATTCCATG
1 CATCATTCCATG
3643201 TTTTTTTTTT
Statistics
Matches: 113, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
104 80 0.71
105 33 0.29
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (104 bp):
CATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCGTCATTTTTATATTCCA
TGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCC
Found at i:3646604 original size:14 final size:15
Alignment explanation
Indices: 3646585--3646617 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3646575 CTTCATACCC
3646585 AAAAAAAACAA-AAA
1 AAAAAAAACAAGAAA
*
3646599 AAAAAAACCAAGAAA
1 AAAAAAAACAAGAAA
3646614 AAAA
1 AAAA
3646618 TAATAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAGAAA
Found at i:3647549 original size:20 final size:20
Alignment explanation
Indices: 3647524--3647577 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3647514 CTACCACTAT
*
3647524 TTGTATCGATACATGGT-ATA
1 TTGTATCGATACATGATGA-A
*
3647544 TTGTATCGATATATGATGAA
1 TTGTATCGATACATGATGAA
3647564 TTGTATCGATACAT
1 TTGTATCGATACAT
3647578 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:3651778 original size:182 final size:179
Alignment explanation
Indices: 3651378--3651944 Score: 685
Period size: 182 Copynumber: 3.1 Consensus size: 179
3651368 AAACCTTTTA
* *
3651378 ACCTTTTAGTCTTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 ACCTTCTAGTCCTCAAAGAGTAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* ** * *
3651443 TTTAGTCCTCAAAGAGCAGGACATTTCTTTCCTGTTAAAGCCCACATAAGTTGGTGGCA--TATT
65 TTTAGTCCTCAAAGAG-AAGA-ACCT-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TT
* * * *
3651506 CTAGTCCTCAAAGAGCATGACGTGTTTTCATTTTAAAGCCCACATAAGTTGGTGGC
126 C-AGTCCTCAAAGAGCAGGACGCGTTTTC-CTTTAAAGCCCACACAAGTTGGTGGC
* * *
3651562 ACCTTCTAGTCCTCAAAGAGCAAGACG-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 ACCTTCTAGTCCTCAAAGAGTAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
3651626 CTAGTCCTCAAAGAGTAAGAACCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCTTTCAAT
66 TTAGTCCTCAAAGAG-AAGAACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
3651691 CCTTAAAGAGCAGGATGCCTTTTCCTATTAAAGCCCACACAAGTTGGTGGC
130 CCTCAAAGAGCAGGACGCGTTTTCCT-TTAAAGCCCACACAAGTTGGTGGC
* *
3651742 ACCTT-TCAGTCCTCAAAGAGTAGGACGCCCTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACC
1 ACCTTCT-AGTCCTCAAAGAGTAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
3651806 TTTTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTTAAAGCCCACATGAA-CTGGTGGCACCTTT
64 TTTTAGTCCTCAAAGAGAAGAAC-CTTTTCC-TTTTAAAGCCCACA-CAAGTTGGTGGCACCTTT
* * *
3651870 TAGTCCTCAAAGAGCAGGACGCGTTCTCCTTGCAAAGCCCACACAAGTTGGTGGC
126 CAGTCCTCAAAGAGCAGGACGCGTTTTCCTT-TAAAGCCCACACAAGTTGGTGGC
* *
3651925 ACCCTCTAGTCCCCAAAGAG
1 ACCTTCTAGTCCTCAAAGAG
3651945 CAAAACGCGC
Statistics
Matches: 331, Mismatches: 41, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
179 2 0.01
180 96 0.29
181 9 0.03
182 110 0.33
183 88 0.27
184 26 0.08
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (179 bp):
ACCTTCTAGTCCTCAAAGAGTAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TTAGTCCTCAAAGAGAAGAACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACGCGTTTTCCTTTAAAGCCCACACAAGTTGGTGGC
Found at i:3651953 original size:61 final size:61
Alignment explanation
Indices: 3651378--3651946 Score: 684
Period size: 61 Copynumber: 9.4 Consensus size: 61
3651368 AAACCTTTTA
* *
3651378 ACCTTTTAGTCTTCAAAGAGTAGGACGTC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACG-CGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
*** * *
3651439 ACCTTTTAGTCCTCAAAGAGCAGGACATTTCTTTCCTGTTAAAGCCCACATAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGT-TTTCCTTTTAAAGCCCACACAAGTTGGTGGC
** * * * * *
3651501 ATATTCTAGTCCTCAAAGAGCATGACGTGTTTTCATTTTAAAGCCCACATAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
3651562 ACCTTCTAGTCCTCAAAGAGCAAGA--CGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
3651621 ACCTTCTAGTCCTCAAAGAGTAAGAAC-C-TTTTCCTTTTAAAGCTCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAG-CAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * *
3651681 ACCTTTCAATCCTTAAAGAGCAGGATGCCTTTTCCTATTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * ** *
3651742 ACCTTTCAGTCCTCAAAGAGTAGGACGCCCTTTCCTTTTAAAGCCCACATAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* *
3651803 ACCTTTTAGTCCTCAAAGAGCAGGACGC-TTTTCCTTTTTAAAGCCCACATGAA-CTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCC-TTTTAAAGCCCACA-CAAGTTGGTGGC
* **
3651864 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTCTCCTTGCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
3651925 ACCCTCTAGTCCCCAAAGAGCA
1 ACCTTTTAGTCCTCAAAGAGCA
3651947 AAACGCGCTT
Statistics
Matches: 443, Mismatches: 55, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
59 53 0.12
60 56 0.13
61 274 0.62
62 60 0.14
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (61 bp):
ACCTTTTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:3652068 original size:43 final size:42
Alignment explanation
Indices: 3651955--3652106 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 42
3651945 CAAAACGCGC
* * *
3651955 TTTAATTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGACGCA
1 TTTAATTT-TTTTTTTTCCTTTGTCCTTAAAGAGCAGGACACA
** * * *
3651998 CTTT-ATTTCCTTTTCT-CTGGTGTCCTTAAAAAGCAGGACACA
1 -TTTAATTTTTTTTTTTCCT-TTGTCCTTAAAGAGCAGGACACA
* *
3652040 TTTAATTTATTTTTTTTCCTTTGTCCTTAAGGAGCAGGACCCA
1 TTTAATTT-TTTTTTTTCCTTTGTCCTTAAAGAGCAGGACACA
* * *
3652083 TTTCA--TTCTCTTTTCCTTTGTCCT
1 TTTAATTTTTTTTTTTCCTTTGTCCT
3652107 CGAAAAGCAG
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
40 16 0.19
41 6 0.07
42 27 0.31
43 32 0.37
44 5 0.06
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.45
Consensus pattern (42 bp):
TTTAATTTTTTTTTTTCCTTTGTCCTTAAAGAGCAGGACACA
Found at i:3652116 original size:40 final size:38
Alignment explanation
Indices: 3651959--3652117 Score: 115
Period size: 40 Copynumber: 3.9 Consensus size: 38
3651949 ACGCGCTTTA
*
3651959 ATTTC-TTTCTTTTCCTTTGTCCTCAAAGAGCAGGACGC
1 ATTTCATTTCTTTTCCTTTGTCCTCAAA-AGCAGGACAC
* *
3651997 ACTTT-ATTTCCTTTTCTCTGGTGTCCTTAAAAAGCAGGACAC
1 A-TTTCATTT-CTTTTC-CT-TTGTCC-TCAAAAGCAGGACAC
* * * * *
3652039 ATTTAATTTATTTTTTTTCCTTTGTCCTTAAGGAGCAGGACCC
1 A--T--TTCATTTCTTTTCCTTTGTCCTCAA-AAGCAGGACAC
3652082 ATTTCATTCTCTTTTCCTTTGTCCTCGAAAAGCAGG
1 ATTTCATT-TCTTTTCCTTTGTCCTC-AAAAGCAGG
3652118 GCGTACTCCT
Statistics
Matches: 95, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
38 1 0.01
39 11 0.12
40 27 0.28
41 5 0.05
42 18 0.19
43 20 0.21
44 2 0.02
45 7 0.07
46 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (38 bp):
ATTTCATTTCTTTTCCTTTGTCCTCAAAAGCAGGACAC
Found at i:3653706 original size:22 final size:21
Alignment explanation
Indices: 3653681--3653735 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
3653671 TTCTTACTTA
*
3653681 AAAACATTTGATTTA-AAGCTCG
1 AAAACATTT-ATTCATAA-CTCG
*
3653703 AAAACATATATTCATAACTCG
1 AAAACATTTATTCATAACTCG
3653724 AAAACATTTATT
1 AAAACATTTATT
3653736 GATATTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAACATTTATTCATAACTCG
Found at i:3655341 original size:19 final size:20
Alignment explanation
Indices: 3655317--3655375 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
3655307 CACACCCAGA
* *
3655317 TGTATCGATACATGTTCA-T
1 TGTATCGATACATGATAACT
3655336 TGTATCGATACATGGATAACT
1 TGTATCGATACAT-GATAACT
3655357 TGTATCGATACATGA-AACT
1 TGTATCGATACATGATAACT
3655376 AGCAGTAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.47
20 5 0.14
21 14 0.39
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGATAACT
Found at i:3655361 original size:21 final size:20
Alignment explanation
Indices: 3655317--3655370 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
3655307 CACACCCAGA
* *
3655317 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
3655336 TGTATCGATACATGGATAACT
1 TGTATCGATACATGGATAA-T
3655357 TGTATCGATACATG
1 TGTATCGATACATG
3655371 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 13 0.42
20 3 0.10
21 15 0.48
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:3664435 original size:19 final size:20
Alignment explanation
Indices: 3664411--3664467 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
3664401 GTATCAATAT
**
3664411 ATTGTATCGATACATG-TTA
1 ATTGTATCGATACATGACAA
3664430 ATTGTATCGATACATGGACAA
1 ATTGTATCGATACAT-GACAA
3664451 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
3664468 AACTAGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 15 0.44
20 3 0.09
21 16 0.47
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGACAA
Found at i:3664532 original size:33 final size:33
Alignment explanation
Indices: 3664495--3664562 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3664485 CTATCACTAT
* *
3664495 TTGTATTGATACATGCTA-CAATGTATCGATACA
1 TTGTATTGATACATG-AAGAAATGTATCGATACA
3664528 TTGTATTGATACATGAAGAAATGTATCGATACA
1 TTGTATTGATACATGAAGAAATGTATCGATACA
3664561 TT
1 TT
3664563 ATGAATTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (33 bp):
TTGTATTGATACATGAAGAAATGTATCGATACA
Found at i:3664558 original size:20 final size:20
Alignment explanation
Indices: 3664529--3664583 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3664519 ATCGATACAT
*
3664529 TGTATTGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
* * *
3664549 TGTATCGATACATTATGAAT
1 TGTATCGATACATGAAGAAA
3664569 TGTATCGATACATGA
1 TGTATCGATACATGA
3664584 CTACGGGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:3665589 original size:13 final size:13
Alignment explanation
Indices: 3665571--3665597 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3665561 CCAAAATCCT
3665571 TGTTGGTGACAGG
1 TGTTGGTGACAGG
3665584 TGTTGGTGACAGG
1 TGTTGGTGACAGG
3665597 T
1 T
3665598 CAACGGGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.44, T:0.33
Consensus pattern (13 bp):
TGTTGGTGACAGG
Found at i:3666769 original size:158 final size:157
Alignment explanation
Indices: 3666514--3666870 Score: 407
Period size: 158 Copynumber: 2.3 Consensus size: 157
3666504 TCATGTTTTT
* * * * *
3666514 ATTTTCTAAGGGATACTCCAACCCCGGTTTTA-TTCCCAAAATAATGATTTTTCACAATTGGGGA
1 ATTTTCGAAGGGATACTCCAACCTCGGTTTTATTTCCCAAAACAA-GATTTTTCACAATCGAGGA
* * * * * *
3666578 TACTCCAATCTCGTTATTTTTGAGGGAATACTCCAAC-CTCAATTTTATTTCTAAAACATCGATT
65 TACTCCAACCCCGTTATTTCTGAGGGAATACTCCAACTC-CAATTTTATTTCCAAAACACCAATT
* *
3666642 TTTCACAATTAGAGATAGTCCAACCCCATG
129 TTCCACAATT-GAGATACTCCAACCCCATG
* * * *
3666672 ATTTTTGAAGGGATATTCCAACCTCGGTTTTATTTCCCAAACACCA-ATTTTTCATAATCGAGGA
1 ATTTTCGAAGGGATACTCCAACCTCGGTTTTATTTCCCAAA-ACAAGATTTTTCACAATCGAGGA
* *
3666736 TACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTT
65 TACTCCAACCCCGTTATTTCTGAGGGAATACTCCAACTCCAATTTTATTTCCAAAACACCAATTT
* * * *
3666801 TCCACAATTGGGATACTCTAACCCCGTT
130 TCCACAATTGAGATACTCCAACCCCATG
* * *
3666829 ATTTTCGAGGGGATACTCCAACCCTAGGTTTTATCT-CCAAAA
1 ATTTTCGAAGGGATACTCCAA-CCTCGGTTTTATTTCCCAAAA
3666871 TAATAAACTT
Statistics
Matches: 167, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
156 1 0.01
157 37 0.22
158 118 0.71
159 9 0.05
160 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (157 bp):
ATTTTCGAAGGGATACTCCAACCTCGGTTTTATTTCCCAAAACAAGATTTTTCACAATCGAGGAT
ACTCCAACCCCGTTATTTCTGAGGGAATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTT
CCACAATTGAGATACTCCAACCCCATG
Found at i:3666839 original size:78 final size:79
Alignment explanation
Indices: 3666512--3666870 Score: 348
Period size: 79 Copynumber: 4.5 Consensus size: 79
3666502 ATTCATGTTT
* * * * * * *** *
3666512 TTATTTTCTAAGGGATACTCCAACCCCGGTTTTATTCCCAAAATAATGATTTTTCACAATTGGGG
1 TTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGG
* *
3666577 ATACTCCAATCTCG
66 ATACTCCAACCCCG
* * * * * * *
3666591 TTATTTTTGAGGGAATACTCCAACCTCAATTTTATTTCTAAAACATCGATTTTTCACAATTAGAG
1 TTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGG
* *
3666656 ATAGTCCAACCCCA
66 ATACTCCAACCCCG
* * * * * * * *
3666670 TGATTTTTGAAGGGATATTCCAACCTCGGTTTTATTTCCCAAACACCAATTTTTCATAA-TCGAG
1 TTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATTAG-G
3666734 GATACTCCAACCCCG
65 GATACTCCAACCCCG
*
3666749 TTA-TTTCTGAGGGGATACTCCAA-CTCCGATTTTATTTCCAAAACACCAATTTTCCACAATT-G
1 TTATTTTC-GAGGGGATACTCCAACCT-CGATTTTATTTCCAAAACACCAATTTTTCACAATTAG
*
3666811 GGATACTCTAACCCCG
64 GGATACTCCAACCCCG
* * *
3666827 TTATTTTCGAGGGGATACTCCAACCCTAGGTTTTATCTCCAAAA
1 TTATTTTCGAGGGGATACTCCAA-CCTCGATTTTATTTCCAAAA
3666871 TAATAAACTT
Statistics
Matches: 228, Mismatches: 45, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
78 40 0.18
79 185 0.81
80 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGG
ATACTCCAACCCCG
Found at i:3670335 original size:22 final size:23
Alignment explanation
Indices: 3670290--3670360 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
3670280 GACCCAAAAA
*
3670290 CTAGCTTAGTTTTTTTCATTTTT
1 CTAGCTTAGTTTTCTTCATTTTT
3670313 CTAGC-TA-TTTTCTTCTATTTTT
1 CTAGCTTAGTTTTCTTC-ATTTTT
* *
3670335 CTTGCTT-TTCTTTCTCTCATTTTT
1 CTAGCTTAGT-TTTCT-TCATTTTT
3670359 CT
1 CT
3670361 TTTTTCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 7 0.17
22 12 0.29
23 7 0.17
24 13 0.32
25 2 0.05
ACGTcount: A:0.10, C:0.20, G:0.06, T:0.65
Consensus pattern (23 bp):
CTAGCTTAGTTTTCTTCATTTTT
Found at i:3670349 original size:21 final size:20
Alignment explanation
Indices: 3670299--3670349 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
3670289 ACTAGCTTAG
3670299 TTTTTTTC-ATTTTTCTAGC
1 TTTTTTTCTATTTTTCTAGC
*
3670318 TATTTTCTTCTATTTTTCTTGC
1 T-TTTT-TTCTATTTTTCTAGC
3670340 TTTTCTTTCT
1 TTTT-TTTCT
3670350 CTCATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 10 0.37
22 12 0.44
ACGTcount: A:0.08, C:0.18, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTTTCTATTTTTCTAGC
Found at i:3686080 original size:20 final size:20
Alignment explanation
Indices: 3686055--3686149 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
3686045 GCCTTGCCTG
3686055 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
* *
3686075 AATGTATCGATACAATGCT-C
1 AATGTATCGATACATTG-TAA
3686095 AATGTATCGATACATT-TAA
1 AATGTATCGATACATTGTAA
* * *
3686114 CAATGTATCAATACAATGCAA
1 -AATGTATCGATACATTGTAA
*
3686135 AATGTATCAATACAT
1 AATGTATCGATACAT
3686150 CTAGGTAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
18 1 0.02
20 59 0.94
21 3 0.05
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:3686110 original size:40 final size:40
Alignment explanation
Indices: 3686055--3686149 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
3686045 GCCTTGCCTG
* **
3686055 AATGTATCGATACATTGTAA-AATGTATCGATACAATGCTC
1 AATGTATCGATACATT-TAACAATGTATCAATACAATGCAA
3686095 AATGTATCGATACATTTAACAATGTATCAATACAATGCAA
1 AATGTATCGATACATTTAACAATGTATCAATACAATGCAA
*
3686135 AATGTATCAATACAT
1 AATGTATCGATACAT
3686150 CTAGGTAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.06
40 47 0.94
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.32
Consensus pattern (40 bp):
AATGTATCGATACATTTAACAATGTATCAATACAATGCAA
Found at i:3686182 original size:13 final size:13
Alignment explanation
Indices: 3686164--3686193 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3686154 GTAAACCCAA
*
3686164 AATGTATCGATAT
1 AATGTATCGATAC
3686177 AATGTATCGATAC
1 AATGTATCGATAC
3686190 AATG
1 AATG
3686194 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3686192 original size:62 final size:62
Alignment explanation
Indices: 3686115--3686272 Score: 255
Period size: 62 Copynumber: 2.5 Consensus size: 62
3686105 TACATTTAAC
* *
3686115 AATGTATCAATACAATGCAA-AATGTATCAATACATCTAGGTAAACCCAAAATGTATCGATAT
1 AATGTATCGATACAATG-AACAATGTATCGATACATCTAGGTAAACCCAAAATGTATCGATAT
** *
3686177 AATGTATCGATACAATGAACAATGTATCGATAGGTCTGGGTAAACCCAAAATGTATCGATAT
1 AATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAACCCAAAATGTATCGATAT
3686239 AATGTATCGATACAATGAACAATGTATCGATACA
1 AATGTATCGATACAATGAACAATGTATCGATACA
3686273 AATTGTGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
61 2 0.02
62 86 0.98
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (62 bp):
AATGTATCGATACAATGAACAATGTATCGATACATCTAGGTAAACCCAAAATGTATCGATAT
Found at i:3686206 original size:33 final size:33
Alignment explanation
Indices: 3686164--3686270 Score: 116
Period size: 33 Copynumber: 3.4 Consensus size: 33
3686154 GTAAACCCAA
3686164 AATGTATCGATATAATGTATCGATACAATGAAC
1 AATGTATCGATATAATGTATCGATACAATGAAC
* * * * **
3686197 AATGTATCG--AT-AGGTCTGGGTA-AACCCAA-
1 AATGTATCGATATAATGTATCGATACAA-TGAAC
3686226 AATGTATCGATATAATGTATCGATACAATGAAC
1 AATGTATCGATATAATGTATCGATACAATGAAC
3686259 AATGTATCGATA
1 AATGTATCGATA
3686271 CAAATTGTGA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
29 11 0.20
30 9 0.16
31 4 0.07
32 9 0.16
33 23 0.41
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (33 bp):
AATGTATCGATATAATGTATCGATACAATGAAC
Found at i:3686273 original size:13 final size:13
Alignment explanation
Indices: 3686226--3686255 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3686216 GTAAACCCAA
*
3686226 AATGTATCGATAT
1 AATGTATCGATAC
3686239 AATGTATCGATAC
1 AATGTATCGATAC
3686252 AATG
1 AATG
3686256 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3686903 original size:40 final size:41
Alignment explanation
Indices: 3686859--3686958 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
3686849 GTCCCACTTT
* * *
3686859 TTGAGGACAAAGGAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCCTGCTCC
* *
3686899 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
3686940 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
3686959 GAGTACGTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 21 0.40
41 25 0.48
42 6 0.12
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:3687039 original size:42 final size:43
Alignment explanation
Indices: 3686978--3687072 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 43
3686968 CTGCTTTTCG
*
3686978 AGGACAAAGGAAAAAAGGAAAACAAAATGCGTCTTGCTCTTTA
1 AGGACAAAAGAAAAAAGGAAAACAAAATGCGTCTTGCTCTTTA
* * * *
3687021 AGGACAAAAG-AAAGAGGAAAATAAAGTGCGTCTTGCTCTTTG
1 AGGACAAAAGAAAAAAGGAAAACAAAATGCGTCTTGCTCTTTA
3687063 AGGACAAAAG
1 AGGACAAAAG
3687073 GGAAAAGAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 38 0.81
43 9 0.19
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (43 bp):
AGGACAAAAGAAAAAAGGAAAACAAAATGCGTCTTGCTCTTTA
Found at i:3687315 original size:56 final size:56
Alignment explanation
Indices: 3687125--3687413 Score: 377
Period size: 56 Copynumber: 5.1 Consensus size: 56
3687115 AGGATAAAAG
* * **
3687125 GAAATGGCGTTCTGCTCTTTGAGGACTA-AAAAGTACCACCAACTCATGTGGGCTTT
1 GAAA-GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
3687181 GAAAGGCGTCCTGCTCTTTGAGAACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
*
3687236 AAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 -----G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
3687298 GAAAGGCGTCCTGCTCTTTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
3687354 AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAATCTTGTGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAA-CTTGTGTGGGCTTT
3687410 GAAA
1 GAAA
3687414 AGAAAAGGCA
Statistics
Matches: 205, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
55 52 0.25
56 100 0.49
57 1 0.00
60 1 0.00
61 28 0.14
62 23 0.11
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (56 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:3687358 original size:117 final size:116
Alignment explanation
Indices: 3687119--3687413 Score: 408
Period size: 117 Copynumber: 2.6 Consensus size: 116
3687109 GGACAAAGGA
* * * **
3687119 TAAAAGGAAATGGCGTTCTGCTCTTTGAGGACTA-AAAAGTACCACCAACTCATGTGGGCTTTGA
1 TAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGA
**
3687183 AAGGCGTCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTT
65 AAGGCGTCCTGCTCTTTGAGAACTAAAAAATGCCACCAACTTGTGTGGGCTT
*
3687235 TAAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGA
1 T-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGA
3687300 AAGGCGTCCTGCTCTTTGA-AGACTAAAAAAATGCCACCAACTTGTGTGGGCTT
65 AAGGCGTCCTGCTCTTTGAGA-ACT-AAAAAATGCCACCAACTTGTGTGGGCTT
*
3687353 T-----AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAATCTTGTGTGGGCTTTGA
1 TAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAA-CTTGTGTGGGCTTTGA
3687412 AA
65 AA
3687414 AGAAAAGGCA
Statistics
Matches: 164, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
111 14 0.09
112 43 0.26
116 27 0.16
117 53 0.32
118 27 0.16
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (116 bp):
TAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAA
AGGCGTCCTGCTCTTTGAGAACTAAAAAATGCCACCAACTTGTGTGGGCTT
Found at i:3687533 original size:100 final size:101
Alignment explanation
Indices: 3687359--3687546 Score: 238
Period size: 100 Copynumber: 1.9 Consensus size: 101
3687349 GCTTTAAAAG
* * * * *
3687359 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAATCTTGTGTGGGCTTTGAAAAGAAAAGGCA
1 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAAACTTGTATGGGCTTTCAAAAGAAAAGACA
* *
3687424 TCCCGCTCTTTGAGGATTAAAGGGTGAAAGGAGAGA
66 TCCCGCTCTTTGAGAACTAAAGGGTGAAAGGAGAGA
* *
3687460 GCGTCCTGCTTTTTGAAGACTCGAAA-GTGCCA-TAAACTTGTATGGGC-TTCAAAAGGAAAAGA
1 GCGTCCTGCTCTTTGAAGACT-GAAAGGTGCCACCAAACTTGTATGGGCTTTCAAAA-GAAAAGA
* *
3687522 CGTCCTGCTCTTTGAGAACTAAAGG
64 CATCCCGCTCTTTGAGAACTAAAGG
3687547 TGCCACCAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
99 6 0.08
100 39 0.53
101 25 0.34
102 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (101 bp):
GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAAACTTGTATGGGCTTTCAAAAGAAAAGACA
TCCCGCTCTTTGAGAACTAAAGGGTGAAAGGAGAGA
Found at i:3687669 original size:122 final size:123
Alignment explanation
Indices: 3687460--3687855 Score: 463
Period size: 122 Copynumber: 3.2 Consensus size: 123
3687450 AAAGGAGAGA
* * * * ** * ** * *
3687460 GCGTCCTGCTTTTTGAAGACTCGAAAGTGCCATAAACTTGTATGGGCTTCAAAAGGAAAAGACGT
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGCGGGCTTTAAAAGGAAAAGGCGT
* *
3687525 CCTGCTCTTTGAGAACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAACAAAAAG
66 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * * * * * * *
3687582 GGGTCCTACTTTTTGAGGATTGGAGGGTGTCACCAACTCGTGCGGGCTTT-GAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGCGGGCTTTAAAAGGAAAAGGCGT
* *
3687646 CCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAA
66 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * * * * * * *
3687704 ACGTCTTGCTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGCGGGCTTT-AAAAGGAAAAGGCG
* *
3687769 TCTTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATG
65 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
3687829 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGGAAGG
3687856 GCTAAAAGAG
Statistics
Matches: 225, Mismatches: 45, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
121 27 0.12
122 111 0.49
124 27 0.12
125 60 0.27
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (123 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGCGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
Found at i:3687727 original size:62 final size:62
Alignment explanation
Indices: 3687460--3687855 Score: 458
Period size: 62 Copynumber: 6.4 Consensus size: 62
3687450 AAAGGAGAGA
* * * * ** * * *
3687460 GCGTCCTGCTTTTTGAAGACTCGAAAGTGCCATAAACTTGTATGGGC-TTCAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * *
3687521 ACGTCCTGCTCTTTGAGAACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAACAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * * * * * * * * * * *
3687582 GGGTCCTACTTTTTGAGGATTGGAGGGTGTCACCAACTCGTGCGGGCTTT--GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* *
3687642 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAA
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * *
3687704 ACGTCTTGCTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * *
3687766 GCATCTTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATG
1 GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
*
3687829 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTAGAAGG
3687856 GCTAAAAGAG
Statistics
Matches: 279, Mismatches: 51, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
60 68 0.24
61 43 0.15
62 110 0.39
63 58 0.21
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
Found at i:3687955 original size:16 final size:16
Alignment explanation
Indices: 3687934--3687971 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
3687924 TGATTGGTGC
3687934 GATGATGACATGGGGT
1 GATGATGACATGGGGT
3687950 GATGATGACATGGGGT
1 GATGATGACATGGGGT
3687966 GATGAT
1 GATGAT
3687972 ATGAATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.42, T:0.26
Consensus pattern (16 bp):
GATGATGACATGGGGT
Found at i:3692043 original size:13 final size:13
Alignment explanation
Indices: 3692025--3692049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3692015 CATAAAGTGT
3692025 TGTATCGATACAA
1 TGTATCGATACAA
3692038 TGTATCGATACA
1 TGTATCGATACA
3692050 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3692065 original size:32 final size:33
Alignment explanation
Indices: 3692005--3692073 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
3691995 TTCAACGATT
3692005 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
3692038 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3692070 TGTA
1 TGTA
3692074 AGCTACTACT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3692145 original size:52 final size:50
Alignment explanation
Indices: 3692089--3692240 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 50
3692079 CTACTAAAAA
*
3692089 ATGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
3692141 ATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
3692193 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGC
1 ATGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTTGC
3692241 ATATTTCGGG
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
51 2 0.02
52 91 0.98
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:3693120 original size:21 final size:21
Alignment explanation
Indices: 3693094--3693143 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
3693084 CCCATGATTG
3693094 ATGCATTTTGAGCTATCTTTC
1 ATGCATTTTGAGCTATCTTTC
*
3693115 ATGCATTTTGAGCTATGTTTC
1 ATGCATTTTGAGCTATCTTTC
3693136 ATGCATTT
1 ATGCATTT
3693144 ACAGCATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (21 bp):
ATGCATTTTGAGCTATCTTTC
Found at i:3700162 original size:33 final size:33
Alignment explanation
Indices: 3700116--3700185 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
3700106 TACATTGTAA
* *
3700116 AATGTTTCGATACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
3700149 AATGTATCAATACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
3700182 AATG
1 AATG
3700186 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCAATACAATGAGCAATGTATCGATAC
Found at i:3700162 original size:53 final size:53
Alignment explanation
Indices: 3700096--3700202 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
3700086 AAAATGCCTG
* * * *
3700096 AATGTATCGATACATTGTA-AAATGTTTCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCAATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAC
*
3700149 AATGTATCAATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCAATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
3700202 A
1 A
3700203 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (53 bp):
AATGTATCAATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:3700184 original size:13 final size:13
Alignment explanation
Indices: 3700135--3700165 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3700125 ATACAATGAG
*
3700135 CAATGTATCGATA
1 CAATGTATCAATA
3700148 CAATGTATCAATA
1 CAATGTATCAATA
3700161 CAATG
1 CAATG
3700166 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:3700192 original size:20 final size:19
Alignment explanation
Indices: 3700096--3700202 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 19
3700086 AAAATGCCTG
*
3700096 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
3700116 AATGTTTCGATACAATGAGC
1 AATGTATCGATACAATGA-A
3700136 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
* *
3700149 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGA-A
3700169 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
3700189 AATGTATCGATACA
1 AATGTATCGATACA
3700203 TCTGGGTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 12 0.17
19 1 0.01
20 57 0.80
21 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:3700240 original size:13 final size:13
Alignment explanation
Indices: 3700222--3700247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3700212 ACCCAGAATA
3700222 TATCGATACAATG
1 TATCGATACAATG
3700235 TATCGATACAATG
1 TATCGATACAATG
3700248 AACAATGTAT
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):
TATCGATACAATG
Found at i:3701738 original size:19 final size:19
Alignment explanation
Indices: 3701714--3701768 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
3701704 AATTCAACAA
3701714 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3701733 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3701752 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3701769 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3701826 original size:13 final size:13
Alignment explanation
Indices: 3701808--3701833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3701798 CATTTTTCTG
3701808 TGTATCGATACAT
1 TGTATCGATACAT
3701821 TGTATCGATACAT
1 TGTATCGATACAT
3701834 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3701830 original size:33 final size:33
Alignment explanation
Indices: 3701788--3701854 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3701778 GCCAAGGAAA
***
3701788 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3701821 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3701854 T
1 T
3701855 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3701896 original size:20 final size:20
Alignment explanation
Indices: 3701871--3701956 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
3701861 TTTTACCCAG
3701871 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
3701891 ATGTATCGATACATTTGGAAATTTTACCTA
1 ATGTATCGATAC--------ATTTTA-C-A
3701921 GATGTATCGATACATTTTACA
1 -ATGTATCGATACATTTTACA
3701942 ATGTATCGATACATT
1 ATGTATCGATACATT
3701957 CAGGCATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
20 27 0.49
21 1 0.02
22 1 0.02
23 6 0.11
28 6 0.11
29 1 0.02
30 1 0.02
31 12 0.22
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:3701966 original size:51 final size:51
Alignment explanation
Indices: 3701841--3701956 Score: 223
Period size: 51 Copynumber: 2.3 Consensus size: 51
3701831 CATGGATCTT
3701841 TGTATCGATACATTTGGAAATTTTACCCAGATGTATCGATACATTTTACAA
1 TGTATCGATACATTTGGAAATTTTACCCAGATGTATCGATACATTTTACAA
*
3701892 TGTATCGATACATTTGGAAATTTTACCTAGATGTATCGATACATTTTACAA
1 TGTATCGATACATTTGGAAATTTTACCCAGATGTATCGATACATTTTACAA
3701943 TGTATCGATACATT
1 TGTATCGATACATT
3701957 CAGGCATTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (51 bp):
TGTATCGATACATTTGGAAATTTTACCCAGATGTATCGATACATTTTACAA
Found at i:3704359 original size:52 final size:50
Alignment explanation
Indices: 3704237--3704360 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 50
3704227 CTCAATTCTC
* * *
3704237 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
* * *
3704287 CTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAA-TTTT
*
3704340 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
3704361 CTCGTTATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.02
51 31 0.49
52 26 0.41
53 5 0.08
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
Found at i:3704372 original size:31 final size:28
Alignment explanation
Indices: 3704344--3704420 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
3704334 ATTTTTCACA
*
3704344 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
3704372 ATCGAGGATACTCCAACCCCGTTA-CTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
3704399 -CCGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
3704421 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 2 0.05
28 39 0.89
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:3713726 original size:17 final size:17
Alignment explanation
Indices: 3713704--3713737 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3713694 GCAAATGAGC
3713704 ATGTCCCAAACCTTGGT
1 ATGTCCCAAACCTTGGT
*
3713721 ATGTCCTAAACCTTGGT
1 ATGTCCCAAACCTTGGT
3713738 GACACCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (17 bp):
ATGTCCCAAACCTTGGT
Found at i:3716113 original size:140 final size:141
Alignment explanation
Indices: 3715812--3716364 Score: 693
Period size: 141 Copynumber: 3.9 Consensus size: 141
3715802 TGAAAATCTC
**
3715812 ATTTCGTATGTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
* * *
3715877 AAAACCATAGGAATATTAGAAATCTTAAAAAATAATAATAATAATAATTTTTATTTAATTTTTAA
66 AAAACCATAAGAATATTAGAAATCTTGAAAAAT--TAA-GATAATAATTTTTATTTAATTTTTAA
*
3715942 TTTTTAATTTTTGAAAGATTC
128 -TTTTAA------AAAGATTT
* ** * *
3715963 ATTTCATACCTTAATAAAGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTATACCCC-ATGG
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
*
3716027 AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAGTTTTTAATTT
66 AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
3716092 CT-AAAAGATTT
131 -TAAAAAGATTT
** ** * *
3716103 ATTTCGTACCTTAATGGAGTAA-CGAAAAGGCAGGAAAAGTTTTGAAGATTCCTATACCCCTACG
1 ATTTCGTACCTTAATGGAG-AACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATG
* * * *
3716167 AAAAACCATATGAATATTA-AAAGTTTTGAAAAATTAAGATAATAATTATTATTTAATTTTTAAT
65 GAAAACCATAAGAATATTAGAAA-TCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAAT
*
3716231 TTTCAAAAGATTT
129 TTTAAAAAGATTT
* * * *
3716244 ATTTCGTACCTTAATGGAGAATCGAAAAGATATAAAAAATTTTGAAGATTTCTATACCCCTA-CG
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
*
3716308 AAAACCCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAAT
66 AAAA-CCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAAT
3716365 CTTAAAATAT
Statistics
Matches: 358, Mismatches: 36, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
140 66 0.18
141 169 0.47
142 3 0.01
146 4 0.01
147 25 0.07
148 3 0.01
150 35 0.10
151 53 0.15
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.35
Consensus pattern (141 bp):
ATTTCGTACCTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
TAAAAAGATTT
Found at i:3716231 original size:141 final size:140
Alignment explanation
Indices: 3715812--3716481 Score: 691
Period size: 141 Copynumber: 4.6 Consensus size: 140
3715802 TGAAAATCTC
** * * *
3715812 ATTTCGTATGTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGA
* * * *
3715877 AAAACCATAGGAATATTAGAAATCTTAAAAAATAATAATAATAATAATTTTTATTTAATTTTTAA
66 AAAACCATAAGAATATTAGAAATTTTGAAAAAT--TAA-GATAATAATTTTTATTTAATTTTTAA
*
3715942 TTTTTAATTTTTGAAAGATTC
128 -TTTT-A------AAAGATTT
* ** * * *
3715963 ATTTCATACCTTAATAAAGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTATACCCC-ATGG
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGA
* *
3716027 AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAGTTTTTAATTT
66 AAAACCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
3716092 CTAAAAGATTT
131 -TAAAAGATTT
** * *
3716103 ATTTCGTACCTTAATGGAGTAA-CGAAAAGGCAGGAAAAGTTTTGAAGATTCCTATACCCCTACG
1 ATTTCGTACCTTAATGGAG-AACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACG
* *
3716167 AAAAACCATATGAATATTA-AAAGTTTTGAAAAATTAAGATAATAATTATTATTTAATTTTTAAT
65 AAAAACCATAAGAATATTAGAAA-TTTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAAT
3716231 TTTCAAAAGATTT
129 TTT-AAAAGATTT
* ** *
3716244 ATTTCGTACCTTAATGGAGAATCGAAAAGATATAAAAAATTTTGAAGATTTCTATACCCCTACGA
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGA
*
3716309 AAACCCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAATCTTAAAATA
66 AAAACCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAA---TT-TTT-AT-TT--AAT-
* *
3716374 TTTTAACTTTCGAAAA-ATTC
122 TTTTAA-TTT-TAAAAGATTT
* * ** * ** * *
3716394 ATTTCATACTTTAATGGAGAACTAAAAAGATACGAGAAGTTTTGAAGATTTCTGCACCCTTACAA
1 ATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGA
* * *
3716459 AAAATCATAGGGATATTAGAAAT
66 AAAACCATAAGAATATTAGAAAT
3716482 CTAGGAAATT
Statistics
Matches: 447, Mismatches: 54, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
140 62 0.14
141 164 0.37
142 3 0.01
144 2 0.00
145 2 0.00
146 6 0.01
147 27 0.06
148 3 0.01
149 3 0.01
150 115 0.26
151 60 0.13
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (140 bp):
ATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGA
AAAACCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
TAAAAGATTT
Found at i:3716410 original size:291 final size:287
Alignment explanation
Indices: 3715822--3716483 Score: 723
Period size: 291 Copynumber: 2.3 Consensus size: 287
3715812 ATTTCGTATG
** * * * * *
3715822 TTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGGAAAACCATAG
1 TTAATGGAGAACTAAAAAGACACGAAAAGTTTTGAAGATTCCTATACCCCTACGAAAAACCATAG
3715887 GAATATTAGAAATCTTAAAAAATAATAATAATAATAATTTTTATTTAATTTTTAATTTTTAATTT
66 GAATATTAGAAATCTTAAAAAAT-ATAATAATAATAA--TTTATTTAA-TTTTAATTTTTAATTT
** * *
3715952 TTGAAAGATTCATTTCATACCTTAATAAAGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTA
127 TCAAAAGATTCATTTCATACCTTAATAAAGAACCGAAAAGATACAAAAAATTTTGAAAATTTCTA
* *
3716017 TACCCCATGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAG
192 TACCCCATCGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA
* * *
3716082 TTTTTAATTTCTAAAAGATTTATTTCGTACC
257 TTTTTAATTTCGAAAAGATTCATTTCATACC
* * *
3716113 TTAATGGAGTAAC-GAAAAGGCAGGAAAAGTTTTGAAGATTCCTATACCCCTACGAAAAACCATA
1 TTAATGGAG-AACTAAAAAGACACGAAAAGTTTTGAAGATTCCTATACCCCTACGAAAAACCATA
* * * *
3716177 TGAATATTA-AAAGTTTTGAAAAAT-TAA-GATAATAA-TTA-TT-A-TTTAATTTTTAATTTTC
65 GGAATATTAGAAA-TCTTAAAAAATATAATAATAATAATTTATTTAATTTTAATTTTTAATTTTC
* * ** * * *
3716235 AAAAGATTTATTTCGTACCTTAATGGAGAATCGAAAAGATATAAAAAATTTTGAAGATTTCTATA
129 AAAAGATTCATTTCATACCTTAATAAAGAACCGAAAAGATACAAAAAATTTTGAAAATTTCTATA
*
3716300 CCCC-TACGAAAACCCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAA
194 CCCCAT-CGAAAA-CCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAA---TT-TTT-A
*
3716364 TCTTAAAATATTTTAACTTTCGAAAA-ATTCATTTCATACT
252 T-TT--AAT-TTTTAA-TTTCGAAAAGATTCATTTCATACC
* * * ** * * *
3716404 TTAATGGAGAACTAAAAAGATACGAGAAGTTTTGAAGATTTCTGCACCCTTACAAAAAATCATAG
1 TTAATGGAGAACTAAAAAGACACGAAAAGTTTTGAAGATTCCTATACCCCTACGAAAAACCATAG
*
3716469 GGATATTAGAAATCT
66 GAATATTAGAAATCT
3716484 AGGAAATTAT
Statistics
Matches: 312, Mismatches: 43, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
280 1 0.00
281 80 0.26
282 39 0.12
283 1 0.00
284 2 0.01
285 5 0.02
286 3 0.01
287 2 0.01
288 9 0.03
289 3 0.01
290 8 0.03
291 145 0.46
292 14 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (287 bp):
TTAATGGAGAACTAAAAAGACACGAAAAGTTTTGAAGATTCCTATACCCCTACGAAAAACCATAG
GAATATTAGAAATCTTAAAAAATATAATAATAATAATTTATTTAATTTTAATTTTTAATTTTCAA
AAGATTCATTTCATACCTTAATAAAGAACCGAAAAGATACAAAAAATTTTGAAAATTTCTATACC
CCATCGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTT
TAATTTCGAAAAGATTCATTTCATACC
Found at i:3716562 original size:19 final size:17
Alignment explanation
Indices: 3716523--3716563 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
3716513 GATAAAAGAA
3716523 ATTTTATTTATTATTTT
1 ATTTTATTTATTATTTT
*
3716540 ATTTTATATTATTTTTTT
1 ATTTTAT-TTATTATTTT
3716558 CATTTT
1 -ATTTT
3716564 CAAAAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 9 0.43
19 5 0.24
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTATTTATTATTTT
Found at i:3718894 original size:198 final size:197
Alignment explanation
Indices: 3718569--3718976 Score: 699
Period size: 198 Copynumber: 2.1 Consensus size: 197
3718559 TACTTTTCAT
*
3718569 AATGTATCGATACATGTATTTGAAATTTATAGCCGTTGGGCACAATGTATCGATACTTTTCACTA
1 AATGTATCGATACATGTATTTGAAATTTATAGCCGTTAGGCACAATGTATCGATACTTTTCACTA
* * * *
3718634 TGTATCGATACAATGTACCATGTATCGATACAAACAATGGTAGAATAGCTACTGCTAGTTTCATG
66 TGTATAGATACAATGTACCATGTATCAATACAAACAATGGTAGAATAGCTACTACCAGTTTCATG
* *
3718699 TATCGATATAATTTGCTATGTATCGATACCAAGATCATGTATCGATACACTATATCGATACAAAG
131 TATCGATACAA-TTCCTATGTATCGATACCAAGATCATGTATCGATACACTATATCGATACAAAG
3718764 CAA
195 CAA
3718767 AATGTATCGATACATGTATTTGAAATTTATAGCCGTTAGGCACAATGTATCGATACTTTTCACTA
1 AATGTATCGATACATGTATTTGAAATTTATAGCCGTTAGGCACAATGTATCGATACTTTTCACTA
* * **
3718832 TGTATAGATATAATGTACCATGTATCAATACAAACAGTGGTAGGGTAGCTACTACCAGTTTCATG
66 TGTATAGATACAATGTACCATGTATCAATACAAACAATGGTAGAATAGCTACTACCAGTTTCATG
3718897 TATCGATACAATTCCTATGTATCGATACCAAGATCATGTATCGATACACTATATCGATACAAAGC
131 TATCGATACAATTCCTATGTATCGATACCAAGATCATGTATCGATACACTATATCGATACAAAGC
3718962 AA
196 AA
*
3718964 TATGTATCGATAC
1 AATGTATCGATAC
3718977 TTCTGGGTTG
Statistics
Matches: 198, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
197 67 0.34
198 131 0.66
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (197 bp):
AATGTATCGATACATGTATTTGAAATTTATAGCCGTTAGGCACAATGTATCGATACTTTTCACTA
TGTATAGATACAATGTACCATGTATCAATACAAACAATGGTAGAATAGCTACTACCAGTTTCATG
TATCGATACAATTCCTATGTATCGATACCAAGATCATGTATCGATACACTATATCGATACAAAGC
AA
Found at i:3718935 original size:19 final size:18
Alignment explanation
Indices: 3718892--3718943 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
3718882 ACTACCAGTT
*
3718892 TCATGTATCGATA-CAAT
1 TCATGTATCGATACCAAA
3718909 TCCTATGTATCGATACCAAGA
1 T-C-ATGTATCGATACCAA-A
3718930 TCATGTATCGATAC
1 TCATGTATCGATAC
3718944 ACTATATCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 23 0.77
20 4 0.13
21 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (18 bp):
TCATGTATCGATACCAAA
Found at i:3719623 original size:20 final size:20
Alignment explanation
Indices: 3719586--3719639 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
3719576 TTCTATAATT
*
3719586 TGTATCGATACAATAAGTGAC
1 TGTATCGATAC-ATAAGTGAA
3719607 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
3719627 TGTATCGATACAT
1 TGTATCGATACAT
3719640 GTCTGAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:3719651 original size:21 final size:20
Alignment explanation
Indices: 3719586--3719659 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
3719576 TTCTATAATT
* *
3719586 TGTATCGATACAATAAGTGAC
1 TGTATCGATAC-ATAACTGAA
*
3719607 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAACTGAA
**
3719627 TGTATCGATACATGTCTGAAA
1 TGTATCGATACATAACTG-AA
*
3719648 TGTATCAATACA
1 TGTATCGATACA
3719660 GGACCATGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 23 0.49
21 24 0.51
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAACTGAA
Found at i:3725335 original size:25 final size:25
Alignment explanation
Indices: 3725301--3725386 Score: 100
Period size: 25 Copynumber: 3.2 Consensus size: 25
3725291 ATACATTCTG
3725301 TTTTTTACCTAGATGTATCGATACA
1 TTTTTTACCTAGATGTATCGATACA
*
3725326 TTTTTTACCTAGATGTATTGATACATTCTA
1 TTTTTTACCTAGATGTATCGAT--A--C-A
*
3725356 TTTTTTTACCTAGATGTATCCATACA
1 -TTTTTTACCTAGATGTATCGATACA
3725382 TTTTT
1 TTTTT
3725387 CAATGTATCG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
25 26 0.50
26 1 0.02
27 2 0.04
29 2 0.04
30 1 0.02
31 20 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (25 bp):
TTTTTTACCTAGATGTATCGATACA
Found at i:3725363 original size:31 final size:30
Alignment explanation
Indices: 3725283--3725383 Score: 122
Period size: 31 Copynumber: 3.5 Consensus size: 30
3725273 TGAACAGTAC
* *
3725283 ATGTATTGATACATTCTGTTTTTTACCTAG
1 ATGTATCGATACATTCTATTTTTTACCTAG
3725313 ATGTATCGAT--A--C-ATTTTTTACCTAG
1 ATGTATCGATACATTCTATTTTTTACCTAG
*
3725338 ATGTATTGATACATTCTATTTTTTTACCTAG
1 ATGTATCGATACATTCTA-TTTTTTACCTAG
*
3725369 ATGTATCCATACATT
1 ATGTATCGATACATT
3725384 TTTCAATGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
25 21 0.35
26 1 0.02
27 1 0.02
28 1 0.02
29 1 0.02
30 10 0.17
31 25 0.42
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.48
Consensus pattern (30 bp):
ATGTATCGATACATTCTATTTTTTACCTAG
Found at i:3729780 original size:21 final size:20
Alignment explanation
Indices: 3729747--3729787 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
3729737 GAGATGTTGG
3729747 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
*
3729767 ACATAGCTTAAAATGCATGAA
1 ACATA-CTAAAAATGCATGAA
3729788 CATGGGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:3732111 original size:156 final size:153
Alignment explanation
Indices: 3731811--3732660 Score: 633
Period size: 156 Copynumber: 5.6 Consensus size: 153
3731801 TAGTTTTAAA
* * * * * * *
3731811 AAAAATTACGAAAATG-CCCTTAGGGGATACCCTCGACAT-AGAACTA--CTCGATAGCCGTAAA
1 AAAAATTACAAAAATGCCCCTAAGGGAATACCTTCGACATGA-AAGTATCCT-GATAACCCTAAA
* * * *
3731872 GGACATAAAAAGGATTATAGAAGGGATGAACCTATCCTAAATACACACCTTTGGCATAAAAGCGG
64 GGACTTAAAAAGGACTATA-AAAGGATGAACCTATCCTAAATAC-CACCTTTGGCATAAAAGCAG
* *
3731937 ACCTAATGATAACCTAGGACTCGATTTT
127 ACC-AGTGACAACCTAGGACTCGATTTT
* * * * * *
3731965 GAAAAATTACGAAAATG-ACCTAAGGGGATACCTTCGACGTGAAAGGATCCTGGT-ACTCCTAAA
1 -AAAAATTACAAAAATGCCCCTAAGGGAATACCTTCGACATGAAAGTATCCTGATAAC-CCTAAA
* * * * *
3732028 GGACTTAAAAAGAACTATAAAAGGAATGAACATATCCTAAATAACCATCTTCGGCATAAAAGCAA
64 GGACTTAAAAAGGACTATAAAAGG-ATGAACCTATCCTAAAT-ACCACCTTTGGCATAAAAGCAG
* * * *
3732093 ACCAGGTGACAACGTAGGACTCGGGTCTA
127 ACCA-GTGACAACCTAGGACTC-GATTTT
* * *
3732122 AAAAATTACAAAAATGCCCCTATGGGTATACCTTCGACATTAAAGTATCAC--ACTAACCCTAAA
1 AAAAATTACAAAAATGCCCCTAAGGGAATACCTTCGACATGAAAGTATC-CTGA-TAACCCTAAA
* * * * *
3732185 GGAATT-AAAAGGACTATAAAATGGGTGAACCTATCCTAAGTGCCCACCTTTGGCATAAAAGTAG
64 GGACTTAAAAAGGACTATAAAA-GGATGAACCTATCCTAAAT-ACCACCTTTGGCATAAAAGCAG
* * *
3732249 ACCCGCGACAACCTAGGACTTGATTTT
127 ACCAGTGACAACCTAGGACTCGATTTT
*
3732276 AGGAAATTACAAAAATGCCCCTAA-GGAATACCTTCGACATGAAAGTATCCTGATAACCCTAAAG
1 A-AAAATTACAAAAATGCCCCTAAGGGAATACCTTCGACATGAAAGTATCCTGATAACCCTAAAG
* * * * * *
3732340 GAC-T-------A-TA-AAATGGGTGAACCCATGCTAAATGCCCACCTTCGGCATAAAAGCAGAC
65 GACTTAAAAAGGACTATAAAAGGATGAACCTATCCTAAAT-ACCACCTTTGGCATAAAAGCAGAC
* * *
3732395 TCAGGTGAGAACCTAGGACTCGGTTCT
129 -CA-GTGACAACCTAGGACTCGATTTT
* * * *
3732422 AGGAAATTACAAAAATG-CCC--AGAGG-ATACCTTCGTCATGAAAGTATCCCGATACCCCTAAA
1 A-AAAATTACAAAAATGCCCCTAAG-GGAATACCTTCGACATGAAAGTATCCTGATAACCCTAAA
* * * * *
3732483 GGACTTAAAAA-AACTCATAAAAGGGATGGACCTATCTTAAATGCCCACCTTCT-GCATAAAAGT
64 GGACTTAAAAAGGACT-ATAAAA-GGATGAACCTATCCTAAAT-ACCACCTT-TGGCATAAAAGC
* * * * *
3732546 AGACCCGGTAACAACCTAAGACTCGGTTCT
125 AGA-CCAGTGACAACCTAGGACTCGATTTT
* * * *
3732576 AAGAAATGACAAAAATGCCCCT-A-GGAGATACCTTTGACATGAAAGTATCTTGATAACACTAAA
1 AA-AAATTACAAAAATGCCCCTAAGGGA-ATACCTTCGACATGAAAGTATCCTGATAACCCTAAA
*
3732639 AGACTTAAAAA-GACTATAAAAG
64 GGACTTAAAAAGGACTATAAAAG
3732661 TAGTAGACCC
Statistics
Matches: 565, Mismatches: 92, Indels: 77
0.77 0.13 0.10
Matches are distributed among these distances:
143 1 0.00
144 76 0.13
145 10 0.02
146 37 0.07
147 1 0.00
151 1 0.00
152 1 0.00
153 3 0.01
154 80 0.14
155 124 0.22
156 181 0.32
157 47 0.08
158 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (153 bp):
AAAAATTACAAAAATGCCCCTAAGGGAATACCTTCGACATGAAAGTATCCTGATAACCCTAAAGG
ACTTAAAAAGGACTATAAAAGGATGAACCTATCCTAAATACCACCTTTGGCATAAAAGCAGACCA
GTGACAACCTAGGACTCGATTTT
Found at i:3732452 original size:144 final size:143
Alignment explanation
Indices: 3732192--3732648 Score: 492
Period size: 144 Copynumber: 3.1 Consensus size: 143
3732182 AAAGGAATTA
* * * *
3732192 AAAGGACTATAAAATGGGTGAACCTATCCTAAGTGCCCACCTTTGGCATAAAAGTAGACCCGCGA
1 AAAGGACTATAAAATGGGTGAACCTAT-CTAAATGCCCACCTTCGGCATAAAAGTAGACCGGTGA
* * *
3732257 CAACCTAGGACTTGATTTTAGGAAATTACAAAAATGCCCCTA-AGGAATACCTTCGACATGAAAG
65 CAACCTAGGACTCGGTTCTAGGAAATTACAAAAATGCCCCTAGAGG-ATACCTTCGACATGAAAG
3732321 TATCCTGATAACCCT
129 TATCCTGATAACCCT
* *
3732336 AAAGGACTATAAAATGGGTGAACCCATGCTAAATGCCCACCTTCGGCATAAAAGCAGACTCAGGT
1 AAAGGACTATAAAATGGGTGAACCTAT-CTAAATGCCCACCTTCGGCATAAAAGTAGAC-C-GGT
* *
3732401 GAGAACCTAGGACTCGGTTCTAGGAAATTACAAAAATG-CCC-AGAGGATACCTTCGTCATGAAA
63 GACAACCTAGGACTCGGTTCTAGGAAATTACAAAAATGCCCCTAGAGGATACCTTCGACATGAAA
* *
3732464 GTATCCCGATACCCCT
128 GTATCCTGATAACCCT
* * *
3732480 AAAGGACTTAAAAAAACTCATAAAAGGGATGGACCTATCTTAAATGCCCACCTTCTGCATAAAAG
1 AAAGGAC-T------A-T-A-AAATGGG-TGAACCTATC-TAAATGCCCACCTTCGGCATAAAAG
* * * *
3732545 TAGACCCGGTAACAACCTAAGACTCGGTTCTAAGAAATGACAAAAATGCCCCTAG-GAGATACCT
54 TAGA-CCGGTGACAACCTAGGACTCGGTTCTAGGAAATTACAAAAATGCCCCTAGAG-GATACCT
* * *
3732609 TTGACATGAAAGTATCTTGATAACACT
117 TCGACATGAAAGTATCCTGATAACCCT
*
3732636 AAAAGACT-TAAAA
1 AAAGGACTATAAAA
3732649 AGACTATAAA
Statistics
Matches: 263, Mismatches: 31, Indels: 37
0.79 0.09 0.11
Matches are distributed among these distances:
144 92 0.35
145 11 0.04
146 36 0.14
147 1 0.00
151 1 0.00
152 1 0.00
153 1 0.00
154 43 0.16
155 40 0.15
156 37 0.14
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (143 bp):
AAAGGACTATAAAATGGGTGAACCTATCTAAATGCCCACCTTCGGCATAAAAGTAGACCGGTGAC
AACCTAGGACTCGGTTCTAGGAAATTACAAAAATGCCCCTAGAGGATACCTTCGACATGAAAGTA
TCCTGATAACCCT
Found at i:3732590 original size:300 final size:299
Alignment explanation
Indices: 3732076--3732648 Score: 759
Period size: 300 Copynumber: 1.9 Consensus size: 299
3732066 AAATAACCAT
*
3732076 CTTCGGCATAAAAGCAAACCAGGTGACAACGTAGGACTCGGGTCTAAAAAATTACAAAAATGCCC
1 CTTCGGCATAAAAGCAAACCAGGTGACAACCTAGGACTCGGGTCTAAAAAATTACAAAAATGCCC
* **
3732141 CTATGGGTATACCTTCGACATTAAAGTATCACACTAACCCTAAAGGAATTAAAAGGACTATAAAA
66 CTATGGGTATACCTTCGACATGAAAGTATCACACTAACCCTAAAGGAATTAAAAAAACTATAAAA
* * *
3732206 TGGGTGAACCTATCCTAAGTGCCCACCTTTGGCATAAAAGTAGACCCGCGACAACCTAGGACTTG
131 TGGGTGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTAGACCCGCGACAACCTAAGACTCG
* * * *
3732271 ATTTTAGGAAATTACAAAAATGCCCCTAAGGA-ATACCTTCGACATGAAAGTATCCTGATAACCC
196 ATTCTAAGAAATGACAAAAATGCCCCT-AGGAGATACCTTCGACATGAAAGTATCCTGATAACAC
*
3732335 TAAAGGACTATAAAATGGGTGAACCCATGCTAAATGCCCAC
260 TAAAAGACT-TAAAATGGGTGAACCCATGCTAAATGCCCAC
* * * **
3732376 CTTCGGCATAAAAGCAGACTCAGGTGAGAACCTAGGACTCGGTTCTAGGAAATTACAAAAATG-C
1 CTTCGGCATAAAAGCAAAC-CAGGTGACAACCTAGGACTCGGGTCTAAAAAATTACAAAAATGCC
* * * *
3732440 CC-A-GAGG-ATACCTTCGTCATGAAAGTATCCCGA-TACCCCTAAAGGACTTAAAAAAACTCAT
65 CCTATG-GGTATACCTTCGACATGAAAGTATCAC-ACTAACCCTAAAGGAATTAAAAAAACT-AT
* *
3732501 AAAA-GGGATGGACCTATCTTAAATGCCCACCTTCT-GCATAAAAGTAGACCCG-GTAACAACCT
127 AAAATGGG-TGAACCTATCCTAAATGCCCACCTT-TGGCATAAAAGTAGACCCGCG--ACAACCT
* * *
3732563 AAGACTCGGTTCTAAGAAATGACAAAAATGCCCCTAGGAGATACCTTTGACATGAAAGTATCTTG
188 AAGACTCGATTCTAAGAAATGACAAAAATGCCCCTAGGAGATACCTTCGACATGAAAGTATCCTG
3732628 ATAACACTAAAAGACTTAAAA
253 ATAACACTAAAAGACTTAAAA
3732649 AGACTATAAA
Statistics
Matches: 238, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
298 47 0.20
299 58 0.24
300 95 0.40
301 38 0.16
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (299 bp):
CTTCGGCATAAAAGCAAACCAGGTGACAACCTAGGACTCGGGTCTAAAAAATTACAAAAATGCCC
CTATGGGTATACCTTCGACATGAAAGTATCACACTAACCCTAAAGGAATTAAAAAAACTATAAAA
TGGGTGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTAGACCCGCGACAACCTAAGACTCG
ATTCTAAGAAATGACAAAAATGCCCCTAGGAGATACCTTCGACATGAAAGTATCCTGATAACACT
AAAAGACTTAAAATGGGTGAACCCATGCTAAATGCCCAC
Found at i:3732768 original size:119 final size:120
Alignment explanation
Indices: 3732543--3732778 Score: 332
Period size: 119 Copynumber: 2.0 Consensus size: 120
3732533 TCTGCATAAA
* *
3732543 AGTAGACCCGGTAACAACCTAAGACTCGGTTCTAAGAAATGACAAAAATGCCCCTAGGAGATACC
1 AGTAGACCCGGTAACAACCTAAGACTCGGTTCTAAGAAATGACAAAAATGACCCTAAGAGATACC
* * * *
3732608 TTTGACATGAAAGTATCTTGATAACACTAAAAGACTTAAAAAGACT-ATAAAAGT
66 TTCGACATGAAAGTATCTCGATAACACCAAAAGACTCAAAAAGACTCATAAAAGT
* * * *
3732662 AGTAGACCCGGTGATAACCTAGGACTCGGTTCTAAGAAATTACAAAAATGACCCTAAGAGATACC
1 AGTAGACCCGGTAACAACCTAAGACTCGGTTCTAAGAAATGACAAAAATGACCCTAAGAGATACC
* * *
3732727 TTCGATATGAAAGTATCTCGAT-ACCCCAAAAGTACTCAAAAAGGCTCATAAA
66 TTCGACATGAAAGTATCTCGATAACACCAAAAG-ACTCAAAAAGACTCATAAA
3732779 TGGGATGAAC
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
118 8 0.08
119 89 0.87
120 5 0.05
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (120 bp):
AGTAGACCCGGTAACAACCTAAGACTCGGTTCTAAGAAATGACAAAAATGACCCTAAGAGATACC
TTCGACATGAAAGTATCTCGATAACACCAAAAGACTCAAAAAGACTCATAAAAGT
Done.