Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 41 of 410
Found at i:10407269 original size:29 final size:29
Alignment explanation
Indices: 10407179--10407295 Score: 141
Period size: 30 Copynumber: 4.0 Consensus size: 29
10407169 AATGCCTTGG
* *
10407179 TGGCTATCTTTGTTAAAAAGGATGTC-TTT
1 TGGCTATCTCTATTAAAAAGGATG-CATTT
10407208 ATGGCTATCTCTATTAAAAAGGATGCATTTT
1 -TGGCTATCTCTATTAAAAAGGATGCA-TTT
*
10407239 TGGCTATCTCTATTAAAAATGATGCATTT
1 TGGCTATCTCTATTAAAAAGGATGCATTT
*
10407268 TGGCTATCTC-AGTTAAATA-GATGCATTT
1 TGGCTATCTCTA-TTAAAAAGGATGCATTT
10407296 GTGGTCATCT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
28 10 0.12
29 20 0.25
30 47 0.59
31 3 0.04
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (29 bp):
TGGCTATCTCTATTAAAAAGGATGCATTT
Found at i:10407313 original size:29 final size:27
Alignment explanation
Indices: 10407229--10407295 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 27
10407219 TATTAAAAAG
10407229 GATGCATTTTTGGCTATCTCTA-TTAAAAAT
1 GATGCA-TTTTGGCTATCTC-AGTT--AAAT
10407259 GATGCATTTTGGCTATCTCAGTTAAAT
1 GATGCATTTTGGCTATCTCAGTTAAAT
10407286 AGATGCATTT
1 -GATGCATTT
10407296 GTGGTCATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 4 0.11
28 10 0.29
29 15 0.43
30 6 0.17
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (27 bp):
GATGCATTTTGGCTATCTCAGTTAAAT
Found at i:10410245 original size:12 final size:12
Alignment explanation
Indices: 10410228--10410252 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10410218 TAGGTTTCCA
10410228 AAAATGGAAATG
1 AAAATGGAAATG
10410240 AAAATGGAAATG
1 AAAATGGAAATG
10410252 A
1 A
10410253 TTCATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:10417894 original size:26 final size:27
Alignment explanation
Indices: 10417860--10417913 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
10417850 AGCTATTATT
* * *
10417860 TTTTTTTCTT-TTTTGCTTTGTGTTGG
1 TTTTGTTCTTATTCTGCTGTGTGTTGG
10417886 TTTTGTTCTTCATTCTGCTGTGTGTTGG
1 TTTTGTTCTT-ATTCTGCTGTGTGTTGG
10417914 GCTCGTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.02, C:0.11, G:0.22, T:0.65
Consensus pattern (27 bp):
TTTTGTTCTTATTCTGCTGTGTGTTGG
Found at i:10422692 original size:22 final size:22
Alignment explanation
Indices: 10422667--10422710 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10422657 ATTTTGTTTT
*
10422667 TTTTTTATTTCTAAAAGTTTAA
1 TTTTATATTTCTAAAAGTTTAA
*
10422689 TTTTATATTTTTAAAAGTTTAA
1 TTTTATATTTCTAAAAGTTTAA
10422711 AATTCAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (22 bp):
TTTTATATTTCTAAAAGTTTAA
Found at i:10422972 original size:2 final size:2
Alignment explanation
Indices: 10422967--10423003 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10422957 ACACACACAC
*
10422967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10423004 AAAAACTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10423800 original size:2 final size:2
Alignment explanation
Indices: 10423793--10423837 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10423783 TAACCAAAGA
10423793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10423835 AT A
1 AT A
10423838 AAGATTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10425730 original size:47 final size:47
Alignment explanation
Indices: 10425666--10425776 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 47
10425656 GACATTGAGT
* *
10425666 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTT-TCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCT-GGATTTATTC
* * *
10425713 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCTGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCTGGATTTATTC
10425760 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
10425777 CTTATCCCGG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
47 49 0.91
48 5 0.09
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCTGGATTTATTC
Found at i:10427090 original size:19 final size:19
Alignment explanation
Indices: 10427066--10427114 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
10427056 CCAAGATTTG
*
10427066 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
10427085 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
10427104 -TAATATTTATA
1 AAAATATTTATA
10427115 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:10427160 original size:10 final size:8
Alignment explanation
Indices: 10427118--10427161 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
10427108 ATTTATATTT
10427118 TTAAAAAA
1 TTAAAAAA
* *
10427126 TTATAAAT
1 TTAAAAAA
10427134 TTAAAAAA
1 TTAAAAAA
10427142 TTAAAAAA
1 TTAAAAAA
10427150 TATATAAAAA
1 T-TA-AAAAA
10427160 TT
1 TT
10427162 TAATAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 21 0.70
9 3 0.10
10 6 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
TTAAAAAA
Found at i:10427169 original size:10 final size:9
Alignment explanation
Indices: 10427117--10427170 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 9
10427107 TATTTATATT
10427117 TTTAAAAAA
1 TTTAAAAAA
*
10427126 -TT-ATAAA
1 TTTAAAAAA
10427133 TTTAAAAAA
1 TTTAAAAAA
10427142 -TTAAAAAA
1 TTTAAAAAA
*
10427150 TATATAAAAA
1 TTTA-AAAAA
10427160 TTTAATAAAA
1 TTTAA-AAAA
10427170 T
1 T
10427171 AATAATTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
7 4 0.11
8 12 0.33
9 7 0.19
10 13 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:10428665 original size:2 final size:2
Alignment explanation
Indices: 10428660--10428698 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10428650 ATATATATAT
10428660 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10428699 AATATAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10429155 original size:111 final size:112
Alignment explanation
Indices: 10429033--10429255 Score: 301
Period size: 111 Copynumber: 2.0 Consensus size: 112
10429023 CATATTTGTA
* * *
10429033 ATTTTTAATATATTAGTT-ACCTTGGTTAAATAG-TTAAATAATAATGATTTCGTCTTTAAATCT
1 ATTTTTAATATATTAATTCA-CTTGGTTAAAT-GTTTAAATAATAATGATTTCATCCTTAAATCT
* * *
10429096 CA-AGTTCAATTCCTTTTCT-GAACATATTTGTAATTTTTATTTTATTTT
64 CAGA-TTCAATTCCTCTTCTAAAACACATTTGTAATTTTTATTTTATTTT
*
10429144 ATTTTTAATATATTAATTCATTTGGTTAAATGTTTAAATAATAATGATTTCATCCTTAAATCTCA
1 ATTTTTAATATATTAATTCACTTGGTTAAATGTTTAAATAATAATGATTTCATCCTTAAATCTCA
10429209 GATTCAATTCCTCTTCTAAAAAAACACATTTGTAATTTTTATTTTAT
66 GATTCAATTCCTCTTCT---AAAACACATTTGTAATTTTTATTTTAT
10429256 GTTGTTTCAA
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
110 1 0.01
111 71 0.72
112 2 0.02
115 24 0.24
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (112 bp):
ATTTTTAATATATTAATTCACTTGGTTAAATGTTTAAATAATAATGATTTCATCCTTAAATCTCA
GATTCAATTCCTCTTCTAAAACACATTTGTAATTTTTATTTTATTTT
Found at i:10436416 original size:17 final size:17
Alignment explanation
Indices: 10436394--10436427 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10436384 ATGAAAATTG
10436394 TATGGTATTGATGGTGT
1 TATGGTATTGATGGTGT
10436411 TATGGTATTGATGGTGT
1 TATGGTATTGATGGTGT
10436428 ACATTTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (17 bp):
TATGGTATTGATGGTGT
Found at i:10436519 original size:2 final size:2
Alignment explanation
Indices: 10436514--10436545 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10436504 AAAAAGAATA
10436514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10436546 TAACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10436625 original size:20 final size:19
Alignment explanation
Indices: 10436557--10436640 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
10436547 AACATAAAAG
* *
10436557 AAAAGAAACAAAGAAGGAA
1 AAAAGAAAAAAAAAAGGAA
* * *
10436576 AGAACAAAATAACAAACGAGAA
1 AAAAGAAAA-AA-AAAAG-GAA
10436598 AGAAAGAAAAAAAAAAGGAGA
1 A-AAAGAAAAAAAAAAGGA-A
*
10436619 AAAAGAAAAGAAAAAGGAA
1 AAAAGAAAAAAAAAAGGAA
10436638 AAA
1 AAA
10436641 CTAGGGATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
19 10 0.20
20 20 0.39
21 9 0.18
22 6 0.12
23 6 0.12
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.01
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAGGAA
Found at i:10437033 original size:12 final size:12
Alignment explanation
Indices: 10437016--10437071 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
10437006 TTTAGTTAAG
*
10437016 ATTAAAATTGAA
1 ATTAAAATAGAA
*
10437028 ATTAAAGTAGAA
1 ATTAAAATAGAA
10437040 ATT-AAATAGAA
1 ATTAAAATAGAA
*
10437051 ATT-GAATAAGAA
1 ATTAAAAT-AGAA
*
10437063 ATTTAAATA
1 ATTAAAATA
10437072 TTAAATGCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 13 0.35
12 21 0.57
13 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (12 bp):
ATTAAAATAGAA
Found at i:10437046 original size:23 final size:24
Alignment explanation
Indices: 10437020--10437071 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
10437010 GTTAAGATTA
*
10437020 AAATTGAAATTAAAGT-AGAAA-TT
1 AAATAGAAATTAAA-TAAGAAATTT
*
10437043 AAATAGAAATTGAATAAGAAATTT
1 AAATAGAAATTAAATAAGAAATTT
10437067 AAATA
1 AAATA
10437072 TTAAATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 17 0.68
24 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (24 bp):
AAATAGAAATTAAATAAGAAATTT
Found at i:10437118 original size:33 final size:33
Alignment explanation
Indices: 10437081--10437143 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
10437071 ATTAAATGCC
10437081 AATTAGTATTGTATTAATGATTATGAAAATGTA
1 AATTAGTATTGTATTAATGATTATGAAAATGTA
*
10437114 AATTAGTATTGTGTTAATGATTATGAAAAT
1 AATTAGTATTGTATTAATGATTATGAAAAT
10437144 TGTTTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (33 bp):
AATTAGTATTGTATTAATGATTATGAAAATGTA
Found at i:10438939 original size:21 final size:21
Alignment explanation
Indices: 10438889--10438944 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
10438879 CGAGCTCTCA
10438889 ACACGGCCGTGTGACCTAGCC
1 ACACGGCCGTGTGACCTAGCC
** * **
10438910 ACATAGCCGTGTGATCTAGTG
1 ACACGGCCGTGTGACCTAGCC
10438931 ACACGGCCGTGTGA
1 ACACGGCCGTGTGA
10438945 GTCACACGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.30, T:0.20
Consensus pattern (21 bp):
ACACGGCCGTGTGACCTAGCC
Found at i:10443736 original size:25 final size:25
Alignment explanation
Indices: 10443708--10443758 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10443698 ATAAGTTTAT
10443708 CGCGCATTAACTCAAATGAGAAATG
1 CGCGCATTAACTCAAATGAGAAATG
10443733 CGCGCATTAACTCAAATGAGAAATG
1 CGCGCATTAACTCAAATGAGAAATG
10443758 C
1 C
10443759 CTAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (25 bp):
CGCGCATTAACTCAAATGAGAAATG
Found at i:10452902 original size:43 final size:43
Alignment explanation
Indices: 10452841--10452927 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
10452831 GATTCGTCAA
10452841 AAGTATCTACAGATCAGTATAAATCCATCTATCAAACAACTGC
1 AAGTATCTACAGATCAGTATAAATCCATCTATCAAACAACTGC
10452884 AAGTATCTACAGATCAGTATAAATCCATCTATCAAACAACTGC
1 AAGTATCTACAGATCAGTATAAATCCATCTATCAAACAACTGC
10452927 A
1 A
10452928 GCCACCTAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (43 bp):
AAGTATCTACAGATCAGTATAAATCCATCTATCAAACAACTGC
Found at i:10459720 original size:14 final size:14
Alignment explanation
Indices: 10459701--10459727 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10459691 AGAAGCACCG
10459701 AGAAAAAGAAAAAA
1 AGAAAAAGAAAAAA
10459715 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
10459728 GTAAGAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAAA
Found at i:10467657 original size:19 final size:19
Alignment explanation
Indices: 10467611--10467658 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
10467601 GTATATATTT
10467611 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
10467629 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
10467648 TAAGTTTTATT
1 TAAATTTTATT
10467659 CATATTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:10467720 original size:43 final size:42
Alignment explanation
Indices: 10467672--10467764 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 42
10467662 ATTTTAGAAA
*
10467672 TATTTTTATTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
1 TATTTTT-TTTTATCTTTTAGTAGTTTACTAAAATAAAGGAAC
* * *
10467715 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAAGGAAC
1 TATTTT-TTTTTATCTTTTAGTAGTTTACTAAAATAAAGGAAC
10467758 TATTTTT
1 TATTTTT
10467765 CCAATTAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 43 0.96
44 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (42 bp):
TATTTTTTTTTATCTTTTAGTAGTTTACTAAAATAAAGGAAC
Found at i:10472387 original size:19 final size:19
Alignment explanation
Indices: 10472341--10472388 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
10472331 GTATATATTT
10472341 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
10472359 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
10472378 TAAGTTTTATT
1 TAAATTTTATT
10472389 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:10472448 original size:42 final size:43
Alignment explanation
Indices: 10472402--10472493 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
10472392 ATTCTAGAAA
10472402 TATTTT-TATTTTATCTTTTAGTAGTTTACTA-AATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
10472444 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
10472487 TATTTTC
1 TATTTTC
10472494 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:10476187 original size:21 final size:21
Alignment explanation
Indices: 10476158--10476202 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10476148 AGTAATAGAT
*
10476158 ATCAAAAAGCTACAATTCCAC
1 ATCAAAAAGCTACAAATCCAC
* * *
10476179 ATCAGAAAGTTTCAAATCCAC
1 ATCAAAAAGCTACAAATCCAC
10476200 ATC
1 ATC
10476203 CTCTTACATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (21 bp):
ATCAAAAAGCTACAAATCCAC
Found at i:10476913 original size:2 final size:2
Alignment explanation
Indices: 10476906--10476931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10476896 AAAAGTCTAA
10476906 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10476932 GCATGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10479416 original size:2 final size:2
Alignment explanation
Indices: 10479369--10479397 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10479359 TATTTGTATG
10479369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10479398 TCATTTAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10479532 original size:21 final size:22
Alignment explanation
Indices: 10479490--10479542 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
10479480 GATGTATATA
10479490 CGTATATTTTATATACATTATG
1 CGTATATTTTATATACATTATG
* *
10479512 TGTATATTTTA-ATATATTATG
1 CGTATATTTTATATACATTATG
10479533 CGTATATTTT
1 CGTATATTTT
10479543 GTTTTGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (22 bp):
CGTATATTTTATATACATTATG
Found at i:10480152 original size:20 final size:23
Alignment explanation
Indices: 10480118--10480158 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
10480108 TTCTAACGTA
10480118 TATATATACTATGTA-ATTTTAT
1 TATATATACTATGTACATTTTAT
10480140 TATAT-TACT-TGTACATTTT
1 TATATATACTATGTACATTTT
10480159 TATATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TATATATACTATGTACATTTTAT
Found at i:10480164 original size:21 final size:21
Alignment explanation
Indices: 10480116--10480164 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10480106 ATTTCTAACG
10480116 TATATATATACTATGTAATTT
1 TATATATATACTATGTAATTT
10480137 TAT-TATATTACT-TGTACATTT
1 TATATATA-TACTATGTA-ATTT
10480158 T-TATATA
1 TATATATA
10480165 CCATGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATATACTATGTAATTT
Found at i:10481731 original size:41 final size:41
Alignment explanation
Indices: 10481644--10481732 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
10481634 ACTTAATTGG
*
10481644 TAAAATAATTTTTTTATTCTAATAAACTACTAAAAGATAAG
1 TAAAATAATTTTTTTATTCTAATAAACTACTAAAAGATAAA
* * * *
10481685 GAAAATAATTTTTTTATTTTAATAAACTATTCAAA-ATAAAA
1 TAAAATAATTTTTTTATTCTAATAAACTACTAAAAGAT-AAA
10481726 TAAAATA
1 TAAAATA
10481733 TTCCTAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (41 bp):
TAAAATAATTTTTTTATTCTAATAAACTACTAAAAGATAAA
Found at i:10483115 original size:14 final size:14
Alignment explanation
Indices: 10483096--10483124 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10483086 AAAAAAACAA
10483096 ATAAATATAATGGG
1 ATAAATATAATGGG
10483110 ATAAATATAATGGG
1 ATAAATATAATGGG
10483124 A
1 A
10483125 ATGGAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28
Consensus pattern (14 bp):
ATAAATATAATGGG
Found at i:10483282 original size:10 final size:9
Alignment explanation
Indices: 10483256--10483314 Score: 55
Period size: 10 Copynumber: 6.0 Consensus size: 9
10483246 TAAATTCTAA
10483256 AAAATAAAT
1 AAAATAAAT
10483265 ACAAATAAAT
1 A-AAATAAAT
*
10483275 AAAGATAATT
1 AAA-ATAAAT
*
10483285 AAAGATAATT
1 AAA-ATAAAT
10483295 AAATATAAAT
1 AAA-ATAAAT
10483305 GAAAATAAAT
1 -AAAATAAAT
10483315 TTTAAAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
9 3 0.07
10 38 0.86
11 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (9 bp):
AAAATAAAT
Found at i:10484112 original size:96 final size:97
Alignment explanation
Indices: 10483943--10484124 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
10483933 TCTTTATTTA
* * * **
10483943 TTTATTGTTGCTTAAGAATATATTGAACTTTTTGACGTGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTGTTGCTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCA
10484008 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACTCAGCCCAACATACTCCTAATT
* *
10484040 TTTATT-TTTCTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTGTTGCTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCA
*
10484104 CCCTGGTTACTCAGCCCAACA
66 CCCCGGTTACTCAGCCCAACA
10484125 CATCCTTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 71 0.92
97 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTGTTGCTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:10486747 original size:15 final size:14
Alignment explanation
Indices: 10486727--10486771 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
10486717 TTAATAAATT
10486727 AATAAAATAAAGTAA
1 AATAAAATAAA-TAA
*
10486742 AATAAAATTAATAA
1 AATAAAATAAATAA
*
10486756 AATTAAAAAAAATAA
1 AA-TAAAATAAATAA
10486771 A
1 A
10486772 CATTGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:10486753 original size:24 final size:24
Alignment explanation
Indices: 10486722--10486771 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
10486712 ATAAATTAAT
*
10486722 AAATTAATAAAA-TAAAGTAAAATA
1 AAATTAATAAAATTAAA-AAAAATA
10486746 AAATTAATAAAATTAAAAAAAATA
1 AAATTAATAAAATTAAAAAAAATA
10486770 AA
1 AA
10486772 CATTGAGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATTAATAAAATTAAAAAAAATA
Found at i:10493012 original size:5 final size:5
Alignment explanation
Indices: 10492988--10493031 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
10492978 AAATAGAAAG
*
10492988 ATTTT ATTTT -GTTT ATTTTT ATTTT ATTTT ATTTTT ATTTT ATT
1 ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT A-TTTT ATTTT ATT
10493032 AATTTAGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 3 0.09
5 22 0.65
6 9 0.26
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:10493015 original size:11 final size:11
Alignment explanation
Indices: 10492989--10493031 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
10492979 AATAGAAAGA
*
10492989 TTTTATTTTGT
1 TTTTATTTTAT
*
10493000 TTAT-TTTTA-
1 TTTTATTTTAT
10493009 TTTTATTTTAT
1 TTTTATTTTAT
10493020 TTTTATTTTAT
1 TTTTATTTTAT
10493031 T
1 T
10493032 AATTTAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 3 0.11
10 9 0.33
11 15 0.56
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:10493020 original size:16 final size:16
Alignment explanation
Indices: 10492989--10493031 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
10492979 AATAGAAAGA
*
10492989 TTTTATTTT-GTTTAT
1 TTTTATTTTATTTTAT
10493004 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
10493020 TTTTATTTTATT
1 TTTTATTTTATT
10493032 AATTTAGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:10494572 original size:10 final size:10
Alignment explanation
Indices: 10494553--10494602 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
10494543 TTAAATTCTA
10494553 AAAGATAAAT
1 AAAGATAAAT
10494563 ACAA-ATAAAT
1 A-AAGATAAAT
*
10494573 AAAGATAATT
1 AAAGATAAAT
10494583 AAAGATAAAT
1 AAAGATAAAT
10494593 GAAA-ATAAAT
1 -AAAGATAAAT
10494603 CTTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10495434 original size:18 final size:18
Alignment explanation
Indices: 10495407--10495442 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10495397 TTGATCGAGC
*
10495407 AACTTTCATTCCAAGAAA
1 AACTTCCATTCCAAGAAA
*
10495425 AACTTCCATTCTAAGAAA
1 AACTTCCATTCCAAGAAA
10495443 GTATTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (18 bp):
AACTTCCATTCCAAGAAA
Found at i:10498479 original size:30 final size:30
Alignment explanation
Indices: 10498445--10498532 Score: 151
Period size: 30 Copynumber: 2.9 Consensus size: 30
10498435 TGGGCACTTC
10498445 CACACGGGTGATCCACACGCCCGTGTGTGA
1 CACACGGGTGATCCACACGCCCGTGTGTGA
10498475 CACACGGGTGATCCACACGCCCGTGTGTGA
1 CACACGGGTGATCCACACGCCCGTGTGTGA
*
10498505 CACACGGGTAGA-CCACACGCCCTTGTGT
1 CACACGGGT-GATCCACACGCCCGTGTGT
10498533 CATGGCCGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 54 0.96
31 2 0.04
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTGATCCACACGCCCGTGTGTGA
Found at i:10498480 original size:17 final size:17
Alignment explanation
Indices: 10498458--10498510 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
10498448 ACGGGTGATC
10498458 CACACGCCCGTGTGTGA
1 CACACGCCCGTGTGTGA
*
10498475 CACACG---G-GTGAT-C
1 CACACGCCCGTGTG-TGA
10498488 CACACGCCCGTGTGTGA
1 CACACGCCCGTGTGTGA
10498505 CACACG
1 CACACG
10498511 GGTAGACCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
13 9 0.32
14 2 0.07
16 2 0.07
17 15 0.54
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (17 bp):
CACACGCCCGTGTGTGA
Found at i:10498823 original size:13 final size:13
Alignment explanation
Indices: 10498805--10498830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10498795 GGGATTTGTT
10498805 TTAACTAAACTAA
1 TTAACTAAACTAA
10498818 TTAACTAAACTAA
1 TTAACTAAACTAA
10498831 GAATGCACAG
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:10502178 original size:33 final size:33
Alignment explanation
Indices: 10502141--10502206 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
10502131 TGATATATCC
*
10502141 CTTGAGTCTTCCACTGAGGATATCTTTGATTCT
1 CTTGAGTCTTCCACTGAGCATATCTTTGATTCT
10502174 CTTGAGTCTTCCACTGAGCATATCTTTGATTCT
1 CTTGAGTCTTCCACTGAGCATATCTTTGATTCT
10502207 ATCTCTCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (33 bp):
CTTGAGTCTTCCACTGAGCATATCTTTGATTCT
Found at i:10503459 original size:14 final size:15
Alignment explanation
Indices: 10503436--10503473 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
10503426 CGAGTACTTG
*
10503436 CAAAAGAAAGG-AAA
1 CAAAACAAAGGAAAA
10503450 CAAAACAAAGGAAAA
1 CAAAACAAAGGAAAA
*
10503465 GAAAACAAA
1 CAAAACAAA
10503474 AACACGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.74, C:0.11, G:0.16, T:0.00
Consensus pattern (15 bp):
CAAAACAAAGGAAAA
Found at i:10505202 original size:2 final size:2
Alignment explanation
Indices: 10505195--10505222 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10505185 CCAATTAAAC
10505195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10505223 GGTAGGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10507465 original size:23 final size:23
Alignment explanation
Indices: 10507439--10507487 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
10507429 AACGTATCCA
10507439 AAATTTCATTATTTTAATACATT
1 AAATTTCATTATTTTAATACATT
10507462 AAATTTCATTATTTTAATACATT
1 AAATTTCATTATTTTAATACATT
10507485 AAA
1 AAA
10507488 AATATGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTTCATTATTTTAATACATT
Found at i:10507959 original size:22 final size:22
Alignment explanation
Indices: 10507932--10507974 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10507922 TCCTAATCCT
*
10507932 CAAAATCATTGAGTACTAAACC
1 CAAAATCATTGAATACTAAACC
*
10507954 CAAAATCATTGAATCCTAAAC
1 CAAAATCATTGAATACTAAAC
10507975 TCTTTTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (22 bp):
CAAAATCATTGAATACTAAACC
Found at i:10510623 original size:7 final size:7
Alignment explanation
Indices: 10510611--10510735 Score: 85
Period size: 7 Copynumber: 17.6 Consensus size: 7
10510601 ATTTAAAGGT
*
10510611 TTATGGA
1 TTATGGG
10510618 TTATGGG
1 TTATGGG
10510625 TT-TAGGG
1 TTAT-GGG
*
10510632 ATTAT-GT
1 -TTATGGG
*
10510639 TTATGGC
1 TTATGGG
*
10510646 TTATGGT
1 TTATGGG
*
10510653 TTAAGGG
1 TTATGGG
10510660 TTATGGG
1 TTATGGG
10510667 TTA-GTGG
1 TTATG-GG
*
10510674 TTAGGGG
1 TTATGGG
10510681 TTTATGGG
1 -TTATGGG
10510689 TTATGGG
1 TTATGGG
10510696 TTATGGG
1 TTATGGG
*
10510703 TTAATGGT
1 TT-ATGGG
*
10510711 TTAGGGG
1 TTATGGG
* *
10510718 TTAAGGC
1 TTATGGG
*
10510725 TTAAGGG
1 TTATGGG
10510732 TTAT
1 TTAT
10510736 TATTTTATGG
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
6 6 0.06
7 73 0.77
8 15 0.16
9 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:10510683 original size:29 final size:29
Alignment explanation
Indices: 10510611--10510734 Score: 94
Period size: 29 Copynumber: 4.3 Consensus size: 29
10510601 ATTTAAAGGT
* * *
10510611 TTATGGATTATGGGTTT-AGGGATTAT-GT
1 TTATGGGTTAAGGGTTTAAGGG-TTATGGG
* *
10510639 TTATGGCTT-ATGGTTTAAGGGTTATGGG
1 TTATGGGTTAAGGGTTTAAGGGTTATGGG
* *
10510667 TTA-GTGGTTAGGGGTTTATGGGTTATGGG
1 TTATG-GGTTAAGGGTTTAAGGGTTATGGG
* * * *
10510696 TTATGGGTTAATGGTTTAGGGGTTAAGGC
1 TTATGGGTTAAGGGTTTAAGGGTTATGGG
*
10510725 TTAAGGGTTA
1 TTATGGGTTA
10510735 TTATTTTATG
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
27 10 0.13
28 19 0.25
29 47 0.61
30 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (29 bp):
TTATGGGTTAAGGGTTTAAGGGTTATGGG
Found at i:10510728 original size:22 final size:22
Alignment explanation
Indices: 10510684--10510733 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
10510674 TTAGGGGTTT
* * * *
10510684 ATGGGTTATGGGTTATGGGTTA
1 ATGGTTTAGGGGTTAAGGCTTA
10510706 ATGGTTTAGGGGTTAAGGCTTA
1 ATGGTTTAGGGGTTAAGGCTTA
*
10510728 AGGGTT
1 ATGGTT
10510734 ATTATTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (22 bp):
ATGGTTTAGGGGTTAAGGCTTA
Found at i:10510769 original size:14 final size:14
Alignment explanation
Indices: 10510752--10510797 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10510742 ATGGTTTAGG
10510752 GTTTAGGGGATATA
1 GTTTAGGGGATATA
* *
10510766 GTTTAGGGTACTTTA
1 GTTTAGGGGA-TATA
10510781 G--TAGGGGATATA
1 GTTTAGGGGATATA
10510793 GTTTA
1 GTTTA
10510798 ATGGTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 11 0.44
15 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.39
Consensus pattern (14 bp):
GTTTAGGGGATATA
Found at i:10510956 original size:20 final size:21
Alignment explanation
Indices: 10510927--10510972 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10510917 TTGTTTTGTG
*
10510927 GTTTATGG-TTAGAGGATATA
1 GTTTAGGGTTTAGAGGATATA
*
10510947 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGAGGATATA
10510968 GTTTA
1 GTTTA
10510973 AAGTTTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGGATATA
Found at i:10510977 original size:28 final size:29
Alignment explanation
Indices: 10510944--10511017 Score: 107
Period size: 27 Copynumber: 2.6 Consensus size: 29
10510934 GTTAGAGGAT
*
10510944 ATAGTTTAGGGTTTAGGGGATATAGTTTA
1 ATAGTTTAAGGTTTAGGGGATATAGTTTA
*
10510973 A-AGTTTAAGG-TTATGGGATATAGTTTA
1 ATAGTTTAAGGTTTAGGGGATATAGTTTA
*
10511000 ATGGTTTAAGGTTTAGGG
1 ATAGTTTAAGGTTTAGGG
10511018 TTTTGATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 17 0.44
28 16 0.41
29 6 0.15
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (29 bp):
ATAGTTTAAGGTTTAGGGGATATAGTTTA
Found at i:10510978 original size:21 final size:21
Alignment explanation
Indices: 10510935--10510979 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10510925 TGGTTTATGG
**
10510935 TTAGAGGATATAGTTTAGGGT
1 TTAGAGGATATAGTTTAAAGT
*
10510956 TTAGGGGATATAGTTTAAAGT
1 TTAGAGGATATAGTTTAAAGT
10510977 TTA
1 TTA
10510980 AGGTTATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (21 bp):
TTAGAGGATATAGTTTAAAGT
Found at i:10512655 original size:27 final size:27
Alignment explanation
Indices: 10512602--10512657 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
10512592 TACAGCATTC
* *
10512602 ATTTGTTTTTGTTTTGATGTATCAAAA
1 ATTTGTATTTGTTTTGATGTATAAAAA
* *
10512629 ATTTGTATTTGTTTTGATTTTTAAAAA
1 ATTTGTATTTGTTTTGATGTATAAAAA
10512656 AT
1 AT
10512658 AAGTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (27 bp):
ATTTGTATTTGTTTTGATGTATAAAAA
Found at i:10512717 original size:22 final size:23
Alignment explanation
Indices: 10512673--10512717 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10512663 TTTAAGGATT
* * *
10512673 ATTTTTATTAGAAAATTTTAATA
1 ATTTTTATAAGAAAAATTAAATA
10512696 ATTTTTA-AAGAAAAATTAAATA
1 ATTTTTATAAGAAAAATTAAATA
10512718 TTAATTCAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTTTTATAAGAAAAATTAAATA
Found at i:10515368 original size:21 final size:21
Alignment explanation
Indices: 10515342--10515412 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
10515332 TTAGAGCGGA
10515342 GGCAGCAGAGAGGGAGGCAAC
1 GGCAGCAGAGAGGGAGGCAAC
* *
10515363 GGCAGCAGTGAGGGAGGCAGC
1 GGCAGCAGAGAGGGAGGCAAC
* * *
10515384 GGCAGTAGCGAGGGAGGCAAA
1 GGCAGCAGAGAGGGAGGCAAC
10515405 GGCAGCAG
1 GGCAGCAG
10515413 CGATGGCAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.49, T:0.03
Consensus pattern (21 bp):
GGCAGCAGAGAGGGAGGCAAC
Found at i:10527436 original size:16 final size:15
Alignment explanation
Indices: 10527415--10527445 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
10527405 AAAAATGGTT
10527415 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
10527431 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
10527446 TTCCCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:10531923 original size:9 final size:9
Alignment explanation
Indices: 10531905--10531973 Score: 84
Period size: 9 Copynumber: 7.7 Consensus size: 9
10531895 TTTATACAAA
*
10531905 TAATTCGGT
1 TAATTTGGT
10531914 TAATTTGGT
1 TAATTTGGT
*
10531923 TAATTTGGG
1 TAATTTGGT
*
10531932 TAATTCGGT
1 TAATTTGGT
*
10531941 TAATTTGAT
1 TAATTTGGT
**
10531950 TAATTCAGT
1 TAATTTGGT
10531959 TAATTTGGT
1 TAATTTGGT
10531968 TAATTT
1 TAATTT
10531974 TATACTTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (9 bp):
TAATTTGGT
Found at i:10531943 original size:27 final size:27
Alignment explanation
Indices: 10531905--10531973 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
10531895 TTTATACAAA
* **
10531905 TAATTCGGTTAATTTGGTTAATTTGGG
1 TAATTCGGTTAATTTGATTAATTCAGG
*
10531932 TAATTCGGTTAATTTGATTAATTCAGT
1 TAATTCGGTTAATTTGATTAATTCAGG
*
10531959 TAATTTGGTTAATTT
1 TAATTCGGTTAATTT
10531974 TATACTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TAATTCGGTTAATTTGATTAATTCAGG
Found at i:10536980 original size:6 final size:6
Alignment explanation
Indices: 10536969--10536994 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10536959 ATTTGCAACC
10536969 AAGGGG AAGGGG AAGGGG AAGGGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AA
10536995 AAGGGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:10537165 original size:14 final size:14
Alignment explanation
Indices: 10537146--10537172 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10537136 AAAAAAGCAT
10537146 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
10537160 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
10537173 AGGTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:10540675 original size:34 final size:34
Alignment explanation
Indices: 10540637--10540704 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
10540627 TATGGAAAGA
10540637 CACTTATATTAGTAGACGAACGAAAACATATCCT
1 CACTTATATTAGTAGACGAACGAAAACATATCCT
10540671 CACTTATATTAGTAGACGAACGAAAACATATCCT
1 CACTTATATTAGTAGACGAACGAAAACATATCCT
10540705 TAGTCTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (34 bp):
CACTTATATTAGTAGACGAACGAAAACATATCCT
Found at i:10540940 original size:28 final size:28
Alignment explanation
Indices: 10540900--10540954 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
10540890 TTCACTTGTG
10540900 ACGTTCATAGTGTGGTGTTATAGTATGC
1 ACGTTCATAGTGTGGTGTTATAGTATGC
10540928 ACGTTCATAGTGTGGTGTTATAGTATG
1 ACGTTCATAGTGTGGTGTTATAGTATG
10540955 ATCAAAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.40
Consensus pattern (28 bp):
ACGTTCATAGTGTGGTGTTATAGTATGC
Found at i:10546172 original size:16 final size:16
Alignment explanation
Indices: 10546151--10546182 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10546141 AATTGGATTG
*
10546151 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
10546167 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
10546183 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:10547078 original size:17 final size:18
Alignment explanation
Indices: 10547045--10547078 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10547035 ATTTTTTCGC
10547045 AAAATTACATAATAACAA
1 AAAATTACATAATAACAA
*
10547063 AAAATTATATAA-AACA
1 AAAATTACATAATAACA
10547079 CATAACCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTACATAATAACAA
Found at i:10549217 original size:21 final size:20
Alignment explanation
Indices: 10549172--10549217 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
10549162 TTGCTGAAAT
10549172 GGTT-AACTTAATCAATTTA
1 GGTTGAACTTAATCAATTTA
*
10549191 GCTTGAACTTAATTC-ATGTTA
1 GGTTGAACTTAA-TCAAT-TTA
10549212 GGTTGA
1 GGTTGA
10549218 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (20 bp):
GGTTGAACTTAATCAATTTA
Found at i:10553260 original size:3 final size:3
Alignment explanation
Indices: 10553248--10553350 Score: 54
Period size: 3 Copynumber: 33.7 Consensus size: 3
10553238 TAATATGATT
* **
10553248 TTA TTA -TA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA
* * *
10553296 TTA TT- TTA -CA TCA TTA TTT TTA -TA TTA TTA TTA -TA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
10553338 TTTA TTAA TTA TT
1 -TTA TT-A TTA TT
10553351 TATATATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
2 9 0.12
3 54 0.69
4 14 0.18
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10553324 original size:11 final size:11
Alignment explanation
Indices: 10553294--10553402 Score: 55
Period size: 11 Copynumber: 9.5 Consensus size: 11
10553284 AAATTATTAT
*
10553294 TATTATTTTACA
1 TATTATTTT-TA
10553306 TCATTATTTTTA
1 T-ATTATTTTTA
*
10553318 TATTATTATTA
1 TATTATTTTTA
10553329 TATTATATATTTA
1 TATTAT-T-TTTA
*
10553342 TTAATTATTTATA
1 -T-ATTATTTTTA
10553355 TATT-TTTCTTA
1 TATTATTT-TTA
* *
10553366 CATATATATTT-
1 TAT-TATTTTTA
10553377 T-TTA-TTTTA
1 TATTATTTTTA
* *
10553386 TATTATATATA
1 TATTATTTTTA
10553397 TATTAT
1 TATTAT
10553403 ATTTCTTATT
Statistics
Matches: 75, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
8 3 0.04
9 3 0.04
10 7 0.09
11 31 0.41
12 8 0.11
13 16 0.21
14 2 0.03
15 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:10553332 original size:19 final size:18
Alignment explanation
Indices: 10553308--10553358 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
10553298 ATTTTACATC
*
10553308 ATTATTTTTATATTATT-
1 ATTATTTATATATTATTA
10553325 ATTATATTATATATTTATTA
1 ATTAT-TTATATA-TTATTA
10553345 ATTATTTATATATT
1 ATTATTTATATATT
10553359 TTTCTTACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
19 12 0.40
20 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTATTTATATATTATTA
Found at i:10553359 original size:19 final size:18
Alignment explanation
Indices: 10553249--10553406 Score: 82
Period size: 17 Copynumber: 8.8 Consensus size: 18
10553239 AATATGATTT
10553249 TATTATATTATTATTTAT-
1 TATT-TATTATTATTTATA
* *
10553267 TATATATTATT-TTTCACA
1 TATTTATTATTATTT-ATA
*
10553285 -AATTATTATTA-TTAT-
1 TATTTATTATTATTTATA
* * *
10553300 T-TTACATCATTATTTTTA
1 TATT-TATTATTATTTATA
10553318 TA-TTATTATTATATTATA
1 TATTTATTATTAT-TTATA
10553336 TATTTATTAATTATTTATA
1 TATTTATT-ATTATTTATA
* **
10553355 TATTT-TTCTTACATATA
1 TATTTATTATTATTTATA
*
10553372 TATTTTTTATTTTATATTATA
1 TATTTATTA--TTAT-TTATA
*
10553393 TATATATTA-TATTT
1 TATTTATTATTATTT
10553407 CTTATTTCCT
Statistics
Matches: 105, Mismatches: 20, Indels: 31
0.67 0.13 0.20
Matches are distributed among these distances:
15 1 0.01
16 10 0.10
17 42 0.40
18 18 0.17
19 15 0.14
20 8 0.08
21 11 0.10
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATTATTATTTATA
Found at i:10553390 original size:62 final size:59
Alignment explanation
Indices: 10553285--10553405 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 59
10553275 ATTTTTCACA
10553285 AATTATTATTATTATTTTACATCATTATTTTTATATTATTATTATATTATATATT-TATT
1 AATTATTATTATTATTTTACATCATTATTTTTATATTATTATTATA-TATATATTATATT
* *
10553344 AATTATTTATATATTTTTCTTACAT-ATATATTTTT-TATTTTATATTATATATATATTATATT
1 AATTA-TTAT-TATTATT-TTACATCAT-TATTTTTATATTAT-TATTATATATATATTATATT
10553406 TCTTATTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
59 5 0.09
60 4 0.07
61 21 0.39
62 24 0.44
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (59 bp):
AATTATTATTATTATTTTACATCATTATTTTTATATTATTATTATATATATATTATATT
Found at i:10553480 original size:22 final size:23
Alignment explanation
Indices: 10553427--10553480 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
10553417 ATATATTTAA
10553427 ATTATATTTTATTATATAACATTT
1 ATTATA-TTTATTATATAACATTT
* * *
10553451 ATTGTATTT-TTATATTACTTTT
1 ATTATATTTATTATATAACATTT
*
10553473 TTTATATT
1 ATTATATT
10553481 ATCTATTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 17 0.68
23 3 0.12
24 5 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTATATTTATTATATAACATTT
Found at i:10553503 original size:27 final size:26
Alignment explanation
Indices: 10553460--10553524 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
10553450 TATTGTATTT
*
10553460 TTATATTACTTT-TTTTATATTA-TCTA
1 TTATATTA-TTTATTTTATATCATTC-A
10553486 TTATATTATTTATATTTATATCATTCA
1 TTATATTATTTAT-TTTATATCATTCA
*
10553513 TTACATTATTTA
1 TTATATTATTTA
10553525 AAATTCCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 3 0.09
26 9 0.26
27 20 0.59
28 2 0.06
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATATTATTTATTTTATATCATTCA
Found at i:10553615 original size:15 final size:15
Alignment explanation
Indices: 10553597--10553647 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
10553587 TAATTATTTA
10553597 TTTATTATGTATTAT
1 TTTATTATGTATTAT
**
10553612 TTTAAAATGATATT-T
1 TTTATTATG-TATTAT
*
10553627 TTATATTATGTGTTAT
1 TT-TATTATGTATTAT
10553643 TTTAT
1 TTTAT
10553648 AAATTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTATTATGTATTAT
Found at i:10553634 original size:31 final size:32
Alignment explanation
Indices: 10553591--10553651 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
10553581 AATTATTAAT
10553591 TATTTATTTATTATGTATTATTTTA-AAATGA
1 TATTTATTTATTATGTATTATTTTATAAATGA
*
10553622 TATTT-TTATATTATGTGTTATTTTATAAAT
1 TATTTATT-TATTATGTATTATTTTATAAAT
10553652 TCTTTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (32 bp):
TATTTATTTATTATGTATTATTTTATAAATGA
Found at i:10553983 original size:35 final size:35
Alignment explanation
Indices: 10553937--10554013 Score: 122
Period size: 33 Copynumber: 2.3 Consensus size: 35
10553927 ATTGATATTG
*
10553937 TATTACTTTTTTTTGTATGTCATGCATTATTTAAT
1 TATTACTTTTTTTTGTATATCATGCATTATTTAAT
*
10553972 TATTAC--TTTTTTGTATATCATGCGTTATTTAAT
1 TATTACTTTTTTTTGTATATCATGCATTATTTAAT
10554005 TATTACTTT
1 TATTACTTT
10554014 GTATGTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
33 31 0.82
35 7 0.18
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (35 bp):
TATTACTTTTTTTTGTATATCATGCATTATTTAAT
Found at i:10554061 original size:2 final size:2
Alignment explanation
Indices: 10554054--10554092 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10554044 CAATACATGC
10554054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10554093 CTTTGTATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10566163 original size:205 final size:205
Alignment explanation
Indices: 10565615--10566197 Score: 925
Period size: 206 Copynumber: 2.8 Consensus size: 205
10565605 TAGGCCGCAG
* * *
10565615 CATAGTAGATCTTACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
*
10565680 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * * * *
10565745 AAAATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCTACGA
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTAGCATCTCCACTTCAACGA
10565810 AGGGCAGACA
196 AGGGCAGACA
** * * *
10565820 CATAGCAGATCTGGCCTTCAGATGATTAGATTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGCATCCTTGT
*
10565885 GCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
65 GCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
*
10565950 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGTAAATCAAAGTCTAGCATCTCCACTTCAACG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTAGCATCTCCACTTCAACG
* *
10566015 -GGGAGCAGATA
195 AAGG-GCAGACA
* * *
10566026 CATAGCAGATCTCACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTAGCATCTTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
10566091 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * *
10566156 TAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCAAA
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAA
10566198 AAAGCAGATT
Statistics
Matches: 346, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
205 160 0.46
206 186 0.54
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTAGCATCTCCACTTCAACGA
AGGGCAGACA
Found at i:10568029 original size:14 final size:14
Alignment explanation
Indices: 10567958--10568030 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 14
10567948 TATGATTTTA
10567958 TTATATTATTATTT
1 TTATATTATTATTT
10567972 ATTATA-TATTATTT
1 -TTATATTATTATTT
*
10567986 TTCACAAATTATTATTATT
1 TT---ATATTATTA-T-TT
* *
10568005 TTACATCATTATTT
1 TTATATTATTATTT
10568019 TTATATTATTAT
1 TTATATTATTAT
10568031 AGTATATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
13 2 0.04
14 20 0.43
15 6 0.13
16 9 0.19
17 5 0.11
18 1 0.02
19 4 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATATTATTATTT
Found at i:10568316 original size:15 final size:15
Alignment explanation
Indices: 10568298--10568348 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
10568288 TAATTATTTA
10568298 TTTATTATGTATTAT
1 TTTATTATGTATTAT
**
10568313 TTTAAGATGATATT-T
1 TTTATTATG-TATTAT
*
10568328 TTATATTATGTGTTAT
1 TT-TATTATGTATTAT
10568344 TTTAT
1 TTTAT
10568349 AAATTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (15 bp):
TTTATTATGTATTAT
Found at i:10568597 original size:2 final size:2
Alignment explanation
Indices: 10568546--10568588 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10568536 CATTTCATTT
10568546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10568588 T
1 T
10568589 TGCATATATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10568757 original size:2 final size:2
Alignment explanation
Indices: 10568750--10568782 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10568740 CAATACATGC
10568750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10568783 CTTTGTATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10575095 original size:29 final size:29
Alignment explanation
Indices: 10575059--10575192 Score: 180
Period size: 29 Copynumber: 4.6 Consensus size: 29
10575049 AATAAACGAT
*
10575059 CTCGCACACTTAGTGCCATGCAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
*
10575088 CTCGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* *
10575117 TTCGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* * *
10575146 TTCGCACACTTAGTGCCATAC-CTTCCAAG
1 CTCGCACACTTAGTGCCATACAATT-TAAG
*
10575175 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
10575193 ATCTTGTCAC
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
28 2 0.02
29 94 0.98
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATACAATTTAAG
Found at i:10577464 original size:46 final size:46
Alignment explanation
Indices: 10577414--10577682 Score: 230
Period size: 46 Copynumber: 5.8 Consensus size: 46
10577404 TGTTTGGGCA
10577414 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
10577460 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
10577507 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
10577553 TTCGAACTCGTTGAGTTGAGTCCGAATTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
10577598 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10577646 -CCCAAGCTCGTTGAGTTAAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10577683 GCAGGTTACA
Statistics
Matches: 177, Mismatches: 29, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.01
43 6 0.03
44 2 0.01
45 8 0.05
46 87 0.49
47 58 0.33
48 4 0.02
49 3 0.02
50 5 0.03
51 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10577529 original size:47 final size:47
Alignment explanation
Indices: 10577410--10577628 Score: 195
Period size: 47 Copynumber: 4.7 Consensus size: 47
10577400 AGGATGTTTG
*** *
10577410 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
10577453 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
10577503 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAA--A
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--GA--GATGTAACTA
* * * *
10577551 TG--TTCGAACTCGTTGAGTTGAGTCCGAATTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
10577596 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
10577629 ACTCATGGAT
Statistics
Matches: 140, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
43 7 0.05
44 2 0.01
45 3 0.02
46 56 0.40
47 58 0.41
48 4 0.03
49 3 0.02
50 7 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:10577569 original size:93 final size:93
Alignment explanation
Indices: 10577410--10577675 Score: 426
Period size: 93 Copynumber: 2.9 Consensus size: 93
10577400 AGGATGTTTG
10577410 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
10577475 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
10577503 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
* *
10577568 TTGAGTCCGAATTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
10577596 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA-CTCGTTGA
*
10577660 GTTAAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
10577676 CTTATGGGCA
Statistics
Matches: 158, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 3 0.02
93 155 0.98
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:10579266 original size:20 final size:21
Alignment explanation
Indices: 10579241--10579281 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10579231 TTTATTGAAC
10579241 ATTTAAT-TTTCAATTTATAT
1 ATTTAATGTTTCAATTTATAT
*
10579261 ATTTAATGTTTCCATTTATAT
1 ATTTAATGTTTCAATTTATAT
10579282 TAGTATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTAATGTTTCAATTTATAT
Found at i:10583997 original size:24 final size:24
Alignment explanation
Indices: 10583937--10583985 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10583927 AAAATAAATG
10583937 TATGAAAATATTAATTATGTATTA
1 TATGAAAATATTAATTATGTATTA
10583961 TATGAAAATATTAATTATGTATTA
1 TATGAAAATATTAATTATGTATTA
10583985 T
1 T
10583986 TTACCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (24 bp):
TATGAAAATATTAATTATGTATTA
Found at i:10583999 original size:27 final size:24
Alignment explanation
Indices: 10583941--10584001 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 24
10583931 TAAATGTATG
**
10583941 AAAATATTAATTATGTATTATATG
1 AAAATATTAATTATGTATTATACC
10583965 AAAATATTAATTATGTATTATTTACC
1 AAAATATTAATTATGTATTA--TACC
10583991 AAAATTATTAA
1 AAAA-TATTAA
10584002 AATAAAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 20 0.62
26 6 0.19
27 6 0.19
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (24 bp):
AAAATATTAATTATGTATTATACC
Found at i:10587340 original size:19 final size:18
Alignment explanation
Indices: 10587303--10587346 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10587293 ATACATACAG
10587303 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
10587320 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
10587339 TACTAATT
1 TAATAATT
10587347 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:10600495 original size:15 final size:15
Alignment explanation
Indices: 10600475--10600504 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10600465 ATTGACACAA
10600475 GAAGAATAAGTCACT
1 GAAGAATAAGTCACT
10600490 GAAGAATAAGTCACT
1 GAAGAATAAGTCACT
10600505 TCCAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GAAGAATAAGTCACT
Found at i:10610475 original size:17 final size:17
Alignment explanation
Indices: 10610442--10610487 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
10610432 GCCATCACTT
*
10610442 AAAAATTTAAAAAAAAA
1 AAAAATTTAAAAAATAA
10610459 TACATAAATTTAAAAAATAA
1 -A-A-AAATTTAAAAAATAA
10610479 AAAAATTTA
1 AAAAATTTA
10610488 TAAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 2 0.08
20 14 0.56
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTTAAAAAATAA
Found at i:10615815 original size:12 final size:13
Alignment explanation
Indices: 10615793--10615817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10615783 CAATAAACAG
10615793 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
10615806 AAAGAAAAAAAA
1 AAAGAAAAAAAA
10615818 CTATTTTTTT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:10615926 original size:15 final size:17
Alignment explanation
Indices: 10615898--10615933 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
10615888 TCTTTCTGTT
10615898 TTTTCTACTCTTT-CAA
1 TTTTCTACTCTTTCCAA
10615914 TTTTCTA-TCTTTCCAA
1 TTTTCTACTCTTTCCAA
10615930 TTTT
1 TTTT
10615934 GTGTCTATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCTACTCTTTCCAA
Found at i:10619256 original size:46 final size:46
Alignment explanation
Indices: 10619204--10619467 Score: 381
Period size: 46 Copynumber: 5.7 Consensus size: 46
10619194 TGATGCCATG
* * * *
10619204 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
*** **
10619250 TCTTTCAACCATGGTCTTGTTCA-TTTCATATCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTA
10619296 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTA
*
10619342 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
*
10619388 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
10619434 TCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCAG
10619468 AGAGCACACT
Statistics
Matches: 202, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 7 0.03
46 192 0.95
47 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
Found at i:10619452 original size:138 final size:138
Alignment explanation
Indices: 10619204--10619467 Score: 429
Period size: 138 Copynumber: 1.9 Consensus size: 138
10619194 TGATGCCATG
* * * * * *
10619204 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
**
10619269 TTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
66 CACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
10619334 CCATGGTA
131 CCATGGTA
10619342 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
* **
10619407 CACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66 CACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10619468 AGAGCACACT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 115 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
CCATGGTA
Found at i:10619467 original size:92 final size:92
Alignment explanation
Indices: 10619204--10619468 Score: 422
Period size: 92 Copynumber: 2.9 Consensus size: 92
10619194 TGATGCCATG
* * * * * *
10619204 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
10619269 TTCATTTCATATCACATTGCCATGGTA
66 CACATTTCATATCAGATTGCCATGGTA
*
10619296 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
10619361 CACATTTTATATCAGGTTGCCATGGTA
66 CACATTTCATATCAGATTGCCATGGTA
10619388 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
10619453 CACATTTCATATCAGA
66 CACATTTCATATCAGA
10619469 GAGCACACTC
Statistics
Matches: 158, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 158 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCAGATTGCCATGGTA
Found at i:10621615 original size:11 final size:11
Alignment explanation
Indices: 10621599--10621650 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
10621589 TATACTAAAT
10621599 AAATAATAATA
1 AAATAATAATA
*
10621610 AAATAAT-ATT
1 AAATAATAATA
* *
10621620 AAATATCTCATA
1 AAATA-ATAATA
*
10621632 AAATATTAATA
1 AAATAATAATA
10621643 AAATAATA
1 AAATAATA
10621651 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:10625510 original size:14 final size:13
Alignment explanation
Indices: 10625486--10625523 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
10625476 CAAAATGTAC
10625486 AATATAATTAAAT
1 AATATAATTAAAT
10625499 AATATAAATTAAAT
1 AATAT-AATTAAAT
*
10625513 AATTTAATTAA
1 AATATAATTAA
10625524 CTGCTTACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:10628345 original size:23 final size:23
Alignment explanation
Indices: 10628292--10628372 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
10628282 GAAATTTTAA
*
10628292 AATAATAATAATAAATAATAAAT
1 AATAATTATAATAAATAATAAAT
* * *
10628315 AATTATTATTATAAATTATAAAT
1 AATAATTATAATAAATAATAAAT
* * * *
10628338 TATAATTACAAT-ATTAATTAAAA
1 AATAATTATAATAAATAA-TAAAT
10628361 AATAATATATAA
1 AATAAT-TATAA
10628373 AGTAAAATTA
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
22 3 0.07
23 36 0.84
24 4 0.09
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (23 bp):
AATAATTATAATAAATAATAAAT
Found at i:10629079 original size:7 final size:7
Alignment explanation
Indices: 10629067--10629120 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
10629057 TTCTTAGGTA
10629067 TATATAT
1 TATATAT
10629074 TATATAT
1 TATATAT
10629081 TAT-TAT
1 TATATAT
*
10629087 TAATAGAT
1 T-ATATAT
10629095 TATATTAT
1 TATA-TAT
*
10629103 AATTATAT
1 TA-TATAT
10629111 TATATAT
1 TATATAT
10629118 TAT
1 TAT
10629121 GAAACAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 4 0.10
7 23 0.59
8 10 0.26
9 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:10629414 original size:19 final size:18
Alignment explanation
Indices: 10629385--10629420 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10629375 GATACTTATT
*
10629385 ATATTTATTATTTAATTG
1 ATATTTATTATTAAATTG
10629403 ATATTATATTATTAAATT
1 ATATT-TATTATTAAATT
10629421 AATGAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTTATTATTAAATTG
Found at i:10631014 original size:24 final size:24
Alignment explanation
Indices: 10630982--10631031 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
10630972 GCCATACACT
10630982 CCATGTGGGGAATAGCTCAACCCA
1 CCATGTGGGGAATAGCTCAACCCA
10631006 CCATGTGGGGAATAGCTCAACCCA
1 CCATGTGGGGAATAGCTCAACCCA
10631030 CC
1 CC
10631032 CAGCCCAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (24 bp):
CCATGTGGGGAATAGCTCAACCCA
Found at i:10632743 original size:26 final size:26
Alignment explanation
Indices: 10632707--10632815 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
10632697 AATGAAATTC
10632707 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
10632733 TTATCATGAAACATTTGCCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
10632758 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
10632784 TTATCAT-AGAATATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCCA
10632810 TTATCA
1 TTATCA
10632816 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
25 25 0.32
26 52 0.68
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10632787 original size:51 final size:52
Alignment explanation
Indices: 10632707--10632815 Score: 168
Period size: 51 Copynumber: 2.1 Consensus size: 52
10632697 AATGAAATTC
*
10632707 TTATCATGAAACATTTACCTAACCCATTATCAT-GAAACATTTGCCTAACC-A
1 TTATCATGAAACATTTACCTAACCCATTATCATAG-AACATTTACCTAACCTA
* *
10632758 TTATCATGAAACATTTACCTAACCTATTATCATAGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCTA
10632810 TTATCA
1 TTATCA
10632816 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
51 45 0.85
52 8 0.15
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCTA
Found at i:10633484 original size:18 final size:17
Alignment explanation
Indices: 10633445--10633496 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
10633435 TGATTGAATT
10633445 GTTGAATTGAAAGAGAA
1 GTTGAATTGAAAGAGAA
* * *
10633462 TTTGAGATTTAAAGTGAA
1 GTTGA-ATTGAAAGAGAA
*
10633480 GTTGAATTGAATGAGAA
1 GTTGAATTGAAAGAGAA
10633497 ATATGTGTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (17 bp):
GTTGAATTGAAAGAGAA
Found at i:10641299 original size:22 final size:20
Alignment explanation
Indices: 10641269--10641330 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
10641259 AAAGGTATAT
*
10641269 ATATATACATAATATATAAA
1 ATATTTACATAATATATAAA
*
10641289 ATGCATTTACA-ATATGATGTTAAA
1 AT--ATTTACATA-AT-AT-ATAAA
10641313 ATATTTACATAATATATA
1 ATATTTACATAATATATA
10641331 CATACCATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 17 0.52
23 3 0.09
24 6 0.18
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATTTACATAATATATAAA
Found at i:10641479 original size:24 final size:23
Alignment explanation
Indices: 10641451--10641521 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
10641441 AGGATAAGAT
10641451 ATATAAAAAAATATACATGATATA
1 ATATAAAAAAATATA-ATGATATA
*
10641475 GTATAAAAAATATATAACT-A-ATA
1 ATATAAAAAA-ATATAA-TGATATA
*
10641498 ATATTAAAAAATATATATGATATA
1 ATATAAAAAAATATA-ATGATATA
10641522 TACATAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 6 0.15
23 13 0.33
24 14 0.36
25 6 0.15
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (23 bp):
ATATAAAAAAATATAATGATATA
Found at i:10641529 original size:24 final size:23
Alignment explanation
Indices: 10641448--10641529 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
10641438 ATAAGGATAA
*
10641448 GATATAT-A-AAAAAATATACAT
1 GATATATAATAAAAAATATATAT
10641469 GATATAGT-ATAAAAAATATATAACT
1 GATATA-TAATAAAAAATATAT-A-T
* *
10641494 AATA-ATATTAAAAAATATATAT
1 GATATATAATAAAAAATATATAT
10641516 GATATATACATAAA
1 GATATATA-ATAAA
10641530 CATATACGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.12
22 6 0.12
23 15 0.31
24 18 0.37
25 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (23 bp):
GATATATAATAAAAAATATATAT
Found at i:10642018 original size:19 final size:18
Alignment explanation
Indices: 10641994--10642029 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10641984 AATATGTTCA
10641994 CAACAACAATAATAATAAG
1 CAACAACAAT-ATAATAAG
*
10642013 CAACAATAATATAATAA
1 CAACAACAATATAATAA
10642030 TAATATGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.14, G:0.03, T:0.19
Consensus pattern (18 bp):
CAACAACAATATAATAAG
Found at i:10643958 original size:90 final size:90
Alignment explanation
Indices: 10643790--10644176 Score: 337
Period size: 90 Copynumber: 4.3 Consensus size: 90
10643780 CGATCCTGAG
* * * * * **
10643790 CTCAACTCCCGCAATATGAGTTGGTCTTTTTTGAAACT-TAATTTGAAAAG-A-AGATTTTGAAA
1 CTCACCTCTCGCAATATGAGTTGAT-TTTTTTTAAA-TATAAATT-AAAAGAACAGAAATTGAAA
* * *
10643852 ATACCT-TGACATGTGAACCAAGACCCAA
63 ATACCTCAG-CATGTGAACCAAGGCTCAA
*
10643880 CTCACTTCTCGCAATATGAGTTGATTTTTTTTAAATATAAATTAAAAGAACAGAAATTGAAAATA
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTTAAATATAAATTAAAAGAACAGAAATTGAAAATA
*
10643945 CCTCAGCACGTGAACCAAGGCTCAA
66 CCTCAGCATGTGAACCAAGGCTCAA
* ** * * * ** **
10643970 CTCACCTCTCGCAATATGAGTTGA-TTCTTGAAAACAGAATTTGCAA-AACAGATTTTGAAAATA
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTTAAATATAAATTAAAAGAACAGAAATTGAAAATA
* * **
10644033 CCTCGGCATGTGACCCGCGGCTCAA
66 CCTCAGCATGTGAACCAAGGCTCAA
*
10644058 CTCACCTCTCGTAATATGAGTTGATTTTTTTTGAAAAATATAAATT--AAGAAGCAGAAATTGAA
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTT---AAATATAAATTAAAAGAA-CAGAAATTGAA
* *
10644121 AATACCTCAGC--GTG-CCCTGAGGCTCAA
62 AATACCTCAGCATGTGAACC-AAGGCTCAA
* *
10644148 CTCACCTCCCACAATATGAGTTGATTTTT
1 CTCACCTCTCGCAATATGAGTTGATTTTT
10644177 GAAAAACAGA
Statistics
Matches: 244, Mismatches: 42, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
88 64 0.26
89 36 0.15
90 114 0.47
91 3 0.01
92 27 0.11
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (90 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTTTTAAATATAAATTAAAAGAACAGAAATTGAAAATA
CCTCAGCATGTGAACCAAGGCTCAA
Found at i:10644030 original size:13 final size:13
Alignment explanation
Indices: 10643992--10644030 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
10643982 AATATGAGTT
10643992 GATTCTTGAAAACA
1 GATT-TTGAAAACA
*
10644006 GAATTTGCAAAACA
1 GATTTTG-AAAACA
10644020 GATTTTGAAAA
1 GATTTTGAAAA
10644031 TACCTCGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (13 bp):
GATTTTGAAAACA
Found at i:10644146 original size:178 final size:176
Alignment explanation
Indices: 10643832--10644195 Score: 475
Period size: 178 Copynumber: 2.0 Consensus size: 176
10643822 GAAACTTAAT
* * *
10643832 TTGAAAAGAAGATTTTGAAAATACCTTGACATGTGAACCAAGACCCAACTCACTTCTCGCAATAT
1 TTGAAAA-CAGATTTTGAAAATACCTCGACATGTGAACCAAGACCCAACTCACCTCTCGCAATAT
10643897 GAGTTGATTTTTTTTAAATATAAATTAAAAGAACAGAAATTGAAAATACCTCAGCACGTGAACCA
65 GAGTTGATTTTTTTTAAATATAAATTAAAAG-ACAGAAATTGAAAATACCTCAG-ACGTGAACCA
* * *
10643962 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTG-AAAACAGAAT
128 AGGCTCAACTCACCTCCCACAATATGAGTTGATTCTTGAAAAACAGAAG
* * ** * * *
10644010 TTGCAAAACAGATTTTGAAAATACCTCGGCATGTGACCCGCGGCTCAACTCACCTCTCGTAATAT
1 TTG-AAAACAGATTTTGAAAATACCTCGACATGTGAACCAAGACCCAACTCACCTCTCGCAATAT
*
10644075 GAGTTGATTTTTTTTGAAAAATATAAATTAAGAAG-CAGAAATTGAAAATACCTCAG-CGTG-CC
65 GAGTTGATTTTTTTT---AAATATAAATTAA-AAGACAGAAATTGAAAATACCTCAGACGTGAAC
* *
10644137 CTGAGGCTCAACTCACCTCCCACAATATGAGTTGATTTTTGAAAAACAGAAG
126 C-AAGGCTCAACTCACCTCCCACAATATGAGTTGATTCTTGAAAAACAGAAG
10644189 TTGAAAA
1 TTGAAAA
10644196 TACCTCAGCG
Statistics
Matches: 163, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
177 2 0.01
178 108 0.66
179 16 0.10
180 21 0.13
181 13 0.08
182 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (176 bp):
TTGAAAACAGATTTTGAAAATACCTCGACATGTGAACCAAGACCCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTAAATATAAATTAAAAGACAGAAATTGAAAATACCTCAGACGTGAACCAAGG
CTCAACTCACCTCCCACAATATGAGTTGATTCTTGAAAAACAGAAG
Found at i:10644455 original size:76 final size:76
Alignment explanation
Indices: 10644110--10644547 Score: 488
Period size: 74 Copynumber: 5.9 Consensus size: 76
10644100 AATTAAGAAG
* *
10644110 CAGAAATTGAAAATACCTCAGCGTGC--CCTGAGGCTCAACTCACCTCCCACAATATGAGTTGA-
1 CAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
10644172 TTTTTGAAAAA
66 TTTTTGAAAAA
* * **
10644183 CAGAAGTTGAAAATACCTCAGCGT--GACCTGAAGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 CAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
10644246 TTTTT--TAAA
66 TTTTTGAAAAA
* * * * * * * * * *
10644255 CATAAATTGAAAATACCTCGGCATGTGACCCGAGGTTCAACTCACCTCTAGCGACATGAATTGAT
1 CAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
10644320 TTTTTGAAAAA
66 TTTTTGAAAAA
* * *
10644331 CATAAATTGAAAATATCTTAGCGTGTC--CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGCGTG-CGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
10644393 TTTTTTTGAAAAA
65 -TTTTTTGAAAAA
* * * * * *
10644406 TAGAAACT-AAAATTCCTCAGCGTGCGACCTGAGGCTCAACTTACATCTCGCAATATGATTTGAT
1 CAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
10644470 TTTTTGACAAA
66 TTTTTGAAAAA
* * * *
10644481 CAGAAATTGAAATTACCTCAGCAT--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 CAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
10644544 TTTT
66 TTTT
10644548 GAACACAAAA
Statistics
Matches: 301, Mismatches: 51, Indels: 25
0.80 0.14 0.07
Matches are distributed among these distances:
72 23 0.08
73 55 0.18
74 119 0.40
75 38 0.13
76 66 0.22
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (76 bp):
CAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGAAAAA
Done.