Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003869.1 Hibiscus syriacus cultivar Beakdansim tig00008331_pilon, whole genome shotgun sequence
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: 59754
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:1592 original size:15 final size:15
Alignment explanation
Indices: 1563--1606 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
1553 TAATTTCTTT
*
1563 TTTTCTTCTTCTTTCC
1 TTTTC-TCTTTTTTCC
*
1579 TTTTCTCTTTTTTCT
1 TTTTCTCTTTTTTCC
1594 TTATTCTCTTTTT
1 TT-TTCTCTTTTT
1607 CTTTTTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTCTTTTTTCC
Found at i:1607 original size:15 final size:16
Alignment explanation
Indices: 1581--1610 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1571 TTCTTTCCTT
1581 TTCTCTTTTTTCTTTA
1 TTCTCTTTTTTCTTTA
1597 TTCTC-TTTTTCTTT
1 TTCTCTTTTTTCTTT
1611 TTGATGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTCTTTTTTCTTTA
Found at i:9718 original size:15 final size:15
Alignment explanation
Indices: 9698--9947 Score: 141
Period size: 15 Copynumber: 16.5 Consensus size: 15
9688 TAATAAGGTT
9698 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
9713 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
9728 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
9743 ATTTA-TTT----TA
1 ATTTATTTTAAAATA
*
9753 A-TTATTATAAAATA
1 ATTTATTTTAAAATA
*
9767 ATTTATTTTGAAATA
1 ATTTATTTTAAAATA
* *
9782 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
9801 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
9819 ATTTA-TTT----TA
1 ATTTATTTTAAAATA
*
9829 A-TTATTATAAAATA
1 ATTTATTTTAAAATA
*
9843 ATTTATTTTGAAATA
1 ATTTATTTTAAAATA
* *
9858 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
9877 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
9895 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* * *
9909 ATTTATTAGTACGGATTA
1 ATTTATT-TTA--AAATA
9927 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
9941 ATTTATT
1 ATTTATT
9948 AGTATGGATT
Statistics
Matches: 181, Mismatches: 24, Indels: 61
0.68 0.09 0.23
Matches are distributed among these distances:
9 6 0.03
10 10 0.06
14 33 0.18
15 83 0.46
16 6 0.03
17 5 0.03
18 12 0.07
19 2 0.01
20 4 0.02
21 8 0.04
22 12 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:9762 original size:24 final size:24
Alignment explanation
Indices: 9730--9851 Score: 131
Period size: 24 Copynumber: 4.9 Consensus size: 24
9720 TTAAAATAAT
9730 TTATTATAAAATAATTTATTTTAA
1 TTATTATAAAATAATTTATTTTAA
9754 TTATTATAAAATAATTTATTTTGAAATAAA
1 TTATTATAAAATAATTTA-TTT----T-AA
** * *
9784 TTATTATAAAAT-ATGGA-TTGAT
1 TTATTATAAAATAATTTATTTTAA
*
9806 TTATTTTAAAATAATTTATTTTAA
1 TTATTATAAAATAATTTATTTTAA
9830 TTATTATAAAATAATTTATTTT
1 TTATTATAAAATAATTTATTTT
9852 GAAATAAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
22 12 0.15
23 3 0.04
24 42 0.52
25 3 0.04
27 2 0.03
29 4 0.05
30 14 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (24 bp):
TTATTATAAAATAATTTATTTTAA
Found at i:9769 original size:54 final size:52
Alignment explanation
Indices: 9700--9851 Score: 181
Period size: 54 Copynumber: 3.0 Consensus size: 52
9690 ATAAGGTTAT
9700 TTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
1 TTATTTTAAAATAATTTATTTT-AAATAA-TTATTATAAAATAATTTATTTTAA
* ** * *
9754 TTATTATAAAATAATTTATTTTGAAATAAATTATTATAAAAT-ATGGA-TTGAT
1 TTATTTTAAAATAATTTATTTT-AAAT-AATTATTATAAAATAATTTATTTTAA
9806 TTATTTTAAAATAATTTA-TTT---TAATTATTATAAAATAATTTATTTT
1 TTATTTTAAAATAATTTATTTTAAATAATTATTATAAAATAATTTATTTT
9852 GAAATAAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
46 14 0.16
47 4 0.05
48 2 0.02
51 3 0.04
52 20 0.24
53 3 0.04
54 37 0.44
55 2 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (52 bp):
TTATTTTAAAATAATTTATTTTAAATAATTATTATAAAATAATTTATTTTAA
Found at i:9816 original size:76 final size:76
Alignment explanation
Indices: 9728--9905 Score: 347
Period size: 76 Copynumber: 2.3 Consensus size: 76
9718 TTTTAAAATA
*
9728 ATTTATTATAAAATAATTTATTTTAATTATTATAAAATAATTTATTTTGAAATAAATTATTATAA
1 ATTTATTTTAAAATAATTTATTTTAATTATTATAAAATAATTTATTTTGAAATAAATTATTATAA
9793 AATATGGATTG
66 AATATGGATTG
9804 ATTTATTTTAAAATAATTTATTTTAATTATTATAAAATAATTTATTTTGAAATAAATTATTATAA
1 ATTTATTTTAAAATAATTTATTTTAATTATTATAAAATAATTTATTTTGAAATAAATTATTATAA
9869 AATATGGATTG
66 AATATGGATTG
9880 ATTTATTTTAAAATAATTTATTTTAA
1 ATTTATTTTAAAATAATTTATTTTAA
9906 ATAATTTATT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 101 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (76 bp):
ATTTATTTTAAAATAATTTATTTTAATTATTATAAAATAATTTATTTTGAAATAAATTATTATAA
AATATGGATTG
Found at i:9818 original size:37 final size:37
Alignment explanation
Indices: 9767--9906 Score: 163
Period size: 37 Copynumber: 3.7 Consensus size: 37
9757 TTATAAAATA
*
9767 ATTTATTTTGAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
* * * ** * *
9804 ATTTATTTTAAAATAATTTATTTTAATTATTATAAAATA
1 ATTTATTTTAAAATAAATTATTATAA--AATATGGATTG
*
9843 ATTTATTTTGAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
* *
9880 ATTTATTTTAAAATAATTTATTTTAAA
1 ATTTATTTTAAAATAAATTATTATAAA
9907 TAATTTATTA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
37 53 0.65
39 29 0.35
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (37 bp):
ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
Found at i:9909 original size:14 final size:14
Alignment explanation
Indices: 9880--9947 Score: 73
Period size: 14 Copynumber: 4.5 Consensus size: 14
9870 ATATGGATTG
9880 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
9895 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
9909 ATTTATTAGTACGGATTA
1 ATTTATT-TTA---AATA
9927 ATTTATTTTAAATA
1 ATTTATTTTAAATA
9941 ATTTATT
1 ATTTATT
9948 AGTATGGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
14 22 0.49
15 11 0.24
17 2 0.04
18 10 0.22
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:9931 original size:32 final size:32
Alignment explanation
Indices: 9895--10468 Score: 268
Period size: 32 Copynumber: 17.4 Consensus size: 32
9885 TTTTAAAATA
* *
9895 ATTTATTTTAAATAATTTATTAGTACGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
9927 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
9959 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
9981 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
10013 ATTTATTTTAAAATATGGATTGATT--TAT-TATTG
1 ATTTATTTT-AAATA---ATTTATTAGTATGGATTG
* * * * * *
10046 TAGTTGTA-TGT-ATTGATTTATTTTA-AAT-AATTT
1 -A-TT-TATTTTAAATAATTTA--TTAGTATGGATTG
* * * * *
10079 ATTAGTATGGATTGATTTATTT-TTAAATATGGATTG
1 ATT--TAT--TTTAAATAATTTATT-AGTATGGATTG
10115 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
10147 ATTTATTTTAAATAATTTATTCGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
10179 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTA-TGGA-TTG
* *
10218 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 -AT--TTA------TTTTAAATAATTTATTAGTATGGATTG
*
10259 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
10291 ATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
1 ATTTATTTT--AA-AT-AATTTA-TTAGTA-TGGA-TTG
* *
10330 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 -AT--TTA------TTTTAAATAATTTATTAGTATGGATTG
*
10371 ATTTA-TTT---TAA---A--A-TATGGTTTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
10393 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
10425 ATTTATTTTAAATAATTTATTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
10457 ATTTATTTTAAA
1 ATTTATTTTAAA
10469 ATATGGATTG
Statistics
Matches: 421, Mismatches: 50, Indels: 142
0.69 0.08 0.23
Matches are distributed among these distances:
22 27 0.06
23 8 0.02
25 2 0.00
26 6 0.01
28 6 0.01
29 2 0.00
30 4 0.01
31 10 0.02
32 202 0.48
33 25 0.06
34 10 0.02
35 9 0.02
36 30 0.07
37 8 0.02
38 8 0.02
39 6 0.01
40 8 0.02
41 6 0.01
42 8 0.02
43 10 0.02
44 9 0.02
45 2 0.00
46 2 0.00
47 5 0.01
48 8 0.02
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:9931 original size:47 final size:52
Alignment explanation
Indices: 9826--10001 Score: 161
Period size: 54 Copynumber: 3.5 Consensus size: 52
9816 ATAATTTATT
* *
9826 TTAA-TTATTATAAAATAATTTATTTTGAAATAAATTATTATAAAATATGGA
1 TTAATTTATTTTAAAATAATTTATTTTGAAATAAATTATTATAAAATACGGA
* * *
9877 TTGATTTATTTTAAAATAATTTATTTT-AAAT-AA-T-TTAT-TAGTACGGA
1 TTAATTTATTTTAAAATAATTTATTTTGAAATAAATTATTATAAAATACGGA
* * * * * *
9924 TTAATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGA
1 TTAATTTATTTTAAAATAATTTATT--T-TGAAATAAATTATTATAAAATACGGA
*
9978 TTGATTTATTTT-AAATAATTTATT
1 TTAATTTATTTTAAAATAATTTATT
10002 AGTATGGATT
Statistics
Matches: 102, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
46 12 0.12
47 17 0.17
48 5 0.05
49 2 0.02
50 4 0.04
51 8 0.08
52 22 0.22
53 3 0.03
54 29 0.28
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (52 bp):
TTAATTTATTTTAAAATAATTTATTTTGAAATAAATTATTATAAAATACGGA
Found at i:9966 original size:22 final size:22
Alignment explanation
Indices: 9950--9992 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9940 AATTTATTAG
9950 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
9972 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
9993 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:10091 original size:80 final size:80
Alignment explanation
Indices: 9972--10270 Score: 492
Period size: 80 Copynumber: 3.7 Consensus size: 80
9962 TATTTTAAAA
9972 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
10037 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
10052 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
10117 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
*
10138 TATGGATTGATTTATTTTAAATAATTTATTCGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
10203 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
10218 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
10271 TAATTTATTT
Statistics
Matches: 203, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
80 122 0.60
81 2 0.01
82 4 0.02
84 4 0.02
85 2 0.01
86 69 0.34
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:10097 original size:112 final size:115
Alignment explanation
Indices: 9972--10548 Score: 367
Period size: 112 Copynumber: 4.9 Consensus size: 115
9962 TATTTTAAAA
9972 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
10037 TTA-TT-AT-TGTAGTT-GTATGTATTGATTTATTTTAAATAATTTATTAG
66 TTATTTAATATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAG
** ** * ** * * *
10084 TATGGATTGATTTATTTTTAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTA-TTTTAAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
*
10146 GATTTATTTTAAATAATTTATTCGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT
63 GATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--
10211 G
115 G
* *
10212 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTT
1 TA--TGGATTGA----TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--T
* * * * * * *
10277 ATTTGTATGGATTGATTT-AT-TTTA-AAATATGAATTGATTTA--TT--AT--TGTAGTT-G
56 A--TGGATTGATTTATTTAATATTTATTAGTATGGATTGATTTATTTTAAATAATTTA-TTAG
*
10330 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGTTTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
10395 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTG
66 TTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
* ** ** *
10448 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-ATTGTA-TTT---GTATGGATTG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TATTTTAAAATATGGATTG
10505 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
64 ATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAAA
10549 ATATGAATTG
Statistics
Matches: 365, Mismatches: 49, Indels: 102
0.71 0.09 0.20
Matches are distributed among these distances:
106 8 0.02
107 3 0.01
108 2 0.01
109 2 0.01
110 5 0.01
111 16 0.04
112 140 0.38
113 8 0.02
114 4 0.01
115 6 0.02
116 17 0.05
117 6 0.02
118 53 0.15
120 5 0.01
121 4 0.01
123 1 0.00
126 8 0.02
127 2 0.01
128 3 0.01
130 6 0.02
132 2 0.01
133 8 0.02
134 22 0.06
135 13 0.04
136 5 0.01
137 2 0.01
138 2 0.01
139 3 0.01
140 9 0.02
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (115 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTAATATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:10125 original size:21 final size:22
Alignment explanation
Indices: 10084--10128 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10074 AATTTATTAG
10084 TATGGATTGATTTATTTTTAAA
1 TATGGATTGATTTATTTTTAAA
10106 TATGGATTGATTTA-TTTTAAA
1 TATGGATTGATTTATTTTTAAA
10127 TA
1 TA
10129 ATTTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTTAAA
Found at i:10278 original size:278 final size:278
Alignment explanation
Indices: 9972--10548 Score: 1082
Period size: 278 Copynumber: 2.1 Consensus size: 278
9962 TATTTTAAAA
*
9972 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
*
10037 TTATTATTGTAGTTGTATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
10102 TAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
*
10167 TCGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTA
196 TCGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTA
10232 TTTTAAATAATTTATTAG
261 TTTTAAATAATTTATTAG
*
10250 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
10315 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
10380 AAAATATGGTTTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
* *
10445 TTGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTTGTATGGATTGATTTA
196 TCGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTA
10510 TTTTAAATAATTTATTAG
261 TTTTAAATAATTTATTAG
10528 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
10549 ATATGAATTG
Statistics
Matches: 291, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
278 291 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (278 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
TCGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTA
TTTTAAATAATTTATTAG
Found at i:10333 original size:80 final size:79
Alignment explanation
Indices: 10244--10565 Score: 491
Period size: 80 Copynumber: 3.9 Consensus size: 79
10234 TTAAATAATT
*
10244 TATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGA
1 TATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
10309 ATTGATTTATTATTG
65 ATTGATTTATTATTG
*
10324 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
1 TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
* *
10389 TTTGATTTATTTTAAATAATT
65 ATTGATTTA--TT--AT--TG
* * *
10410 TATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGG
1 TATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
10475 ATTGATTTATTATTG
65 ATTGATTTATTATTG
10490 TATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
1 TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
10555 ATTGATTTATT
65 ATTGATTTATT
10566 TTAAATAATT
Statistics
Matches: 222, Mismatches: 11, Indels: 18
0.88 0.04 0.07
Matches are distributed among these distances:
80 139 0.63
81 4 0.02
82 4 0.02
84 4 0.02
85 2 0.01
86 69 0.31
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.54
Consensus pattern (79 bp):
TATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAA
TTGATTTATTATTG
Found at i:10387 original size:22 final size:22
Alignment explanation
Indices: 10362--10404 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10352 AATTTATTAG
10362 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
10384 TATGGTTTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
10405 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:10460 original size:18 final size:18
Alignment explanation
Indices: 10407--10464 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
10397 ATTTTAAATA
* *
10407 ATTTATTAGTATGGATTG
1 ATTTATTTGTATAGATTG
*
10425 ATTTATTT-TA-A-A-TA
1 ATTTATTTGTATAGATTG
10439 ATTTATTTGTATAGATTG
1 ATTTATTTGTATAGATTG
10457 ATTTATTT
1 ATTTATTT
10465 TAAAATATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.28
15 3 0.09
16 1 0.03
17 3 0.09
18 16 0.50
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (18 bp):
ATTTATTTGTATAGATTG
Found at i:10517 original size:166 final size:163
Alignment explanation
Indices: 9895--10580 Score: 750
Period size: 166 Copynumber: 4.1 Consensus size: 163
9885 TTTTAAAATA
* * * *
9895 ATTTATTTTAAATAATTTATTAGTACGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGA
* *
9960 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
66 TTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATGTATTTGTATGGATTGATTTATTTTAAA
* * *** *
10025 ATATGGATTGATTTATTATTGTAGTTGTATGTATTG
128 ATATGGATGGATTGATTATTGTAGAAATATGGATTG
* * *
10061 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAAATATGGATTGATTTATTTTA-
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTTAAATA---ATTTATTT-GTATAG
* * * * *
10125 AATAATTTA--TT--AGTATGGATTGATTTATTTTAAATAATTTATTCGTATGGATTGATTTATT
61 ATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATGTATTTGTATGGATTGATTTATT
* * ***
10186 TTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
123 TTAAAATATGGATGGATTGATTATTGTAGAAATATGGATTG
*
10227 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGA
* *
10292 TTTATTTTAAAATATGAATTGATTTA-TT-AT-TGTAGTTGTATGGATTGATTTATTTTAAATAA
66 TTTATTTTAAAATATGGATTGATTTATTTAATATGTATTTGTATGGATTGATTTATTTT-AA-AA
* * *
10354 TTTATTAGTATGGATTGATTTATTTTA-AAATATGGTTTG
129 --TA-T-GGATGGATTGA-TTATTGTAGAAATATGGATTG
10393 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGA
10458 TTTATTTTAAAATATGGATTGATTTA-TT-AT-TGTATTTGTATGGATTGATTTATTTTAAATAA
66 TTTATTTTAAAATATGGATTGATTTATTTAATATGTATTTGTATGGATTGATTTATTTT-AA-AA
* * *
10520 TTTATTAGTATGGATTGATTTATTTTA-AAATATGAATTG
129 --TA-T-GGATGGATTGA-TTATTGTAGAAATATGGATTG
10559 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
10581 TTGTAGTTGT
Statistics
Matches: 467, Mismatches: 36, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
160 23 0.05
161 4 0.01
162 18 0.04
164 6 0.01
165 10 0.02
166 373 0.80
167 16 0.03
168 2 0.00
170 13 0.03
171 2 0.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (163 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGA
TTTATTTTAAAATATGGATTGATTTATTTAATATGTATTTGTATGGATTGATTTATTTTAAAATA
TGGATGGATTGATTATTGTAGAAATATGGATTG
Found at i:10553 original size:22 final size:22
Alignment explanation
Indices: 10528--10570 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10518 AATTTATTAG
*
10528 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
10550 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
10571 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:10630 original size:31 final size:31
Alignment explanation
Indices: 10595--10654 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
10585 AGTTGTATGG
* *
10595 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
10626 ATTATTTAAATCTCAGTATTGCAAAACTA
1 ATTATTTAAATCTCAGTATTGCAAAACTA
10655 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:14032 original size:191 final size:195
Alignment explanation
Indices: 13818--14315 Score: 620
Period size: 191 Copynumber: 2.6 Consensus size: 195
13808 CATATTTTCT
*
13818 CATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTT
1 CATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTT
13883 TCGATGTTTTTTGGATCGATACTTTTAAAAACATGTATCGACACTTTATGCGTGCAAC-CCCTTT
66 TCGATGTTTTTTGGATCGATACTTTTAAAAA-ATGTATCGACACTTTATGCGTG-AACACCCTTT
* *
13947 TGACATTCATTTTGGACAAAAAGTAT-G-A-ACACAA-GTCGATACATTATGTTCACCT-ATTTG
129 GGACATTCATTCTGGACAAAAAGTATCGAATACACAAGGTCGATACATTATGTTCACCTGATTTG
14007 AA
194 AA
*
14009 CATAAAACCGGTATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTT
1 CATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTT
* ** * * * *
14074 TCGAT-TTTATTAGGATCGATACTTTTATTAATTGTATCGACACTTTATGCGTGTACATCGTTTG
66 TCGATGTTT-TTTGGATCGATACTTTTAAAAAATGTATCGACACTTTATGCGTGAACACCCTTTG
* * *
14138 GGCATTCATTCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGACCT
130 GACATTCATTCTGGACAAAAAGTATCG-----AA-TACACAAG-GTCGATACATTATGTTCACCT
* **
14203 GTTTTTTA
188 GATTTGAA
* * * * *
14211 -AT-TAACCGGTATATTTATACCAGTTATATTGTTAATTTACCTATTACATTAT-ATTATTGGTT
1 CATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTT
* *
14273 TCGATGTTTTTTGGGTCGATACTTTTAGAAAATGTATCGACAC
66 TCGATGTTTTTTGGATCGATACTTTTAAAAAATGTATCGACAC
14316 ATATTTAGGT
Statistics
Matches: 264, Mismatches: 28, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
189 2 0.01
190 50 0.19
191 88 0.33
197 1 0.00
199 49 0.19
200 48 0.18
201 22 0.08
202 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (195 bp):
CATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTT
TCGATGTTTTTTGGATCGATACTTTTAAAAAATGTATCGACACTTTATGCGTGAACACCCTTTGG
ACATTCATTCTGGACAAAAAGTATCGAATACACAAGGTCGATACATTATGTTCACCTGATTTGAA
Found at i:15990 original size:17 final size:17
Alignment explanation
Indices: 15968--16004 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15958 GTGCGTTCCA
*
15968 AGATGAATTTCAACGGG
1 AGATGAACTTCAACGGG
15985 AGATGAACTTCAACGGG
1 AGATGAACTTCAACGGG
16002 AGA
1 AGA
16005 CATTGTACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.19
Consensus pattern (17 bp):
AGATGAACTTCAACGGG
Found at i:19383 original size:15 final size:15
Alignment explanation
Indices: 19363--19401 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19353 ACACTTTATG
*
19363 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
19378 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
19393 GAAAACTTT
1 GGAAACTTT
19402 GTTGTGGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:19687 original size:25 final size:25
Alignment explanation
Indices: 19659--19711 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
19649 GTACACAAGA
19659 AATTTATACAAAACAATGTTCAAAT
1 AATTTATACAAAACAATGTTCAAAT
*
19684 AATTTATACATAACAATGTTCAAAT
1 AATTTATACAAAACAATGTTCAAAT
19709 AAT
1 AAT
19712 GTACCCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (25 bp):
AATTTATACAAAACAATGTTCAAAT
Found at i:20716 original size:18 final size:19
Alignment explanation
Indices: 20668--20726 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
20658 CACTGAATAT
20668 TTGTCCCGAATGACCACTGA
1 TTGTCCCGAA-GACCACTGA
*
20688 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAG-ACCACTGA
20707 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAA-GACCACTGA
20726 T
1 T
20727 AATCGCTCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 14 0.42
19 4 0.12
20 15 0.45
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (19 bp):
TTGTCCCGAAGACCACTGA
Found at i:21404 original size:64 final size:64
Alignment explanation
Indices: 21336--21457 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
21326 ATATAAATCC
* * * *
21336 CATTCAATGTTTGTATTTTAAGGGGGTGCATCGATGCA-CTACTTGTGCATCGATACACGAATGA
1 CATTCAATGTTTGTATTTTAAAGGAGTGCATCGATACACCT-CATGTGCATCGATACACGAATGA
* * *
21400 CATTCGATGTTTTTATTTTAAAGGAGTGCATCGATATACCTCATGTGCATCGATACAC
1 CATTCAATGTTTGTATTTTAAAGGAGTGCATCGATACACCTCATGTGCATCGATACAC
21458 CTTGAACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 48 0.96
65 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
CATTCAATGTTTGTATTTTAAAGGAGTGCATCGATACACCTCATGTGCATCGATACACGAATGA
Found at i:26313 original size:20 final size:20
Alignment explanation
Indices: 26288--26337 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
26278 TTTGAAGGTG
26288 CATCGATGCAGTAAGGGGTA
1 CATCGATGCAGTAAGGGGTA
*
26308 CATCGATGCAGTAAGGGGTG
1 CATCGATGCAGTAAGGGGTA
26328 CATCGATGCA
1 CATCGATGCA
26338 TCAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.34, T:0.20
Consensus pattern (20 bp):
CATCGATGCAGTAAGGGGTA
Found at i:27580 original size:30 final size:29
Alignment explanation
Indices: 27541--27599 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
27531 GAGAATTTAC
* *
27541 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
27570 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
27600 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:27899 original size:23 final size:23
Alignment explanation
Indices: 27830--27900 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
27820 ACATCTTATA
27830 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* * * *
27853 CGGCACTTAGGTGTAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* *
27876 TGGCACTTCGATGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
27899 TG
1 TG
27901 CTGTGGTGAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:32800 original size:30 final size:29
Alignment explanation
Indices: 32761--32819 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
32751 GAGAATTTAC
* *
32761 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
32790 ATGAATCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
32820 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:33085 original size:23 final size:23
Alignment explanation
Indices: 33051--33103 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
33041 CATCTTATAT
* *
33051 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTAGGTGCAATTCTACGC
*
33074 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCAATTCTACGC
33097 GGCACTT
1 GGCACTT
33104 CAATGCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCACTTAGGTGCAATTCTACGC
Found at i:33118 original size:23 final size:23
Alignment explanation
Indices: 33050--33118 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
33040 ACATCTTATA
*
33050 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCAGTGCATTTCTACG
* *
33073 CGGCACTT-AGGTGCAATTCTACG
1 TGGCACTTCA-GTGCATTTCTACG
* *
33096 TGGCACTTCAATGCATTTATACG
1 TGGCACTTCAGTGCATTTCTACG
33119 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (23 bp):
TGGCACTTCAGTGCATTTCTACG
Found at i:33351 original size:13 final size:13
Alignment explanation
Indices: 33333--33365 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33323 CATATGACTA
33333 AAAGATAAAGAAG
1 AAAGATAAAGAAG
*
33346 AAAGATGAAGAAG
1 AAAGATAAAGAAG
33359 AAA-ATAA
1 AAAGATAA
33366 GACTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (13 bp):
AAAGATAAAGAAG
Found at i:33496 original size:2 final size:2
Alignment explanation
Indices: 33483--33546 Score: 119
Period size: 2 Copynumber: 31.5 Consensus size: 2
33473 AATATGTATG
33483 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33526 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
33547 TTATGTTTGG
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 59 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34081 original size:6 final size:6
Alignment explanation
Indices: 34070--34116 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
34060 CTGATTTCTT
* *
34070 CCTCTA CCTCTA CCTCTA CCTCTA TCTCTA CCTCTA CCTCTT CCTCT
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTCT
34117 CCGGGTAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.13, C:0.49, G:0.00, T:0.38
Consensus pattern (6 bp):
CCTCTA
Found at i:36015 original size:18 final size:18
Alignment explanation
Indices: 35994--36056 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
35984 TGTCCCAAAT
35994 GACCACTATGTCCTGAAG
1 GACCACTATGTCCTGAAG
* * *
36012 GACCATTGATTATTCTGAAG
1 GACCACT-A-TGTCCTGAAG
* *
36032 AACCACTATGTCCCGAAG
1 GACCACTATGTCCTGAAG
36050 GACCACT
1 GACCACT
36057 GATAATCCCT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 19 0.56
19 2 0.06
20 13 0.38
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (18 bp):
GACCACTATGTCCTGAAG
Found at i:36699 original size:64 final size:64
Alignment explanation
Indices: 36627--36788 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 64
36617 ATCCCTTGGC
* * *
36627 GGGTGCATCGATGCA-TAATCTATGCATCGGTACA-TAAATCCCATTCGATGTTTGTATTTTAAG
1 GGGTGCATCGATGCACTAAT-TATGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAA
36690 G
64 G
* * * *
36691 GGGTGCATCGATGCACTACTTGTGCATCGATACACTAATGACATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACTAATTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
* * * *
36755 GAGTGCATCGATACACCTCA-TGTGCATCGATACA
1 GGGTGCATCGATGCA-CTAATTATGCATCGATACA
36789 TCTTGAACAA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 78 0.93
65 6 0.07
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (64 bp):
GGGTGCATCGATGCACTAATTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
Found at i:38246 original size:12 final size:12
Alignment explanation
Indices: 38231--38270 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38221 ATCATAATAA
38231 TCATCATCATCT
1 TCATCATCATCT
* *
38243 TCATCGTCATCG
1 TCATCATCATCT
*
38255 TCATCTTCATCT
1 TCATCATCATCT
38267 TCAT
1 TCAT
38271 TGACCTCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.05, T:0.42
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:38252 original size:18 final size:18
Alignment explanation
Indices: 38231--38270 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38221 ATCATAATAA
38231 TCATCATCATCTTCATCG
1 TCATCATCATCTTCATCG
* *
38249 TCATCGTCATCTTCATCT
1 TCATCATCATCTTCATCG
38267 TCAT
1 TCAT
38271 TGACCTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.05, T:0.42
Consensus pattern (18 bp):
TCATCATCATCTTCATCG
Found at i:40177 original size:201 final size:201
Alignment explanation
Indices: 39721--41069 Score: 1515
Period size: 201 Copynumber: 6.7 Consensus size: 201
39711 ATTTAAAATG
* * * * *
39721 GTATCGACACAAATTTA-ACAATTGTCGATAC-T-TTATGATGACCTATTTTCTCATAAAACCGA
1 GTATCGACACAAA-TTACACAAGTGTCGATACATATTGT-A-GACCTATTCTCTCATAAAACTGG
* * * * *
39783 TATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGAAG-TTCT
63 TATAATTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC-
* * * * *
39847 TGGGATCAAAACGTTTTA-AAAAAGTATCGACACTTTATGCATGCAACCC--TTT-GGCATTCCT
127 TGGGATCGACACTTTTTATAAATA-TATCGACACTTTATGCGTGC-ACCCTTTTTGGGCATTCCT
* *
39908 TCTGAACAAAAA
190 TCTGGACCAAAA
* * *
39920 GTATCGACACCAATTCCACAAGTG-CTGATACATGTTGTAGACCTATTCTCTCATAAAACTGGTA
1 GTATCGACACAAATTACACAAGTGTC-GATACATATTGTAGACCTATTCTCTCATAAAACTGGTA
** *
39984 TAATTATACTAGTTACATT-ATAAATTTACCTATTACATTAT-ATTAATGGGTTTCGATGTTTCT
65 TAATTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATT-ATGGGTTTCGATGTTTCT
* * * * *
40047 GGTATTGACACTTTTTATAAATATATCGACACTTTATGCGTTCATCATTTTTGGGCATTCCTTCT
128 GGGATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTTGGGCATTCCTTCT
40112 GGACCAAAA
193 GGACCAAAA
* *
40121 GTATCGACACAAATTACACAAGTGTCGATACATATTGTAAACCTATTCTCTCATAAAATTGGTAT
1 GTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTAT
* * * * *
40186 AAGTATATCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTTTGATGTTTCTGGG
66 AATTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* * * * *
40251 ATCGATACTTCTTATAAATGTATCAACAC-TTAGTG-GTGCACCCTCTTTGGGCATTCCTTCTGG
131 ATCGACACTTTTTATAAATATATCGACACTTTA-TGCGTGCACCCTTTTTGGGCATTCCTTCTGG
40314 ACCAAAA
195 ACCAAAA
* *
40321 GTATCGACACAAATAACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAAC-GTGTA
1 GTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTG-GTA
* * * *
40385 TAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTTTGATTTTTCTGG
65 TAATTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * * *
40450 GATTGACACTTCTTATAAATGTATCGACACTTAATG-GTGCACCCTTTTTGGGCATTCCTTATGG
130 GATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTTGGGCATTCCTTCTGG
40514 ACCAAAA
195 ACCAAAA
* *
40521 GTATCGATACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACTGGTAT
1 GTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTAT
* *
40586 -ATGTATACCGGTTACATTGACAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGG
66 AAT-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * *
40650 GATAGATACTTATTTATAAATATATCGACACTTTTTGTGTGCACCC-TTTTGGGCATTCCTTCTG
130 GATCGACACTT-TTTATAAATATATCGACACTTTATGCGTGCACCCTTTTTGGGCATTCCTTCTG
*
40714 GA-GAAACA
194 GACCAAA-A
* * * * * * * *
40722 ATATCGACATAAATT-CTAGAAGTGTCAATACATTTTTTAGACCTATTCTCTCATAAAACCGGTT
1 GTATCGACACAAATTAC-ACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTA
* * * *
40786 TAGTTATACCGGTTACATTGAAAAATTACCTATTAGATTATAATTAAGGGTTCCGATGTTTCTGG
65 TAATTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
** * * * * * * * *
40851 GATCGACACTTTCAATAAATGTGTCGACACGTTATACGTTCATCATTTTTGGGCATTCATTCTGG
130 GATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTTGGGCATTCCTTCTGG
*
40916 -CAAAAAA
195 AC-CAAAA
* * * * *
40923 GTATTGACGCATAATGA-AAAAGTGTCGATACA-ATATGTAGACCTATTCTCACATAAAACTGGT
1 GTATCGACACA-AATTACACAAGTGTCGATACATAT-TGTAGACCTATTCTCTCATAAAACTGGT
* * *
40986 ATATTTATACCGATTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTT-GATGGTTT-
64 ATAATTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGAT-GTTTC
*
41048 TGGGATCGAAACTTTTTATAAA
127 TGGGATCGACACTTTTTATAAA
41070 CGTTTTGACA
Statistics
Matches: 993, Mismatches: 125, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
198 8 0.01
199 125 0.13
200 407 0.41
201 433 0.44
202 20 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (201 bp):
GTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTAT
AATTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
ATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTTGGGCATTCCTTCTGGA
CCAAAA
Found at i:40468 original size:401 final size:397
Alignment explanation
Indices: 39721--41069 Score: 1568
Period size: 401 Copynumber: 3.4 Consensus size: 397
39711 ATTTAAAATG
* * * * *
39721 GTATCGACACAAATTTAACAATTGTCGATAC-T-TTATGATGACCTATTTTCTCATAAAACCGAT
1 GTATCGACACAAA-TTAACAAGTGTCGATACATATTGT-A-GACCTATTCTCTCATAAAACTGGT
* * * *
39784 ATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGAAG-TTCTT
63 ATATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTTTC-T
* * * * * *
39848 GGGATCAAAACGTTTTAAAAAAGTATCGACACTTTATGCATGCAACC-CTTT-GGCATTCCTTCT
126 GGGATCGAAACTTTTTATAAATGTATCGACAC-TTATGCGTGCACCCTCTTTGGGCATTCCTTCT
* * * *
39911 GAACAAAAAGTATCGACACCAATTCCACAAGTG-CTGATACATGTTGTAGACCTATTCTCTCATA
190 GGACAAAAAGTATCGACA-CAAATACACAAGTGTC-GATACATATTGTAGACCTATTCTCTCATA
* ** *
39975 AAAC-TGGTATAATTATACTAGTTACATT-ATAAATTTACCTATTACATTAT-ATTAATGGGTTT
253 AAACGT-GTATAAGTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATT-ATGGGTTT
* *
40037 CGATGTTTCTGGTATTGACACTTTTTATAAATATATCGACACTTTATGCGTTCATCATTTTTGGG
315 CGATGTTTCTGGGATTGACAC-TTTTATAAATGTATCGACACTTTATGCGTTCATCATTTTTGGG
40102 CATTCCTTCTGGACCAAAA
379 CATTCCTTCTGGACCAAAA
* *
40121 GTATCGACACAAATTACACAAGTGTCGATACATATTGTAAACCTATTCTCTCATAAAATTGGTAT
1 GTATCGACACAAATTA-ACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTAT
* * * *
40186 AAGTATATCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTTTGATGTTTCTGGG
65 ATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG-TTTCGATGTTTCTGGG
* * *
40251 ATCGATACTTCTTATAAATGTATCAACACTTAGTG-GTGCACCCTCTTTGGGCATTCCTTCTGGA
129 ATCGAAACTTTTTATAAATGTATCGACACTTA-TGCGTGCACCCTCTTTGGGCATTCCTTCTGGA
* *
40315 CCAAAAGTATCGACACAAATAACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAAC
193 CAAAAAGTATCGACACAAAT-ACACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAAC
* * *
40380 GTGTATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTTTGATTTT
257 GTGTATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * *
40445 TCTGGGATTGACACTTCTTATAAATGTATCGACACTTAATG-GTGCACCCTTTTTGGGCATTCCT
322 TCTGGGATTGACACTT-TTATAAATGTATCGACACTTTATGCGTTCATCATTTTTGGGCATTCCT
*
40509 TATGGACCAAAA
386 TCTGGACCAAAA
* *
40521 GTATCGATACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACTGGTAT
1 GTATCGACACAAATTA-ACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTAT
*
40586 ATGTATACCGGTTACATTGACAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGGG
65 ATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG-TTTCGATGTTTCTGGG
* * * * *
40651 ATAGATACTTATTTATAAATATATCGACACTTTTTGTGTGCACCCT-TTTGGGCATTCCTTCTGG
129 ATCGAAACTT-TTTATAAATGTATCGACAC-TTATGCGTGCACCCTCTTTGGGCATTCCTTCTGG
* * * * * * *
40715 AGAAACAA-TATCGACATAAATTCTAGAAGTGTCAATACATTTTTTAGACCTATTCTCTCATAAA
192 ACAAA-AAGTATCGACACAAATAC-ACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAA
* * * *
40779 ACCG-GT-TTAGTTATACCGGTTACATTGAAAAATTACCTATTAGATTATAATTAAGGGTTCCGA
255 A-CGTGTATAAG-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGA
* * * * *
40842 TGTTTCTGGGATCGACACTTTCAATAAATGTGTCGACACGTTATACGTTCATCATTTTTGGGCAT
318 TGTTTCTGGGATTGACACTTT-TATAAATGTATCGACACTTTATGCGTTCATCATTTTTGGGCAT
* *
40907 TCATTCTGG-CAAAAAA
382 TCCTTCTGGAC-CAAAA
* * * * *
40923 GTATTGACGCATAATGAAAAAGTGTCGATACA-ATATGTAGACCTATTCTCACATAAAACTGGTA
1 GTATCGACACA-AATTAACAAGTGTCGATACATAT-TGTAGACCTATTCTCTCATAAAACTGGTA
* * *
40987 TATTTATACCGATTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTT-GATGGTTT-T
64 TATGTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTAT-GGTTTCGAT-GTTTCT
41049 GGGATCGAAACTTTTTATAAA
126 GGGATCGAAACTTTTTATAAA
41070 CGTTTTGACA
Statistics
Matches: 821, Mismatches: 99, Indels: 58
0.84 0.10 0.06
Matches are distributed among these distances:
399 14 0.02
400 305 0.37
401 348 0.42
402 148 0.18
403 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (397 bp):
GTATCGACACAAATTAACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGGTATA
TGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGAT
CGAAACTTTTTATAAATGTATCGACACTTATGCGTGCACCCTCTTTGGGCATTCCTTCTGGACAA
AAAGTATCGACACAAATACACAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACGTGT
ATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
GGATTGACACTTTTATAAATGTATCGACACTTTATGCGTTCATCATTTTTGGGCATTCCTTCTGG
ACCAAAA
Found at i:41303 original size:12 final size:12
Alignment explanation
Indices: 41286--41318 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
41276 AGTCCCGTAC
41286 ATGATGACAATT
1 ATGATGACAATT
41298 ATGATGACAATT
1 ATGATGACAATT
41310 ATGATGACA
1 ATGATGACA
41319 TTTGGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (12 bp):
ATGATGACAATT
Found at i:42997 original size:18 final size:18
Alignment explanation
Indices: 42974--43012 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
42964 TCTTCCTCAT
42974 TTCCTCCATATTTTCTTC
1 TTCCTCCATATTTTCTTC
* *
42992 TTCCTCCCTCTTTTCTTC
1 TTCCTCCATATTTTCTTC
43010 TTC
1 TTC
43013 ATATTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATATTTTCTTC
Found at i:43232 original size:33 final size:33
Alignment explanation
Indices: 43195--43261 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
43185 CCATCTTAAG
* *
43195 TTCACCCCTTAACACCTCAACTTATTTTACCAC
1 TTCACCCCTCAACACCTCAACTTATTTCACCAC
* *
43228 TTCACCCCTCAACACCTTAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTATTTCACCAC
43261 T
1 T
43262 CCATCTATTT
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:0.42, G:0.00, T:0.33
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTATTTCACCAC
Found at i:43324 original size:21 final size:21
Alignment explanation
Indices: 43298--43355 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
43288 CTTATACTTA
* *
43298 TCAAGTGTCTCTTCGATTCTC
1 TCAAGTTTCTCTTCGACTCTC
43319 TCAAGTTTCTCTTCGACTCTC
1 TCAAGTTTCTCTTCGACTCTC
43340 TCAAGTTTCTCTTCGA
1 TCAAGTTTCTCTTCGA
43356 ATCTTGATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.16, C:0.29, G:0.12, T:0.43
Consensus pattern (21 bp):
TCAAGTTTCTCTTCGACTCTC
Found at i:43766 original size:22 final size:23
Alignment explanation
Indices: 43738--43793 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
43728 GACCTGCATT
43738 TATAATAAAAT-TTATAATTTTA
1 TATAATAAAATATTATAATTTTA
* *
43760 TATAATAACTATATTATCATTTTA
1 TATAATAA-AATATTATAATTTTA
*
43784 TATAAAAAAA
1 TATAATAAAA
43794 AAAAATGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAAAATATTATAATTTTA
Found at i:46117 original size:182 final size:182
Alignment explanation
Indices: 45733--46884 Score: 1516
Period size: 181 Copynumber: 6.3 Consensus size: 182
45723 TTATTAAGAG
* * * * *
45733 TACTT-TATTAAAGTATCAACACTTTCAATATATTCAGTAACGCTTTACCGGTTTTGTC-ACTTA
1 TACTTATATTAAAGTATCGACACTTTCAATATATTCGGTATCGCTTTACCGGTTTTGTCTTC-TC
** * * *
45796 GAGACCGGTTTTACCATATTTTTACCT-TTATATCGTTATGGATCGATACAT-TTTATAAAGTAT
65 CTGACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAAT
** * *
45859 CGACAC-TTATAGATGCTAAAA-TGTTTCT-CTTTAAATTCACAAAGTGTCGA
130 CGACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
* * * * * *
45909 TACTTATATTAAATTATCAACACTTTCAATGTATTCGGTAGCGCTTTACCGGTTTTGTCTTTTCG
1 TACTTATATTAAAGTATCGACACTTTCAATATATTCGGTATCGCTTTACCGGTTTTGTCTTCTCC
* * *
45974 AGACCGGTTTTATCATATTTTAACTTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
66 TGACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
* *
46039 GACACTTTATAGGCGCTAAAACTGCTGCTCCTTTAAATTCATAATGTGTCGA
131 GACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
* *
46091 TACTTATATTAAAGTATCGACACTTTCAATATA-TCTGGTATCTCTTTATCGGTTTTGTCTTCTC
1 TACTTATATTAAAGTATCGACACTTTCAATATATTC-GGTATCGCTTTACCGGTTTTGTCTTCTC
* *
46155 CTGACCGGTTTTGTCATA-TTTTACCTGTTATATCGTTGTGGATCAATACATATTTATAAAGAAT
65 CTGACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAAT
* *
46219 CGACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACTATGTGTCGA
130 CGACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
* * * * * * *
46272 TACTTATATTCAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTTTCTTTTCG
1 TACTTATATTAAAGTATCGACACTTTCAATATATTCGGTATCGCTTTACCGGTTTTGTCTTCTCC
* * * * * * * *
46337 TGACTGGTTTTGTCATATTTTTTCCTATTTTATTGATGTGGATTGATACATATTTATAAAGAATC
66 TGACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
* * *
46402 GACACTTTATAGGCACTAAAACTTCTTCTCCTTTAAATTCACAATGGGTCGA
131 GACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
* * *
46454 TACTTATATTAAAGTGTTGACACTTTCAATATATTCGGTATCTCTTTACCGGTTTTGTCTTCTCC
1 TACTTATATTAAAGTATCGACACTTTCAATATATTCGGTATCGCTTTACCGGTTTTGTCTTCTCC
*
46519 TGA-CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
66 TGACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
*
46583 GACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATATGTCGA
131 GACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
* *
46635 TACTTATATTAAAGTATCGACACTTTCAATATA-TCTGGTATCTCTTTACCGATTTTGTCTTCTC
1 TACTTATATTAAAGTATCGACACTTTCAATATATTC-GGTATCGCTTTACCGGTTTTGTCTTCTC
* * * *
46699 CTGACCGGTTTTGTCAGTTTTGTCATATTTTTACTTGTTATATTGTTGTGGATAGATAAATATTT
65 CTGACCGG-TTT-T-A------TCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTT
* * * *
46764 ATAAAGAATCGACACTTTATAGGCGCTAAAACTGTTTATCCTTTATATTCACTATGTGTCGA
121 ATAAAGAATCGACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
* * *
46826 TACTTATATTAAAGTATAGACACTTTCAATATATTCGATATCGCTTTGCCGGTTTTGTC
1 TACTTATATTAAAGTATCGACACTTTCAATATATTCGGTATCGCTTTACCGGTTTTGTC
46885 ATATTTTACC
Statistics
Matches: 859, Mismatches: 95, Indels: 29
0.87 0.10 0.03
Matches are distributed among these distances:
176 5 0.01
177 74 0.09
178 23 0.03
179 17 0.02
180 15 0.02
181 333 0.39
182 239 0.28
183 3 0.00
184 1 0.00
191 147 0.17
192 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TACTTATATTAAAGTATCGACACTTTCAATATATTCGGTATCGCTTTACCGGTTTTGTCTTCTCC
TGACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
GACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGA
Found at i:46399 original size:363 final size:363
Alignment explanation
Indices: 45733--47298 Score: 1938
Period size: 363 Copynumber: 4.4 Consensus size: 363
45723 TTATTAAGAG
* * * * *
45733 TACTT-TATTAAAGTATCAACACTTTCAATATATTCAGTAACGCTTTACCGGTTTTGTC-ACTTA
1 TACTTATATTAAAGTATCGACACTTTCAATATATT-GGTATCGCTTTACCGGTTTTGTCTTC-TC
** ** * *
45796 GAGACCGGTTTTACCATATTTTTACCT-TTATATCGTTATGGATCGATACAT-TTTATAAAGTAT
64 CTGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAAT
** ** *
45859 CGACAC-TTATAGATGCTAAAA-TGTTTCT-CTTTAAATTCACAAAGTGTCGATACTTATATTAA
129 CGACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAA
* * * * * ** *
45921 ATTATCAACACTTTCAATGTATTCGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCGGTTTTA
194 AGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTCTCCTGACCGGTTTTG
* *
45986 TCATATTTTAACTTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAG
259 TCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAG
* *
46051 GCGCTAAAACTGCTGCTCCTTTAAATTCA-TAATGTGTCGA
324 GCACTAAAACTGCTTCTCCTTTAAATTCACT-ATGTGTCGA
* *
46091 TACTTATATTAAAGTATCGACACTTTCAATATATCTGGTATCTCTTTATCGGTTTTGTCTTCTCC
1 TACTTATATTAAAGTATCGACACTTTCAATATAT-TGGTATCGCTTTACCGGTTTTGTCTTCTCC
*
46156 TGACCGGTTTTGTCATA-TTTTACCTGTTATATCGTTGTGGATCAATACATATTTATAAAGAATC
65 TGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
* *
46220 GACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACTATGTGTCGATACTTATATTCAA
130 GACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAA
* * * * *
46285 GTATCGACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTTTCTTTTCGTGACTGGTTTTGT
195 GTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTCTCCTGACCGGTTTTGT
* * * * * *
46350 CATATTTTTTCCTATTTTATTGATGTGGATTGATACATATTTATAAAGAATCGACACTTTATAGG
260 CATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGG
* * *
46415 CACTAAAACTTCTTCTCCTTTAAATTCACAATGGGTCGA
325 CACTAAAACTGCTTCTCCTTTAAATTCACTATGTGTCGA
* * *
46454 TACTTATATTAAAGTGTTGACACTTTCAATATATTCGGTATCTCTTTACCGGTTTTGTCTTCTCC
1 TACTTATATTAAAGTATCGACACTTTCAATATATT-GGTATCGCTTTACCGGTTTTGTCTTCTCC
46519 TGA-CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
65 TGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
* *
46583 GACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATATGTCGATACTTATATTAAA
130 GACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAA
* * * *
46648 GTATCGACACTTTCAATATATCTGGTATCTCTTTACCGATTTTGTCTTCTCCTGACCGGTTTTGT
195 GTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTCTCCTGACC------G-
* * * *
46713 CAGTTTTGTCATATTTTTACTTGTTATATTGTTGTGGATAGATAAATATTTATAAAGAATCGACA
253 --GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
* * * *
46778 CTTTATAGGCGCTAAAACTGTTTATCCTTTATATTCACTATGTGTCGA
316 CTTTATAGGCACTAAAACTGCTTCTCCTTTAAATTCACTATGTGTCGA
* * *
46826 TACTTATATTAAAGTATAGACACTTTCAATATA----T-TCG----A----TATCG-C-T-T--T
1 TACTTATATTAAAGTATCGACACTTTCAATATATTGGTATCGCTTTACCGGTTTTGTCTTCTCCT
46873 G-CCGGTTTTGTCATA-TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCG
66 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCG
* * * *
46936 ACACTTTATAAGCGCTAAAACTATTTCTCCTTTAAATTCTCTATGTGTCGATACTTATATTAAAG
131 ACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAG
* * ** * *
47001 TATCGACACTTTCAATATATCCAGTATCTTTTTACCGGTTTTGTCTTCTCCTGACCGATTTTGTT
196 TATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTCTCCTGACCGGTTTTGTC
* *
47066 ATATTTTTACATGTTATATCGTTGTGGATCGATACATA-TTATAAAGAATTGACACTTTATAGGC
261 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGC
47130 ACTAAAACTGCTTCTCCTTTAAATTCACTA-GTGTCGA
326 ACTAAAACTGCTTCTCCTTTAAATTCACTATGTGTCGA
* ** * * * *
47167 TACTTATATTAAAGTATCGACACTTGCAATAT-CCGGTAGCGCTTTACCGGTTTTATCTTTTCGT
1 TACTTATATTAAAGTATCGACACTTTCAATATATTGGTATCGCTTTACCGGTTTTGTCTTCTCCT
* * * * * * *
47231 GACTGGTTTTGTCATATTTTTTCCTATTATATTGATGTGGATCGATACATTTTTATAAAGTATCG
66 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCG
47296 ACA
131 ACA
47299 TAAACCCACA
Statistics
Matches: 1054, Mismatches: 113, Indels: 80
0.85 0.09 0.06
Matches are distributed among these distances:
341 37 0.04
342 51 0.05
343 40 0.04
344 1 0.00
345 2 0.00
346 1 0.00
349 1 0.00
352 159 0.15
353 17 0.02
354 1 0.00
355 2 0.00
356 2 0.00
357 1 0.00
358 18 0.02
359 96 0.09
360 64 0.06
361 13 0.01
362 20 0.02
363 396 0.38
366 2 0.00
367 1 0.00
369 1 0.00
372 128 0.12
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (363 bp):
TACTTATATTAAAGTATCGACACTTTCAATATATTGGTATCGCTTTACCGGTTTTGTCTTCTCCT
GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCG
ACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAG
TATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTCTCCTGACCGGTTTTGTC
ATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGC
ACTAAAACTGCTTCTCCTTTAAATTCACTATGTGTCGA
Found at i:46808 original size:191 final size:181
Alignment explanation
Indices: 45733--47298 Score: 1470
Period size: 181 Copynumber: 8.7 Consensus size: 181
45723 TTATTAAGAG
* * * * *
45733 TACTT-TATTAAAGTATCA-ACACTTTCAATATATTCAGTAACGCTTTACCGGTTTTGTC-ACTT
1 TACTTATATTAAAGTAT-AGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTC-T
*** ** * * * *
45795 AGAGACCGGTTTTACCATATTTTTACCT-TTATATCGTTATGGATCGATACAT-TTTATAAAGTA
64 CCTGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAA
** *
45858 TCGACAC-TTATAGATGCTAAAA-TGTTTCT-CTTTAAATTCACAAAGTGTCGA
128 TCGACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
* * * * * *
45909 TACTTATATTAAATTATCA-ACACTTTCAATGTATTCGGTAGCGCTTTACCGGTTTTGTCTTTTC
1 TACTTATATTAAAGTAT-AGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTC
** * * * * *
45973 GAGACCGGTTTTATCATATTTTAACTTGTTATATCGTTGTGGATCGATACATATTTATAAAGAAT
65 CTGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAAT
* * *
46038 CGACACTTTATAGGCGCTAAAACTGCTGCTCCTTTAAATTCATAATGTGTCGA
129 CGACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
* * *
46091 TACTTATATTAAAGTATCGACACTTTCAATATA-TCTGGTATCTCTTTATCGGTTTTGTCTTCTC
1 TACTTATATTAAAGTATAGACACTTTCAATATATTC-GGTATCTCTTTACCGATTTTGTCTTCTC
*
46155 CTGACCGGTTTTGTCATA-TTTTACCTGTTATATCGTTGTGGATCA-ATACATATTTATAAAGAA
65 CTGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGAT-AGATACATATTTATAAAGAA
** *
46218 TCGACACTTTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACTATGTGTCGA
128 TCGACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
* * * * * * * * * *
46272 TACTTATATTCAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTTTCTTTTCG
1 TACTTATATTAAAGTATAGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTCC
* * * * *
46337 TGACTGGTTTTGTCATATTTTTTCCTATTTTATTGATGTGGATTGATACATATTTATAAAGAATC
66 TGAC-GGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAATC
* *
46402 GACACTTTATAGGCACTAAAACT-TCTTCTCCTTTAAATTCACAATGGGTCGA
130 GACACTTTATAGGCGCTAAAACTGT-TTCTCCTTTAAATTCACAATGTGTCGA
* * *
46454 TACTTATATTAAAGTGTTGACACTTTCAATATATTCGGTATCTCTTTACCGGTTTTGTCTTCTCC
1 TACTTATATTAAAGTATAGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTCC
* *
46519 TGACGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCG
66 TGACGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAATCG
* *
46584 ACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATATGTCGA
131 ACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
*
46635 TACTTATATTAAAGTATCGACACTTTCAATATA-TCTGGTATCTCTTTACCGATTTTGTCTTCTC
1 TACTTATATTAAAGTATAGACACTTTCAATATATTC-GGTATCTCTTTACCGATTTTGTCTTCTC
* *
46699 CTGACCGGTTTTGTCAGTTTTGTCATATTTTTACTTGTTATATTGTTGTGGATAGATAAATATTT
65 CTGA-C------G---GTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTT
* * *
46764 ATAAAGAATCGACACTTTATAGGCGCTAAAACTGTTTATCCTTTATATTCACTATGTGTCGA
120 ATAAAGAATCGACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
* * * * * * *
46826 TACTTATATTAAAGTATAGACACTTTCAATATATTCGATATCGCTTTGCCGGTTTTGTCATAT-T
1 TACTTATATTAAAGTATAGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTCC
* * * * * * ** * * * * ** * *
46890 TTACCTGTTATATCGT-TGTGGATC-GATACATAT-TTATAAAGA-ATCGACA-CTTTAT-AAG-
66 TGA-CGGTTTTGTCATATTTTTACCTGTTATAT-TGTTGTGGATAGAT--ACATATTTATAAAGA
* * *
46948 ----------------CGCTAAAACTATTTCTCCTTTAAATTCTCTATGTGTCGA
127 ATCGACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
* * * * *
46987 TACTTATATTAAAGTATCGACACTTTCAATATATCCAGTATCTTTTTACCGGTTTTGTCTTCTCC
1 TACTTATATTAAAGTATAGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTCC
* * * * * *
47052 TGACCGATTTTGTTATATTTTTACATGTTATATCGTTGTGGATCGATACATA-TTATAAAGAATT
66 TGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAATC
* * *
47116 GACACTTTATAGGCACTAAAACTGCTTCTCCTTTAAATTCACTA-GTGTCGA
130 GACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
* * * * * * * * *
47167 TACTTATATTAAAGTATCGACACTTGC-A-ATATCCGGTAGCGCTTTACCGGTTTTATCTTTTCG
1 TACTTATATTAAAGTATAGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTCC
* * * * * *
47230 TGACTGGTTTTGTCATATTTTTTCCTATTATATTGATGTGGATCGATACATTTTTATAAAGTATC
66 TGAC-GGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAATC
47295 GACA
130 GACA
47299 TAAACCCACA
Statistics
Matches: 1164, Mismatches: 169, Indels: 111
0.81 0.12 0.08
Matches are distributed among these distances:
161 89 0.08
162 9 0.01
163 10 0.01
164 12 0.01
165 2 0.00
176 5 0.00
177 75 0.06
178 98 0.08
179 47 0.04
180 55 0.05
181 364 0.31
182 236 0.20
188 1 0.00
190 4 0.00
191 155 0.13
192 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
TACTTATATTAAAGTATAGACACTTTCAATATATTCGGTATCTCTTTACCGATTTTGTCTTCTCC
TGACGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATAGATACATATTTATAAAGAATCG
ACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGA
Found at i:46982 original size:161 final size:161
Alignment explanation
Indices: 46715--47220 Score: 572
Period size: 161 Copynumber: 3.0 Consensus size: 161
46705 GGTTTTGTCA
* * * *
46715 GTTTTGTCATATTTTTACTTGTTATATTGTTGTGGATAGATAAATATTTATAAAGAATCGACACT
1 GTTTTGTCATA-TTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
46780 TTATAGGCGCTAAAACTGTTTATCCTTTATATTCACTATGTGTCGATACTTATATTAAAGTATAG
65 TTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACTATGTGTCGATACTTATATTAAAGTATCG
* *
46845 ACACTTTCAATATATTC-GATATCGCTTTGCCG
130 ACACTTTCAATATATCCAG-TATCGCTTTACCG
*
46877 GTTTTGTCATATTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
1 GTTTTGTCATATTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
* * *
46942 TATAAGCGCTAAAACTATTTCTCCTTTAAATTCTCTATGTGTCGATACTTATATTAAAGTATCGA
66 TATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACTATGTGTCGATACTTATATTAAAGTATCGA
**
47007 CACTTTCAATATATCCAGTATCTTTTTACCG
131 CACTTTCAATATATCCAGTATCGCTTTACCG
*
47038 GTTTTGTCTTCTCCTGACCGATTTTGTTATATTTTTACATGTTATATCGTTGTGGATCGATACAT
1 GTTTTG--------T---C-A------TATTT---TACATGTTATATCGTTGTGGATCGATACAT
* * *
47103 A-TTATAAAGAATTGACACTTTATAGGCACTAAAACTGCTTCTCCTTTAAATTCACTA-GTGTCG
45 ATTTATAAAGAATCGACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACTATGTGTCG
* * *
47166 ATACTTATATTAAAGTATCGACACTTGC-A-ATATCCGGTAGCGCTTTACCG
110 ATACTTATATTAAAGTATCGACACTTTCAATATATCCAGTATCGCTTTACCG
47216 GTTTT
1 GTTTT
47221 ATCTTTTCGT
Statistics
Matches: 295, Mismatches: 27, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
161 140 0.47
162 12 0.04
169 1 0.00
172 1 0.00
173 1 0.00
178 22 0.07
179 5 0.02
180 33 0.11
181 50 0.17
182 30 0.10
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (161 bp):
GTTTTGTCATATTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
TATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACTATGTGTCGATACTTATATTAAAGTATCGA
CACTTTCAATATATCCAGTATCGCTTTACCG
Found at i:47587 original size:15 final size:18
Alignment explanation
Indices: 47559--47632 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 18
47549 AGACGTAATA
*
47559 TATAGTTTTATAA-TATT
1 TATAATTTTATAATTATT
47576 T-TAATTTT-TAATTATT
1 TATAATTTTATAATTATT
*
47592 TATAA-TTTATCA-T-TT
1 TATAATTTTATAATTATT
*
47607 TATAA-TTTATGATGTATT
1 TATAATTTTATAAT-TATT
47625 T-TAATTTT
1 TATAATTTT
47633 TTATAACGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
15 16 0.34
16 15 0.32
17 10 0.21
18 6 0.13
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (18 bp):
TATAATTTTATAATTATT
Found at i:47612 original size:25 final size:25
Alignment explanation
Indices: 47565--47613 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
47555 AATATATAGT
*
47565 TTTATAATATTTTAATTTTTAATTA
1 TTTATAATATTATAATTTTTAATTA
*
47590 TTTATAAT-TTATCATTTTATAATT
1 TTTATAATATTATAATTTT-TAATT
47614 TATGATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATAATATTATAATTTTTAATTA
Found at i:51619 original size:17 final size:18
Alignment explanation
Indices: 51586--51619 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51576 ACTGTATTAG
51586 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
51604 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
51620 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:52547 original size:14 final size:13
Alignment explanation
Indices: 52503--52549 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
52493 TCGTGTTTCA
52503 TATATTTAATTTT
1 TATATTTAATTTT
52516 TAT-TTTAGCA-TTT
1 TATATTTA--ATTTT
52529 TATATTTAATTTT
1 TATATTTAATTTT
52542 TAATATTT
1 T-ATATTT
52550 TTATATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.17
13 13 0.45
14 11 0.38
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (13 bp):
TATATTTAATTTT
Found at i:52554 original size:22 final size:23
Alignment explanation
Indices: 52526--52574 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
52516 TATTTTAGCA
*
52526 TTTTATA-TTTAATTTTTAATAT
1 TTTTATATTTTAACTTTTAATAT
*
52548 TTTTATATTTTAACTTTTAATTT
1 TTTTATATTTTAACTTTTAATAT
52571 TTTT
1 TTTT
52575 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTATATTTTAACTTTTAATAT
Found at i:58313 original size:22 final size:22
Alignment explanation
Indices: 58263--58313 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
58253 AATAATTTTT
*
58263 TTATATTTTTTAAATTTACAATA
1 TTATA-TTTTTAAATTAACAATA
*
58286 TT-TATTTTTACATTAACCAA-A
1 TTATATTTTTAAATTAA-CAATA
58307 TTATATT
1 TTATATT
58314 AAATCAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 13 0.54
22 9 0.38
23 2 0.08
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATTTTTAAATTAACAATA
Found at i:59422 original size:22 final size:22
Alignment explanation
Indices: 59394--59435 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
59384 TAAAATATAA
59394 TAATATTATTATTATAAAAACT
1 TAATATTATTATTATAAAAACT
*
59416 TAATATTATTATTTTAAAAA
1 TAATATTATTATTATAAAAA
59436 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATTATTATTATAAAAACT
Found at i:59445 original size:25 final size:24
Alignment explanation
Indices: 59385--59453 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 24
59375 TTATAAATAT
* *
59385 AAAATATAATAATATTATTATTATA
1 AAAATATTA-AATATTATTATTTTA
*
59410 AAAA-CTT-AATATTATTATTTTA
1 AAAATATTAAATATTATTATTTTA
*
59432 AAAATATTAGAATAAT-TTATTT
1 AAAATATTA-AATATTATTATTT
59454 AATACTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 18 0.50
23 2 0.06
24 7 0.19
25 9 0.25
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
AAAATATTAAATATTATTATTTTA
Found at i:59595 original size:21 final size:22
Alignment explanation
Indices: 59570--59613 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
59560 TCTATAAAAA
* *
59570 TAAAAATATTAT-ATTATATTT
1 TAAAAATATAATAAATATATTT
*
59591 TAAAATTATAATAAATATATTT
1 TAAAAATATAATAAATATATTT
59613 T
1 T
59614 TAAGGAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAAATATAATAAATATATTT
Done.