Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168020.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_274, 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: 40382
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
File 1 of 2
Found at i:174 original size:18 final size:16
Alignment explanation
Indices: 132--178 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
122 ATATATTAAA
132 GATTATATATATAGTTT
1 GATTATAT-TATAGTTT
*
149 TATTATATTATAGTTT
1 GATTATATTATAGTTT
165 GATTTAATATTATA
1 GA-TT-ATATTATA
179 TAACTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 9 0.35
17 9 0.35
18 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
GATTATATTATAGTTT
Found at i:277 original size:14 final size:13
Alignment explanation
Indices: 196--280 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 13
186 TAATTTTTAT
*
196 TTAATTATTACTAA
1 TTAATTA-TAATAA
*
210 TT-ATTATTGATAA
1 TTAATTA-TAATAA
223 -TAATTTATAATATA
1 TTAA-TTATAATA-A
*
237 TTAA-TACTACCTAA
1 TTAATTA-TA-ATAA
251 TTAATTATAATAA
1 TTAATTATAATAA
*
264 TTAGTTACTAATAA
1 TTAATTA-TAATAA
278 TTA
1 TTA
281 TTAAATTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
12 1 0.02
13 25 0.44
14 24 0.42
15 7 0.12
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (13 bp):
TTAATTATAATAA
Found at i:657 original size:23 final size:23
Alignment explanation
Indices: 624--708 Score: 90
Period size: 22 Copynumber: 3.9 Consensus size: 23
614 TCTTATTTAC
*
624 TATAA-TATATATTATCTATATA
1 TATAATTATATATTATATATATA
*
646 TATAATTATATATTATATATAAA
1 TATAATTATATATTATATATATA
*
669 TA-AATTAT-TATTATATTTATGA
1 TATAATTATATATTATATATAT-A
*
691 AATAA-T-TATATTATATAT
1 TATAATTATATATTATATAT
709 TAATTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
21 11 0.21
22 23 0.43
23 19 0.36
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TATAATTATATATTATATATATA
Found at i:662 original size:17 final size:17
Alignment explanation
Indices: 628--710 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 17
618 ATTTACTATA
*
628 ATATAT-ATTATCTA-T
1 ATATATAATTATATATT
643 ATATATAATTATATATT
1 ATATATAATTATATATT
* *
660 ATATATAAATAAATTATT
1 ATATATAATTATA-TATT
* * *
678 AT-TATATTTATGAAATA
1 ATATATAATTAT-ATATT
695 AT-TAT-ATTATATATT
1 ATATATAATTATATATT
710 A
1 A
711 ATTATAAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
15 10 0.19
16 11 0.21
17 25 0.47
18 7 0.13
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
ATATATAATTATATATT
Found at i:993 original size:10 final size:9
Alignment explanation
Indices: 911--998 Score: 51
Period size: 10 Copynumber: 9.7 Consensus size: 9
901 TTATAATTTA
911 TATTATAAAT
1 TATTAT-AAT
921 TATTA-AAT
1 TATTATAAT
*
929 ATAATATAAT
1 -TATTATAAT
*
939 TATTATGATT
1 TATTAT-AAT
949 TATTAATAA-
1 TATT-ATAAT
* *
958 TATAAGTAAA
1 TATTA-TAAT
968 TATT-TAAT
1 TATTATAAT
976 TA--ATAAT
1 TATTATAAT
983 TAGTTATAAT
1 TA-TTATAAT
993 TATTAT
1 TATTAT
999 TAGTTTTATG
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
7 6 0.10
8 9 0.15
9 19 0.31
10 25 0.41
11 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (9 bp):
TATTATAAT
Found at i:1128 original size:17 final size:17
Alignment explanation
Indices: 1108--1163 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
1098 AGCATAGTAA
1108 TATAAATAAATTATTAT
1 TATAAATAAATTATTAT
** *
1125 TATATTTAACTTATTAT
1 TATAAATAAATTATTAT
1142 TAT-AATAAGATTAATTAT
1 TATAAATAA-ATT-ATTAT
1160 TATA
1 TATA
1164 TTATATAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 3 0.10
17 19 0.63
18 8 0.27
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATAAATAAATTATTAT
Found at i:1206 original size:16 final size:16
Alignment explanation
Indices: 1164--1224 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
1154 AATTATTATA
* *
1164 TTATATAATATTTTAT
1 TTATATATTATTTAAT
*
1180 TTAAATGATTATTTAAT
1 TTATAT-ATTATTTAAT
1197 TTATATATTATTTAAT
1 TTATATATTATTTAAT
1213 GTTATTATATTA
1 -TTA-TATATTA
1225 ACTAATTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.39
17 16 0.42
18 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTATATATTATTTAAT
Found at i:1341 original size:15 final size:16
Alignment explanation
Indices: 1284--1343 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
1274 AATCATTGTT
1284 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
1302 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
1318 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
1332 ATTAATTAATAT
1 ATTAATTAATAT
1344 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:1348 original size:15 final size:14
Alignment explanation
Indices: 1285--1355 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 14
1275 ATCATTGTTA
*
1285 TTAATTAATATTAG
1 TTAATTAATAATAG
*
1299 TTAATTTATTAATTAG
1 TTAA-TTAATAA-TAG
*
1315 TAAATTAATAATA-
1 TTAATTAATAATAG
*
1328 TATAATTAATTAATAT
1 T-TAATTAA-TAATAG
1344 TTAATTTAATAA
1 TTAA-TTAATAA
1356 ATTAGTGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
13 1 0.02
14 12 0.26
15 22 0.48
16 11 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TTAATTAATAATAG
Found at i:1615 original size:23 final size:22
Alignment explanation
Indices: 1570--1624 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
1560 AAATATTTAA
*
1570 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
*
1592 TGTAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
1615 TATAA-TAATA
1 TATAATTAATA
1625 CAAATTGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 11 0.39
23 13 0.46
24 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:1718 original size:27 final size:26
Alignment explanation
Indices: 1668--1730 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
1658 ATTGTATATT
* * *
1668 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
1695 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
1721 TATAATAATT
1 T-TAATAATT
1731 AATGTATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:1904 original size:13 final size:13
Alignment explanation
Indices: 1886--1910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1876 ATAATAAAAA
1886 TTAAATATTTAAT
1 TTAAATATTTAAT
1899 TTAAATATTTAA
1 TTAAATATTTAA
1911 AATTTAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATATTTAAT
Found at i:1905 original size:27 final size:29
Alignment explanation
Indices: 1872--1928 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1862 ATATCGATAA
1872 TTAAATA-ATAAAAATT-AAATATTTAAT
1 TTAAATATATAAAAATTAAAATATTTAAT
* * *
1899 TTAAATATTTAAAATTTAAAATTTTTAAT
1 TTAAATATATAAAAATTAAAATATTTAAT
1928 T
1 T
1929 ATTAACATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
28 7 0.28
29 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAAATATATAAAAATTAAAATATTTAAT
Found at i:1942 original size:23 final size:24
Alignment explanation
Indices: 1898--1942 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
1888 AAATATTTAA
*
1898 TTTAAATATTTAAAATTTAAAATT
1 TTTAAATATTTAAAATTCAAAATT
* *
1922 TTTAATTA-TTAACATTCAAAA
1 TTTAAATATTTAAAATTCAAAA
1943 AATTAGTAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAAATATTTAAAATTCAAAATT
Found at i:2425 original size:24 final size:23
Alignment explanation
Indices: 2362--2425 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
2352 TTTGAAATAT
* *
2362 TAATAAATATAT-TAATT-TAAA
1 TAATAAATATTTATAATTACAAA
*
2383 TAATAAATATTTATTATTACAAA
1 TAATAAATATTTATAATTACAAA
*
2406 TAATCAAATATTTGTAATTA
1 TAAT-AAATATTTATAATTA
2426 AATATTAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.31
22 4 0.11
23 7 0.20
24 13 0.37
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATAAATATTTATAATTACAAA
Found at i:2491 original size:18 final size:19
Alignment explanation
Indices: 2468--2514 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
2458 GAATATCTAA
2468 ATATATTATAAAATAAT-T
1 ATATATTATAAAATAATGT
* * *
2486 ATATATAATATATTAATGT
1 ATATATTATAAAATAATGT
2505 ATA-ATTATAA
1 ATATATTATAA
2515 TTTATATGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATATTATAAAATAATGT
Found at i:2550 original size:22 final size:21
Alignment explanation
Indices: 2494--2560 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
2484 TTATATATAA
*
2494 TATATTAATGTATAATTATAATT
1 TATATTAAT-TATAA-AATAATT
* *
2517 TATATGATTTATAAGAATAATT
1 TATATTAATTATAA-AATAATT
*
2539 TGTATTAATTATTAAAATAATT
1 TATATTAATTA-TAAAATAATT
2561 AACTATTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 26 0.72
23 10 0.28
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
TATATTAATTATAAAATAATT
Found at i:2798 original size:14 final size:14
Alignment explanation
Indices: 2779--2805 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2769 ATAAACTTAT
2779 TGATCAAATTATTG
1 TGATCAAATTATTG
2793 TGATCAAATTATT
1 TGATCAAATTATT
2806 ACTAAATACT
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:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
TGATCAAATTATTG
Found at i:2927 original size:23 final size:22
Alignment explanation
Indices: 2901--2947 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2891 TTTTTATGTT
*
2901 ATATT-TAGTATTATAATTAGTTA
1 ATATTATA-TATTAT-ATAAGTTA
2924 ATATTATATATTATATAAGTTA
1 ATATTATATATTATATAAGTTA
2946 AT
1 AT
2948 TATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 11 0.50
24 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
ATATTATATATTATATAAGTTA
Found at i:3832 original size:27 final size:25
Alignment explanation
Indices: 3802--3860 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 25
3792 TAATTATATT
*
3802 TATAATATTATTAATTTATATATAATA
1 TATAATATTA-TAA-TTATAAATAATA
*
3829 TATAATATTATAATTATAAATAGTA
1 TATAATATTATAATTATAAATAATA
3854 TAATAAT
1 T-ATAAT
3861 TAATTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.38
26 8 0.28
27 10 0.34
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TATAATATTATAATTATAAATAATA
Found at i:3968 original size:15 final size:16
Alignment explanation
Indices: 3941--3970 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3931 TAGAAATTAT
3941 TATAAATTAATAATAG
1 TATAAATTAATAATAG
3957 TATAAA-TAATAATA
1 TATAAATTAATAATA
3971 TAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
TATAAATTAATAATAG
Found at i:4602 original size:17 final size:17
Alignment explanation
Indices: 4582--4618 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4572 TTTAAACATT
*
4582 ATAATAATTATTTTATA
1 ATAATAACTATTTTATA
*
4599 ATAATAACTGTTTTATA
1 ATAATAACTATTTTATA
4616 ATA
1 ATA
4619 TTATTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
ATAATAACTATTTTATA
Found at i:5939 original size:23 final size:24
Alignment explanation
Indices: 5899--5963 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
5889 TTTTTTGAAT
*
5899 AATTATTTGTAATTAATACTATATAA
1 AATTATTTAT-ATTAATAC-ATATAA
5925 AA-TATTTATA-TAATACATATAA
1 AATTATTTATATTAATACATATAA
*
5947 AATTATTTTTATTAATA
1 AATTATTTATATTAATA
5964 TAAAATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 8 0.23
23 13 0.37
24 6 0.17
25 6 0.17
26 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
AATTATTTATATTAATACATATAA
Found at i:5947 original size:22 final size:20
Alignment explanation
Indices: 5911--5972 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 20
5901 TTATTTGTAA
5911 TTAATACTATATAAAATATTT
1 TTAATAC-ATATAAAATATTT
5932 ATATAATACATATAAAATTATTT
1 -T-TAATACATATAAAA-TATTT
*
5955 TTATTA-ATATAAAATATT
1 TTAATACATATAAAATATT
5973 ATAATAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 4 0.11
20 8 0.22
21 4 0.11
22 10 0.27
23 11 0.30
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATACATATAAAATATTT
Found at i:5965 original size:42 final size:43
Alignment explanation
Indices: 5919--6020 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 43
5909 AATTAATACT
5919 ATATAAAATATTTAT-ATAA-TACATATAAAATTATTTTTATTA
1 ATATAAAATATTTATAATAAGTACA-ATAAAATTATTTTTATTA
* ** *
5961 ATATAAAATA-TTATAATAAGTATAATACTATTATTTTTGTTA
1 ATATAAAATATTTATAATAAGTACAATAAAATTATTTTTATTA
*
6003 AGAT-AAATATATTATAAT
1 ATATAAAATAT-TTATAAT
6021 TATAATATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 9 0.18
42 32 0.63
43 10 0.20
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (43 bp):
ATATAAAATATTTATAATAAGTACAATAAAATTATTTTTATTA
Found at i:6949 original size:21 final size:21
Alignment explanation
Indices: 6892--6952 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
6882 TATATTATAT
6892 TTATA-AACTATTATTAA-AACA
1 TTATATAA-TATTATTAATAA-A
6913 TTATATAATA-TA--AATAAA
1 TTATATAATATTATTAATAAA
6931 TTATATAATATTATTAATAAA
1 TTATATAATATTATTAATAAA
6952 T
1 T
6953 AATTTTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 13 0.37
19 4 0.11
20 2 0.06
21 14 0.40
22 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATATAATATTATTAATAAA
Found at i:7816 original size:17 final size:16
Alignment explanation
Indices: 7781--7854 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 16
7771 TTAACTGATC
7781 AATTAATTATAATTTATT
1 AATTAATT-TAA-TTATT
7799 ATATTAATTTAATTATT
1 A-ATTAATTTAATTATT
*
7816 AATATAATTTATTTTATT
1 AAT-TAATTTA-ATTATT
* *
7834 ATACT-ATTTATTTATT
1 A-ATTAATTTAATTATT
7850 AATTA
1 AATTA
7855 TTACTATACT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.04
16 9 0.19
17 18 0.38
18 11 0.23
19 8 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTAATTTAATTATT
Found at i:7817 original size:12 final size:12
Alignment explanation
Indices: 7783--7824 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7773 AACTGATCAA
7783 TTAATTA-TAAT
1 TTAATTATTAAT
*
7794 TTATTATATTAAT
1 TTAAT-TATTAAT
7807 TTAATTATTAAT
1 TTAATTATTAAT
*
7819 ATAATT
1 TTAATT
7825 TATTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.15
12 14 0.54
13 8 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAATTATTAAT
Found at i:7859 original size:21 final size:22
Alignment explanation
Indices: 7795--7861 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
7785 AATTATAATT
* *
7795 TATTATATTAATTTAATTATTAA
1 TATTA-ATTTATTTAATTATTAC
*
7818 TA-TAATTTATTTTATTA-TAC
1 TATTAATTTATTTAATTATTAC
*
7838 TATTTATTTA-TTAATTATTAC
1 TATTAATTTATTTAATTATTAC
7859 TAT
1 TAT
7862 ACTAATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 10 0.27
21 23 0.62
22 2 0.05
23 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTAATTTATTTAATTATTAC
Found at i:8043 original size:18 final size:18
Alignment explanation
Indices: 8000--8044 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
7990 ATCAAATATT
*
8000 ATTTA-AATATATATAAT
1 ATTTATAATATATATAAG
8017 ATTT-T-ATATATATAAG
1 ATTTATAATATATATAAG
8033 ATTTATAATATA
1 ATTTATAATATA
8045 AATTATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 14 0.58
17 5 0.21
18 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTTATAATATATATAAG
Found at i:8060 original size:17 final size:17
Alignment explanation
Indices: 8038--8079 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
8028 ATAAGATTTA
*
8038 TAATATAAATTATAATC
1 TAATATAAATAATAATC
*
8055 TAATATATATAATAATC
1 TAATATAAATAATAATC
8072 TAATATAA
1 TAATATAA
8080 TAAGGTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATATAAATAATAATC
Found at i:8777 original size:28 final size:28
Alignment explanation
Indices: 8739--8804 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
8729 AATTTTAATA
8739 AATATATTTATCATTAATAATAATAATTT
1 AATATA-TTATCATTAATAATAATAATTT
* * * *
8768 ACTATATTATTATTTATTATAATAATTT
1 AATATATTATCATTAATAATAATAATTT
8796 AATA-ATTAT
1 AATATATTAT
8805 TGAAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 5 0.16
28 22 0.69
29 5 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
AATATATTATCATTAATAATAATAATTT
Found at i:8813 original size:28 final size:28
Alignment explanation
Indices: 8758--8813 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
8748 ATCATTAATA
* **
8758 ATAATAATTTACTATATTATTATTTATT
1 ATAATAATTTAATATATTATTAAATATT
8786 ATAATAATTTAATA-ATTATTGAAATATT
1 ATAATAATTTAATATATTATT-AAATATT
8814 TGAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
ATAATAATTTAATATATTATTAAATATT
Found at i:9394 original size:17 final size:16
Alignment explanation
Indices: 9355--9408 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
9345 ATAGTTATAT
9355 TAATTATT-TTTTTATA
1 TAATTATTATTTTTA-A
9371 TAA--ATTATTTGTTAA
1 TAATTATTATTT-TTAA
*
9386 TAATTATTAATATTTAA
1 TAATTATT-ATTTTTAA
9403 TAATTA
1 TAATTA
9409 CTAAAAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 3 0.09
15 7 0.22
16 6 0.19
17 13 0.41
18 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTATTATTTTTAA
Found at i:9985 original size:23 final size:23
Alignment explanation
Indices: 9926--9971 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 23
9916 AAATAATAAT
9926 ATTTATTAA-TT-AA-T-AAATA
1 ATTTATTAATTTAAATTAAAATA
9945 ATTTATTAATTTAAATTAAAATA
1 ATTTATTAATTTAAATTAAAATA
9968 ATTT
1 ATTT
9972 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 2 0.09
22 1 0.04
23 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATTAATTTAAATTAAAATA
Found at i:10016 original size:17 final size:17
Alignment explanation
Indices: 9929--10023 Score: 56
Period size: 17 Copynumber: 5.6 Consensus size: 17
9919 TAATAATATT
* *
9929 TATTAATTAATAAATAA
1 TATTATTTAATTAATAA
9946 TTTATTAATTTAAATTAA-AA
1 --TATT-ATTT-AATTAATAA
* *
9966 TAAT-TTTAATT-TTAA
1 TATTATTTAATTAATAA
*
9981 TATTA--TAATTTAATTA
1 TATTATTTAA-TTAATAA
*
9997 TATTGTTTAATTAATAA
1 TATTATTTAATTAATAA
10014 TATTATTTAA
1 TATTATTTAA
10024 ATTACTTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
14 3 0.05
15 11 0.19
16 9 0.16
17 15 0.26
18 6 0.10
19 4 0.07
20 5 0.09
21 5 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
TATTATTTAATTAATAA
Found at i:10039 original size:33 final size:30
Alignment explanation
Indices: 9977--10054 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
9967 AATTTTAATT
* *
9977 TTAATATTATAATTT-AATTATATTGTTTAA
1 TTAATAATAT-ATTTAAATTATATTATTTAA
10007 TTAATAATATTATTTAAATTACTTATTATTTAA
1 TTAATAATA-TATTTAAATTA--TATTATTTAA
*
10040 ATAA-AATA-ATTTAAA
1 TTAATAATATATTTAAA
10055 CAATTGTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 19 0.46
31 6 0.15
32 4 0.10
33 12 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAATAATATATTTAAATTATATTATTTAA
Found at i:10460 original size:179 final size:181
Alignment explanation
Indices: 10052--10497 Score: 437
Period size: 179 Copynumber: 2.5 Consensus size: 181
10042 AAAATAATTT
* * * ** * * * *
10052 AAACAATTGTTTTATGACAAAACAAAAATTCATAATGATTTGAAATAGATAATTGTTTAAATGGC
1 AAACAATTATTTTATGATAAAATAAAAGGTCAAAATAATTTGAAATAGATAATTGTTTAAATAGT
* * *
10117 CAAAATTATTTGAGCTGATTCGATAAACTTATTTATGTTTTAAATCTCTAACTTATCAATTTTTA
66 CAAAAATATTTGAACTGATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTATCAATTTTTA
* *
10182 TAATATTAATAAAGTAATATTATTTTATTTAAGATAAGCTTTTATGAACTG
131 TAATATTAATAAAGTAATATTATTTTATTTAAGATAAGCATGTATGAACTG
* * * * *
10233 AAACAATTATTTTATGATAAAATATAATGTCATAATGATTTTAAATAGATAATTGTTTAAATAGT
1 AAACAATTATTTTATGATAAAATAAAAGGTCAAAATAATTTGAAATAGATAATTGTTTAAATAGT
* * *
10298 CAAAAATATTTGAACTTG-TTCGGTAAA-TAGATTT-T-TTTCT-AATTTCTTACTTAAT-AATT
66 CAAAAATATTTGAAC-TGATTCGATAAACT-GATTTATGTTT-TAAATCTCTAACTT-ATCAATT
* * * **
10357 TTT-TAAATATTAATAAA-TCAGTATTATTTTATTT-TGAATAAGCATGTCTGAGTTG
127 TTTAT-AATATTAATAAAGT-AATATTATTTTATTTAAG-ATAAGCATGTATGAACTG
* *
10412 AAGCAATTATTTTTTGACT-AAATAAAAGGTCAAAATAATTTGAAATAGATAATTGTTCT-AATA
1 AAACAATTATTTTATGA-TAAAATAAAAGGTCAAAATAATTTGAAATAGATAATTGTT-TAAATA
** * *
10475 GTCTTAACTATTTAAACTGATTC
64 GTCAAAAATATTTGAACTGATTC
10498 AGTAAACAAT
Statistics
Matches: 222, Mismatches: 33, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
178 5 0.02
179 127 0.57
180 7 0.03
181 81 0.36
182 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
AAACAATTATTTTATGATAAAATAAAAGGTCAAAATAATTTGAAATAGATAATTGTTTAAATAGT
CAAAAATATTTGAACTGATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTATCAATTTTTA
TAATATTAATAAAGTAATATTATTTTATTTAAGATAAGCATGTATGAACTG
Found at i:10542 original size:13 final size:12
Alignment explanation
Indices: 10515--10547 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
10505 AATAATTATA
10515 ATTAT-TAAATT
1 ATTATATAAATT
10526 ATTATATAAATTT
1 ATTATATAAA-TT
10539 ATTATATAA
1 ATTATATAA
10548 TAACATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATAAATT
Found at i:10719 original size:32 final size:33
Alignment explanation
Indices: 10677--10741 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
10667 TCAGTTAAAT
*
10677 TAGTTAAATTAATAATTA-AAAATGTTAATTATA
1 TAGTTAAATT-ATAATTATAAAATATTAATTATA
*
10710 TAGTT-AATTATAATTATATAATATTAATTATA
1 TAGTTAAATTATAATTATAAAATATTAATTATA
10742 ATGATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.24
32 17 0.59
33 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (33 bp):
TAGTTAAATTATAATTATAAAATATTAATTATA
Found at i:10750 original size:32 final size:31
Alignment explanation
Indices: 10683--10753 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
10673 AAATTAGTTA
* *
10683 AATTAATAATTAAAAATGTTAATTATATAGTT
1 AATT-ATAATTAAAAATATTAATTATATAGAT
*
10715 AATTATAATTATATAATATTAATTATA-ATGAT
1 AATTATAATTA-AAAATATTAATTATATA-GAT
10747 AATTATA
1 AATTATA
10754 CTAAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (31 bp):
AATTATAATTAAAAATATTAATTATATAGAT
Found at i:11225 original size:34 final size:32
Alignment explanation
Indices: 11187--11274 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 32
11177 AGATATAGTA
11187 ATATTATATTATTATTAATTATAATAATTAATTT
1 ATATTATATTATTATTAATTATAATAATT-A-TT
*
11221 ATATTAATTTTATTATTAA-TATAATAATTATT
1 ATATT-ATATTATTATTAATTATAATAATTATT
*
11253 A-ATT-TATTATAATATAATTATA
1 ATATTATATTATTAT-TAATTATA
11275 TTATTAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 7 0.15
30 3 0.06
31 7 0.15
32 3 0.06
33 1 0.02
34 15 0.31
35 12 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATATTATATTATTATTAATTATAATAATTATT
Found at i:11253 original size:27 final size:27
Alignment explanation
Indices: 11189--11281 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 27
11179 ATATAGTAAT
*
11189 ATTATATTATT-ATTAATTATAATAATTA
1 ATTATATTATTAATTTATTATAAT-A-TA
11217 ATT-TA-TATTAATTTTATTATTAATATA
1 ATTATATTATTAA-TTTATTA-TAATATA
11244 A-TA-ATTATTAATTTATTATAATATA
1 ATTATATTATTAATTTATTATAATATA
11269 ATTATATTATTAA
1 ATTATATTATTAA
11282 AATAATATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
25 8 0.14
26 15 0.26
27 20 0.35
28 10 0.18
29 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTATATTATTAATTTATTATAATATA
Found at i:11272 original size:22 final size:22
Alignment explanation
Indices: 11192--11333 Score: 71
Period size: 22 Copynumber: 6.2 Consensus size: 22
11182 TAGTAATATT
* *
11192 ATATTATTATTAA-TTATAATA
1 ATATAATTATTAATTTATTATA
11213 AT-TAATTTATATTAATTTTATTATTAA
1 ATATAA--T-TATTAA-TTTATTA-T-A
11240 TATAATAATTATTAATTTATTATA
1 -AT-ATAATTATTAATTTATTATA
* **
11264 ATATAATTA-TATTATTAAAATA
1 ATATAATTATTAAT-TTATTATA
*
11286 ATATAACTA-TAAGTTTATTATA
1 ATATAATTATTAA-TTTATTATA
**
11308 ATAATAAAAATTAA-TTATTA-A
1 AT-ATAATTATTAATTTATTATA
11329 ATATA
1 ATATA
11334 GTAATAAAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
20 5 0.05
21 8 0.08
22 38 0.40
23 14 0.15
24 4 0.04
25 6 0.06
26 8 0.08
27 7 0.07
28 3 0.03
30 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
ATATAATTATTAATTTATTATA
Found at i:11273 original size:37 final size:35
Alignment explanation
Indices: 11187--11287 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 35
11177 AGATATAGTA
11187 ATATT-ATATTATTATTAATTATAATAATTAATTT
1 ATATTAATATTATTATTAATTATAATAATTAATTT
* *
11221 ATATTAATTTTATTATTAATATAATAATTATTAATTT
1 ATATTAATATTATTATTAAT-T-ATAATAATTAATTT
* * *
11258 AT-TATAATATAATTATATTATTAAAATAAT
1 ATAT-TAATATTATTAT-TAATTATAATAAT
11288 ATAACTATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
34 5 0.09
35 13 0.24
36 8 0.15
37 26 0.47
38 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (35 bp):
ATATTAATATTATTATTAATTATAATAATTAATTT
Found at i:11312 original size:42 final size:40
Alignment explanation
Indices: 11185--11312 Score: 106
Period size: 42 Copynumber: 3.2 Consensus size: 40
11175 TAAGATATAG
* *
11185 TAAT-ATTATATTATTATTAATTATAA-TAATTAATTTA-TA
1 TAATAATTATATTATTA-AAATAATAACT-ATTAATTTATTA
* * *
11224 T--TAATTTTATTATTAATATAATAATTATTAATTTATTA
1 TAATAATTATATTATTAAAATAATAACTATTAATTTATTA
11262 TAATATAATTATATTATTAAAATAATATAACTA-TAAGTTTATTA
1 T-A-ATAATTATATTATTAAAAT-A-ATAACTATTAA-TTTATTA
11306 TAATAAT
1 TAATAAT
11313 AAAAATTAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
37 16 0.22
38 15 0.21
39 1 0.01
42 21 0.29
43 5 0.07
44 14 0.19
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (40 bp):
TAATAATTATATTATTAAAATAATAACTATTAATTTATTA
Found at i:11396 original size:14 final size:14
Alignment explanation
Indices: 11377--11403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11367 AATACATATT
11377 ATAATTTAATTATA
1 ATAATTTAATTATA
11391 ATAATTTAATTAT
1 ATAATTTAATTAT
11404 GTTATAATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTATA
Found at i:11460 original size:13 final size:12
Alignment explanation
Indices: 11442--11474 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
11432 AATTATGTTA
11442 TTATATAATAAAT
1 TTATATAAT-AAT
11455 TTATATAATAAT
1 TTATATAATAAT
11467 TTA-ATAAT
1 TTATATAAT
11475 TATAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATATAATAAT
Found at i:11815 original size:179 final size:181
Alignment explanation
Indices: 11485--11937 Score: 453
Period size: 179 Copynumber: 2.5 Consensus size: 181
11475 TATAATTATT
* * * * ** * *
11485 GTTTACTGAATCAGTTTAAATAGTTAAGACTA-TTAGAACAATTATCTATTTCAAATTATTTTGA
1 GTTTACCGAATCAGCTCAAATAATTTTGACTATTTA-AACAATTATCTATTTCAAATCATTATGA
* * * * *
11549 CCTTTTA-TTTAGTCAAAAAATAATTGCTTCAACTCAGACATGCTTATTCAAAATAAAATAATAC
65 CATTTTATTTTA-TCATAAAATAATTGTTTCAACTCAGAAAAGCTTATTCAAAATAAAATAATAC
*
11613 TGATTTATTAATATTTAAAAAATT-ATTAAGTAAGA-AATTAGAAA-A-AAATCTA
129 TGATTTATTAATATTTAAAAAATTGA-TAAGTAAGAGAATTA-AAACATAAAT-AA
* * *
11665 -TTTACCGAA-CAAGTTCAAATATTTTTGACTATTTAAACAATTATCTATTTAAAATCATTATGA
1 GTTTACCGAATC-AGCTCAAATAATTTTGACTATTTAAACAATTATCTATTTCAAATCATTATGA
* ** * *
11728 CATTATATTTTATCATAAAATAATTGTTTCAGTTCATAAAAGCTTA-TCTTAAATAAAATAATA-
65 CATTTTATTTTATCATAAAATAATTGTTTCAACTCAGAAAAGCTTATTC-AAAATAAAATAATAC
* * *
11791 TTACTTTATTAATA-TTATAAAAATTGATAAGTTAGAGATTTAAAACATAAATAA
129 TGA-TTTATTAATATTTA-AAAAATTGATAAGTAAGAGAATTAAAACATAAATAA
* * *
11845 GTTTATCGAATCAGCTCAAATAATTTTGGCCATTTAAACAATTATCTATTTCAAATCATTATGA-
1 GTTTACCGAATCAGCTCAAATAATTTTGACTATTTAAACAATTATCTATTTCAAATCATTATGAC
* * *
11909 ATTTTTGTTTTGTCATAAAACAATTGTTT
66 A-TTTTATTTTATCATAAAATAATTGTTT
11938 AAATTATTTT
Statistics
Matches: 228, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
178 8 0.04
179 122 0.54
180 15 0.07
181 82 0.36
182 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
GTTTACCGAATCAGCTCAAATAATTTTGACTATTTAAACAATTATCTATTTCAAATCATTATGAC
ATTTTATTTTATCATAAAATAATTGTTTCAACTCAGAAAAGCTTATTCAAAATAAAATAATACTG
ATTTATTAATATTTAAAAAATTGATAAGTAAGAGAATTAAAACATAAATAA
Found at i:11969 original size:30 final size:29
Alignment explanation
Indices: 11935--12004 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
11925 AAAACAATTG
* *
11935 TTTAAATTATT-TTATTTAAATAATAAGTAA
1 TTTAAATTATTATTAATTAAACAAT-A-TAA
11965 TTTAAATAATATTATTAATTAAACAATATAA
1 TTTAAAT--TATTATTAATTAAACAATATAA
11996 -TTAAATTAT
1 TTTAAATTAT
12005 AATATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
28 3 0.09
30 13 0.37
31 3 0.09
32 5 0.14
33 11 0.31
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TTTAAATTATTATTAATTAAACAATATAA
Found at i:11992 original size:17 final size:17
Alignment explanation
Indices: 11966--11999 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11956 AATAAGTAAT
* *
11966 TTAAATAATATTATTAA
1 TTAAACAATATAATTAA
11983 TTAAACAATATAATTAA
1 TTAAACAATATAATTAA
12000 ATTATAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAACAATATAATTAA
Found at i:12628 original size:16 final size:16
Alignment explanation
Indices: 12594--12637 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
12584 ATTAAATATT
*
12594 AATAA-TTAT-TAACA
1 AATAATTTATATAAAA
12608 AATAATTTATATAAAA
1 AATAATTTATATAAAA
*
12624 AATAATTAATATAA
1 AATAATTTATATAA
12638 CTATAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 17 0.65
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATTTATATAAAA
Found at i:13063 original size:21 final size:22
Alignment explanation
Indices: 13034--13082 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
13024 ATTATTATTA
*
13034 ATTATATTAATAATTAAT-TAAT
1 ATTATATT-ATAATAAATATAAT
*
13056 ATTA-ATTATTATAAATATAAT
1 ATTATATTATAATAAATATAAT
13077 ATTATA
1 ATTATA
13083 ATGTTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATATTATAATAAATATAAT
Found at i:13084 original size:29 final size:27
Alignment explanation
Indices: 13020--13084 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
13010 AGAGTAATTC
*
13020 AAATATTAT--TATTAATTATATTAAT
1 AAATATTATAATATTAATTATATAAAT
* *
13045 AATTAAT-TAATATTAATTATTATAAAT
1 AAATATTATAATATTAATTA-TATAAAT
13072 ATAATATTATAAT
1 A-AATATTATAAT
13085 GTTAGTTACC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
24 1 0.03
25 5 0.17
26 9 0.30
27 7 0.23
28 4 0.13
29 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATATTATAATATTAATTATATAAAT
Found at i:13942 original size:14 final size:14
Alignment explanation
Indices: 13924--14015 Score: 67
Period size: 12 Copynumber: 7.2 Consensus size: 14
13914 ATAATTAGAT
13924 TATTATATATATTA
1 TATTATATATATTA
*
13938 GATTATA-AT-TTA
1 TATTATATATATTA
* *
13950 TATTATAAATCTTA
1 TATTATATATATTA
13964 TA-TATATATA--A
1 TATTATATATATTA
13975 TATTATATATATT-
1 TATTATATATATTA
* *
13988 TA-AATA-ATATTT
1 TATTATATATATTA
*
14000 TATTAAATAT-TTA
1 TATTATATATATTA
14013 TAT
1 TAT
14016 ATTATTATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
11 8 0.13
12 22 0.35
13 19 0.31
14 13 0.21
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (14 bp):
TATTATATATATTA
Found at i:13980 original size:16 final size:15
Alignment explanation
Indices: 13941--13986 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
13931 TATATTAGAT
13941 TATAATTTATAT-TA
1 TATAATTTATATATA
13955 TA-AATCTTATATATA
1 TATAAT-TTATATATA
13970 TATAATATTATATATA
1 TATAAT-TTATATATA
13986 T
1 T
13987 TTAAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 4 0.14
16 13 0.46
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAATTTATATATA
Found at i:13985 original size:20 final size:20
Alignment explanation
Indices: 13962--14020 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
13952 TTATAAATCT
13962 TATATATATATAATATTATA
1 TATATATATATAATATTATA
* * *
13982 TATATTTAAATAATATTTTA
1 TATATATATATAATATTATA
* *
14002 T-TAAATATTTATATATTAT
1 TATATATATATA-ATATTAT
14021 TATTAAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATATATATAATATTATA
Found at i:14020 original size:18 final size:17
Alignment explanation
Indices: 13948--14022 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 17
13938 GATTATAATT
*
13948 TATATTA-TAAATCTTA
1 TATATTATTAAATATTA
13964 TATA-TA-TATAATATTA
1 TATATTATTA-AATATTA
13980 TATA-TATTTAAATA--A
1 TATATTA-TTAAATATTA
*
13995 TATTTTATTAAATATTTA
1 TATATTATTAAATA-TTA
14013 TATATTATTA
1 TATATTATTA
14023 TTAAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 15 0.31
16 18 0.37
17 4 0.08
18 12 0.24
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATATTA
Found at i:14021 original size:23 final size:22
Alignment explanation
Indices: 13947--14021 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
13937 AGATTATAAT
* *
13947 TTATATTATAAATCTTATATATA
1 TTATTTTATAAATATT-TATATA
* * *
13970 TATAATATTATATATATTTAAATA
1 T-T-ATTTTATAAATATTTATATA
*
13994 ATATTTTATTAAATATTTATATA
1 TTATTTTA-TAAATATTTATATA
14017 TTATT
1 TTATT
14022 ATTAAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
22 5 0.12
23 18 0.44
24 6 0.15
25 12 0.29
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTTTATAAATATTTATATA
Found at i:14188 original size:12 final size:12
Alignment explanation
Indices: 14163--14206 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
14153 AGTATAATAA
*
14163 AATACATTATATT
1 AATA-ATTAAATT
14176 AATAATTAAATT
1 AATAATTAAATT
14188 AATAA-TAAATT
1 AATAATTAAATT
14199 -ATAATTAA
1 AATAATTAA
14207 TTGATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 4 0.14
11 9 0.31
12 12 0.41
13 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATTAAATT
Found at i:16070 original size:20 final size:20
Alignment explanation
Indices: 16004--16074 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
15994 TTATAATTAT
* *
16004 AATATATTCATCTTAACAAA
1 AATATATTTATCTTAATAAA
* *
16024 AATAATAGTATTATACTT-ATTAT
1 AAT-ATA-T-TTAT-CTTAATAAA
16047 AATATATTTATCTTAATAAA
1 AATATATTTATCTTAATAAA
16067 AATA-ATTT
1 AATATATTT
16075 TATATGTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
19 7 0.17
20 14 0.35
21 4 0.10
22 4 0.10
23 8 0.20
24 3 0.08
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (20 bp):
AATATATTTATCTTAATAAA
Found at i:16630 original size:16 final size:16
Alignment explanation
Indices: 16609--16639 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16599 CATTATACTA
*
16609 AATTAATCTTAATATT
1 AATTAATATTAATATT
16625 AATTAATATTAATAT
1 AATTAATATTAATAT
16640 AAAATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATATTAATATT
Found at i:16816 original size:14 final size:14
Alignment explanation
Indices: 16779--16821 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
16769 ATATCTTATT
*
16779 ATTTATTATTAATA
1 ATTTATTAATAATA
16793 ATGTTA-TAATAATA
1 AT-TTATTAATAATA
*
16807 ATTTATTAATTATA
1 ATTTATTAATAATA
16821 A
1 A
16822 ATTAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTTATTAATAATA
Found at i:16906 original size:18 final size:18
Alignment explanation
Indices: 16875--16919 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
16865 TGACTTATGA
16875 TAATATTAACATATAATAT
1 TAATATT-ACATATAATAT
16894 TAATATTACATATAATAT
1 TAATATTACATATAATAT
*
16912 TCATATTA
1 TAATATTA
16920 TATTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATATTACATATAATAT
Found at i:17488 original size:17 final size:17
Alignment explanation
Indices: 17468--17504 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17458 TTATTAATAA
*
17468 TATTATAAAACAGTTAT
1 TATTATAAAACAATTAT
*
17485 TATTATAAAATAATTAT
1 TATTATAAAACAATTAT
17502 TAT
1 TAT
17505 AATGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTATAAAACAATTAT
Found at i:17708 original size:21 final size:21
Alignment explanation
Indices: 17663--17709 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
17653 TATACTAGAT
17663 TATTATAATTTAAATAACAGA
1 TATTATAATTTAAATAACAGA
**
17684 -ATTATAATTGTTCATAACA-A
1 TATTATAATT-TAAATAACAGA
17704 TATTAT
1 TATTAT
17710 TTGTGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (21 bp):
TATTATAATTTAAATAACAGA
Found at i:17997 original size:37 final size:34
Alignment explanation
Indices: 17955--18044 Score: 83
Period size: 35 Copynumber: 2.5 Consensus size: 34
17945 TTTAATTAGT
*
17955 ATATTATAATAATTTATTATATAAAAATAATATGTTA
1 ATATTAT-AT-ATTTATTATAT-AAAATAATATATTA
* * *
17992 ATATTATGACCATTTATT-TATAATATAATATATTT
1 ATATTAT-A-TATTTATTATATAAAATAATATATTA
*
18027 AGATTATATATTTATTAT
1 ATATTATATATTTATTAT
18045 TTGAATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
33 7 0.16
34 2 0.05
35 17 0.39
36 3 0.07
37 15 0.34
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (34 bp):
ATATTATATATTTATTATATAAAATAATATATTA
Found at i:18293 original size:14 final size:14
Alignment explanation
Indices: 18128--18318 Score: 62
Period size: 15 Copynumber: 13.2 Consensus size: 14
18118 TAATTCCAAA
*
18128 AATATAATAATT-T
1 AATATTATAATTAT
*
18141 -ATATTATTATTTAT
1 AATATTA-TAATTAT
*
18155 ACTATTATTAATTTAT
1 AATATTA-TAA-TTAT
*
18171 AATAATT-TCTATTAT
1 AAT-ATTAT-AATTAT
*
18186 AATATTCATAAATAT
1 AATATT-ATAATTAT
*
18201 AAT-TTATTATTTAT
1 AATATTA-TAATTAT
18215 AAATAGTTTATAAATTATTT
1 -AATA--TTAT-AATTA--T
18235 AATA--ATAATT-T
1 AATATTATAATTAT
*
18246 AA-ATTAATTATTAT
1 AATATT-ATAATTAT
**
18260 GCTATTTATAATTAT
1 AATA-TTATAATTAT
18275 AATATTATATATTAT
1 AATATTATA-ATTAT
18290 -ATA-TA-AATTAAT
1 AATATTATAATT-AT
*
18302 AATATTATAAATAT
1 AATATTATAATTAT
18316 AAT
1 AAT
18319 TATTTAATCA
Statistics
Matches: 133, Mismatches: 18, Indels: 53
0.65 0.09 0.26
Matches are distributed among these distances:
10 1 0.01
11 6 0.05
12 8 0.06
13 15 0.11
14 31 0.23
15 46 0.35
16 10 0.08
17 4 0.03
18 7 0.05
19 4 0.03
20 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (14 bp):
AATATTATAATTAT
Found at i:19212 original size:23 final size:22
Alignment explanation
Indices: 19167--19213 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
19157 TTAAAATATA
*
19167 ATTAACTTATATAATATATAAT
1 ATTAACTAATATAATATATAAT
19189 ATTAACTAATTATAATACTA-AAT
1 ATTAACTAA-TATAATA-TATAAT
19212 AT
1 AT
19214 AACATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAACTAATATAATATATAAT
Found at i:19328 original size:14 final size:14
Alignment explanation
Indices: 19309--19335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19299 AGTATTTAGT
19309 AATAATTTGATCAC
1 AATAATTTGATCAC
19323 AATAATTTGATCA
1 AATAATTTGATCA
19336 ATAAGTTTAT
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:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
AATAATTTGATCAC
Found at i:19589 original size:22 final size:21
Alignment explanation
Indices: 19554--19618 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
19544 TATAATAGTT
19554 AATTATTTTAATAATTAATACA
1 AATTATTTT-ATAATTAATACA
* * *
19576 AATTATTCTTATAAATCATATA
1 AATTATT-TTATAATTAATACA
*
19598 AATTATAATTATACATTAATA
1 AATTAT-TTTATA-ATTAATA
19619 TATTATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTATTTTATAATTAATACA
Found at i:19644 original size:18 final size:19
Alignment explanation
Indices: 19600--19646 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
19590 ATCATATAAA
19600 TTATAAT-TATACATTAAT
1 TTATAATATATACATTAAT
* * *
19618 ATATTATATATA-ATTATT
1 TTATAATATATACATTAAT
19636 TTATAATATAT
1 TTATAATATAT
19647 TTAGATATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATAATATATACATTAAT
Found at i:20222 original size:13 final size:14
Alignment explanation
Indices: 20177--20220 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
20167 GAATGTTAAT
20177 AATTAAAA-ATTTTA
1 AATTAAAATA-TTTA
*
20191 AATTTTAAATATTTA
1 AA-TTAAAATATTTA
20206 AATTAAAATATTTA
1 AATTAAAATATTTA
20220 A
1 A
20221 TTTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
15 11 0.42
16 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:20222 original size:28 final size:29
Alignment explanation
Indices: 20177--20234 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
20167 GAATGTTAAT
20177 AATTAAAAATTTTAAATTTTAAATATTTA
1 AATTAAAAATTTTAAATTTTAAATATTTA
* *
20206 AATT-AAAATATTT-AATTTTTATTATTTA
1 AATTAAAAAT-TTTAAATTTTAAATATTTA
20234 A
1 A
20235 TTGTCGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
AATTAAAAATTTTAAATTTTAAATATTTA
Found at i:20380 original size:16 final size:15
Alignment explanation
Indices: 20351--20385 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
20341 ACTATTCACA
20351 TATACATTTAATTAT
1 TATACATTTAATTAT
*
20366 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
20382 TATA
1 TATA
20386 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:20409 original size:27 final size:28
Alignment explanation
Indices: 20360--20414 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
20350 ATATACATTT
* *
20360 AATTATTATACTATTTGATTA-TTATAA
1 AATTATTATACTATTTAAATATTTATAA
20387 AATTATTA-ACTAATTTAAATATTTATAA
1 AATTATTATACT-ATTTAAATATTTATAA
20415 TGAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
AATTATTATACTATTTAAATATTTATAA
Found at i:20645 original size:15 final size:15
Alignment explanation
Indices: 20621--20686 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 15
20611 TAATTTATTA
*
20621 AATTAAATATTAATT
1 AATTATATATTAATT
20636 AATTATATATT-ATT
1 AATTATATATTAATT
*
20650 AATT-TACTAATTAATA
1 AATTATA-T-ATTAATT
20666 AATTAACTAATATTAATT
1 AATT-A-T-ATATTAATT
20684 AAT
1 AAT
20687 AACAATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 13 0.32
16 6 0.15
18 9 0.22
19 2 0.05
20 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATATATTAATT
Found at i:20791 original size:17 final size:16
Alignment explanation
Indices: 20746--20807 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 16
20736 TATAATTAGT
20746 TAATATAATAACATTAAA
1 TAATAT-ATAA-ATTAAA
20764 TAATATATAAATTAAA
1 TAATATATAAATTAAA
* *
20780 TAATCATTTAAAATAAAA
1 TAAT-ATAT-AAATTAAA
*
20798 TATTATATAA
1 TAATATATAA
20808 TATAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 12 0.32
17 10 0.26
18 16 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATATATAAATTAAA
Found at i:20863 original size:17 final size:16
Alignment explanation
Indices: 20808--20859 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
20798 TATTATATAA
20808 TATAATAATTAATCTTAT
1 TATAATAA-TAAT-TTAT
* *
20826 TATAATAATAAGTTAAA
1 TATAATAATAA-TTTAT
20843 TATAATAATAATTTAT
1 TATAATAATAATTTAT
20859 T
1 T
20860 TATATTACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.14
17 16 0.55
18 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TATAATAATAATTTAT
Found at i:21100 original size:18 final size:19
Alignment explanation
Indices: 21045--21110 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
21035 ATTATATTAT
* *
21045 ATTAATAATTTATAATATAA
1 ATTATTAATTAATAATA-AA
* * *
21065 ATTATAAACTAATTATAAA
1 ATTATTAATTAATAATAAA
21084 A-TATTAATTAATAATAATTA
1 ATTATTAATTAATAATAA--A
21104 ATTATTA
1 ATTATTA
21111 TCATAATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
18 13 0.37
19 3 0.09
20 14 0.40
21 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTATTAATTAATAATAAA
Found at i:21129 original size:18 final size:17
Alignment explanation
Indices: 21028--21129 Score: 58
Period size: 18 Copynumber: 6.0 Consensus size: 17
21018 TTAATAAATC
21028 ATAATATATTATATTAT
1 ATAATATATTATATTAT
*
21045 ATTAATA-ATT-TATAAT
1 A-TAATATATTATATTAT
*
21061 ATAA-ATTATAAACTAATTAT
1 ATAATA-TAT-TA-T-ATTAT
21081 A-AA-ATATTA-ATTA-
1 ATAATATATTATATTAT
21094 ATAATA-ATTAATTATTAT
1 ATAATATATT-A-TATTAT
21112 CATAATATATTATATTAT
1 -ATAATATATTATATTAT
21130 TCTAGTCATA
Statistics
Matches: 66, Mismatches: 4, Indels: 29
0.67 0.04 0.29
Matches are distributed among these distances:
13 1 0.02
14 10 0.15
15 5 0.08
16 8 0.12
17 9 0.14
18 14 0.21
19 11 0.17
20 8 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATATATTATATTAT
Found at i:21319 original size:23 final size:22
Alignment explanation
Indices: 21293--21373 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 22
21283 ATAAATTAAT
21293 AATATAATATAATTAATTTCATA
1 AATATAATATAATTAATTT-ATA
*
21316 AATATAATAATAATTTATTTAT-
1 AATATAAT-ATAATTAATTTATA
21338 -ATATAATAT-A-TAATTATATA
1 AATATAATATAATTAATT-TATA
* *
21358 TAGATAATATATATTA
1 AATATAATATA-ATTA
21374 TAGTAAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.08
19 4 0.08
20 2 0.04
21 15 0.31
23 11 0.23
24 12 0.25
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
AATATAATATAATTAATTTATA
Found at i:21367 original size:21 final size:21
Alignment explanation
Indices: 21319--21375 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
21309 TTTCATAAAT
* *
21319 ATAATA-ATAATTTATTTATAT
1 ATAATATATAA-TTATATATAG
21340 ATAATATATAATTATATATAG
1 ATAATATATAATTATATATAG
21361 ATAATATAT-ATTATA
1 ATAATATATAATTATA
21376 GTAAATAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 6 0.18
21 23 0.70
22 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAATATATAATTATATATAG
Found at i:21639 original size:26 final size:26
Alignment explanation
Indices: 21572--21652 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 26
21562 ATGGATAAAA
*
21572 ATTAATACATTTATAATTAATAAATTAT
1 ATTAATACA-TT-TAATTATTAAATTAT
*
21600 A-TAGTATA-AATTAATTATTAAATTAT
1 ATTA--ATACATTTAATTATTAAATTAT
21626 ATTAATACATTTAA-TATTAAAATTAT
1 ATTAATACATTTAATTATT-AAATTAT
21652 A
1 A
21653 AATATTAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 7 0.16
26 28 0.62
27 5 0.11
28 2 0.04
29 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (26 bp):
ATTAATACATTTAATTATTAAATTAT
Found at i:22228 original size:12 final size:13
Alignment explanation
Indices: 22197--22230 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
22187 TTTTATATAT
*
22197 TATTATTAACTTG
1 TATTATAAACTTG
22210 TATTATAAACTTG
1 TATTATAAACTTG
22223 -ATTATAAA
1 TATTATAAA
22231 TTAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
TATTATAAACTTG
Found at i:22575 original size:7 final size:7
Alignment explanation
Indices: 22565--22620 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
22555 TATTATATAC
22565 AATTATT
1 AATTATT
22572 AATTATT
1 AATTATT
22579 AATTATTT
1 AATTA-TT
*
22587 AATATAAT
1 AAT-TATT
*
22595 AATAATT
1 AATTATT
22602 -ATTATAT
1 AATTAT-T
22609 AATTTATT
1 AA-TTATT
22617 AATT
1 AATT
22621 TAAGTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 4 0.10
7 17 0.43
8 13 0.32
9 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTATT
Found at i:22619 original size:19 final size:18
Alignment explanation
Indices: 22566--22620 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
22556 ATTATATACA
22566 ATTAT-TAATTATTAATT
1 ATTATATAATTATTAATT
*
22583 ATTTAATATAA-TAATAATT
1 A-TT-ATATAATTATTAATT
22602 ATTATATAATTTATTAATT
1 ATTATATAA-TTATTAATT
22621 TAAGTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 17 0.55
20 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATATAATTATTAATT
Found at i:22657 original size:28 final size:28
Alignment explanation
Indices: 22626--22682 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
22616 TAATTTAAGT
* *
22626 TATATTAATAACATTTATATTAATATTA
1 TATATTAATAACAATTATAATAATATTA
*
22654 TATATTAATAATAATTATAATAATATTA
1 TATATTAATAACAATTATAATAATATTA
22682 T
1 T
22683 TCTTAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
TATATTAATAACAATTATAATAATATTA
Found at i:22773 original size:6 final size:6
Alignment explanation
Indices: 22693--22793 Score: 50
Period size: 6 Copynumber: 16.8 Consensus size: 6
22683 TCTTAAAATG
* * * *
22693 AATTAT AA-TAT AATCAT AATATTT AATT-G GATTAT AATT-T AATTA-
1 AATTAT AATTAT AATTAT AAT-TAT AATTAT AATTAT AATTAT AATTAT
* * * *
22738 ATATTA- ACTAAT AATTTT AAATTAAT AATTAT AATTAT AATTAAT AAGTAT
1 A-ATTAT AATTAT AATTAT -AATT-AT AATTAT AATTAT AATT-AT AATTAT
22789 AATTA
1 AATTA
22794 ATAAATACAA
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
5 16 0.23
6 37 0.52
7 17 0.24
8 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:22773 original size:13 final size:13
Alignment explanation
Indices: 22757--22797 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
22747 AATAATTTTA
22757 AATTAATAATT-AT
1 AATT-ATAATTAAT
22770 AATTATAATTAAT
1 AATTATAATTAAT
*
22783 AAGTATAATTAAT
1 AATTATAATTAAT
22796 AA
1 AA
22798 ATACAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
AATTATAATTAAT
Found at i:22781 original size:19 final size:19
Alignment explanation
Indices: 22757--22793 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22747 AATAATTTTA
*
22757 AATTAATAATTATAATTAT
1 AATTAATAAGTATAATTAT
22776 AATTAATAAGTATAATTA
1 AATTAATAAGTATAATTA
22794 ATAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AATTAATAAGTATAATTAT
Found at i:22781 original size:24 final size:25
Alignment explanation
Indices: 22723--22781 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
22713 ATTTAATTGG
*
22723 ATTATAATTTAATTAATATTAACTA
1 ATTATAATTAAATTAATATTAACTA
* *
22748 ATAAT-TTTAAATTAATAATT-A-TA
1 ATTATAATTAAATTAAT-ATTAACTA
22771 ATTATAATTAA
1 ATTATAATTAA
22782 TAAGTATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
23 6 0.22
24 14 0.52
25 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAATTAAATTAATATTAACTA
Found at i:23843 original size:28 final size:29
Alignment explanation
Indices: 23803--23865 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
23793 TAATAAATGT
* **
23803 TTTAATATTTATTCTTA-AAATTAAATTAA
1 TTTAATATATATT-TTAGAAATTAAACAAA
*
23832 TTTAATA-ATATTTTAGATATTAAACAAA
1 TTTAATATATATTTTAGAAATTAAACAAA
23860 TTTAAT
1 TTTAAT
23866 TAAAAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 19 0.66
29 7 0.24
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (29 bp):
TTTAATATATATTTTAGAAATTAAACAAA
Found at i:23919 original size:19 final size:21
Alignment explanation
Indices: 23895--23957 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 21
23885 AATTATATAT
*
23895 ATAATTTTA-AAA-AATTTTA
1 ATAATTTTATAAATAATTTAA
23914 ATAATTTTATAAATAATTTAA
1 ATAATTTTATAAATAATTTAA
*
23935 ATATTATTTTTATAAACAATTTA
1 ATA--A-TTTTATAAATAATTTA
23958 CAATTAGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
21 9 0.24
23 1 0.03
24 15 0.41
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATTTTATAAATAATTTAA
Found at i:24114 original size:19 final size:18
Alignment explanation
Indices: 24032--24114 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 18
24022 ATAATACCTA
24032 ATAATAATAATATTAATATT
1 ATAAT-ATAATATTAA-ATT
24052 ATTAAT-TAATATTAAATTT
1 A-TAATATAATATTAAA-TT
* * *
24071 ATGAATATTGATTTTAATTT
1 AT-AATA-TAATATTAAATT
24091 A-AATATAATAATTAAATT
1 ATAATATAAT-ATTAAATT
24109 ATAATA
1 ATAATA
24115 GTATAATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
17 3 0.06
18 13 0.26
19 19 0.38
20 4 0.08
21 11 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATAATATAATATTAAATT
Found at i:24439 original size:27 final size:28
Alignment explanation
Indices: 24392--24456 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
24382 TATAAGTATC
24392 AATAATATTATTATTGAT-AA-AATAAAT
1 AATAAT-TTATTATTGATAAATAATAAAT
24419 AAGTAATTTATTATT-ATTAAATAATAAAT
1 AA-TAATTTATTATTGA-TAAATAATAAAT
24448 AAT-ATTTAT
1 AATAATTTAT
24457 AATTTAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
26 1 0.03
27 17 0.50
28 7 0.21
29 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
AATAATTTATTATTGATAAATAATAAAT
Found at i:24832 original size:15 final size:15
Alignment explanation
Indices: 24812--24844 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
24802 TATTTATTTC
24812 AATAATAAGA-ATTAT
1 AATAATAA-ACATTAT
24827 AATAATAAACATTAT
1 AATAATAAACATTAT
24842 AAT
1 AAT
24845 TATTAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AATAATAAACATTAT
Found at i:24922 original size:16 final size:15
Alignment explanation
Indices: 24887--24924 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
24877 AGTATAATAT
24887 TATAATAA-ATTTTA
1 TATAATAATATTTTA
24901 TA-AATAATATTTTA
1 TATAATAATATTTTA
24915 TGATAATAAT
1 T-ATAATAAT
24925 TATAGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 9 0.43
15 1 0.05
16 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATAATAATATTTTA
Found at i:25122 original size:24 final size:23
Alignment explanation
Indices: 25056--25122 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
25046 TCATATAAAT
* *
25056 AATAATT-ATATATATAATTAGTA
1 AATAATTAATAT-TATAAATAATA
*
25079 ACTAAATTAATAATT-TAAATAATA
1 AAT-AATTAAT-ATTATAAATAATA
25103 AATAATTACATATTATAAAT
1 AATAATTA-ATATTATAAAT
25123 TGTATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
23 10 0.29
24 20 0.57
25 3 0.09
26 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (23 bp):
AATAATTAATATTATAAATAATA
Found at i:25224 original size:18 final size:19
Alignment explanation
Indices: 25191--25226 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25181 AGTTAATTGA
*
25191 CTTGTTCTAATAAATTAAG
1 CTTGTACTAATAAATTAAG
25210 CTTGTACTAAT-AATTAA
1 CTTGTACTAATAAATTAA
25227 TAGTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
CTTGTACTAATAAATTAAG
Found at i:25317 original size:26 final size:25
Alignment explanation
Indices: 25288--25365 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
25278 TTAAATCTCT
*
25288 ATAAATAATATTATTTATATTATATG
1 ATAAATAATA-TATTTATATTATATA
* * * *
25314 ATAATTATTATATATATAATTAAATA
1 ATAAATAATATATTTAT-ATTATATA
25340 ATAAATAAGTAATATTTAT-TTATATA
1 ATAAATAA-T-ATATTTATATTATATA
25366 TTTATAGAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
25 6 0.15
26 26 0.65
27 1 0.03
28 7 0.17
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
ATAAATAATATATTTATATTATATA
Found at i:25340 original size:23 final size:22
Alignment explanation
Indices: 25288--25341 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
25278 TTAAATCTCT
* *
25288 ATAAATAA-TATTATTTATATT
1 ATAAATAATTATTATATATATA
*
25309 ATATGATAATTATTATATATATA
1 ATA-AATAATTATTATATATATA
25332 ATTAAATAAT
1 A-TAAATAAT
25342 AAATAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 4 0.15
23 17 0.65
24 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAAATAATTATTATATATATA
Found at i:25478 original size:26 final size:25
Alignment explanation
Indices: 25445--25499 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
25435 AAATATAATA
*
25445 TAATAATTATTAA-TTATTATTATAT
1 TAATAATTATTAACTTATTA-TAAAT
25470 TAATAAATTATTAACTTATTATAAAT
1 TAAT-AATTATTAACTTATTATAAAT
25496 TAAT
1 TAAT
25500 TTATATCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 17 0.63
27 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TAATAATTATTAACTTATTATAAAT
Found at i:25690 original size:41 final size:44
Alignment explanation
Indices: 25643--25739 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 44
25633 TTATAAAACT
*
25643 TAATTTATATTAAAATAATTAATAAA-TTATATC-AAC-ATTATC
1 TAATTTATATTAAAATAAATAATAAACTTAT-TCGAACAATTATC
*
25685 T-ATTTA-A-TAAATTAAATAATAAACTTATTCGAACAATTATC
1 TAATTTATATTAAAATAAATAATAAACTTATTCGAACAATTATC
*
25726 TAATTAATATTAAA
1 TAATTTATATTAAA
25740 TTATTGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
39 16 0.35
40 8 0.17
41 12 0.26
42 5 0.11
43 1 0.02
44 4 0.09
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (44 bp):
TAATTTATATTAAAATAAATAATAAACTTATTCGAACAATTATC
Found at i:25751 original size:29 final size:33
Alignment explanation
Indices: 25694--25753 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
25684 CTATTTAATA
25694 AATTAAATAATAAACTTATTCGAACAATTATCT
1 AATTAAATAATAAACTTATTCGAACAATTATCT
*
25727 AATT-AATATTAAA-TTATT-GAA-AATTAT
1 AATTAAATAATAAACTTATTCGAACAATTAT
25754 TTATTATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 3 0.12
31 5 0.19
32 8 0.31
33 4 0.15
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (33 bp):
AATTAAATAATAAACTTATTCGAACAATTATCT
Found at i:25754 original size:41 final size:38
Alignment explanation
Indices: 25643--25754 Score: 91
Period size: 41 Copynumber: 2.7 Consensus size: 38
25633 TTATAAAACT
* *
25643 TAATTTATATTAAAATAATTAATAAATTATATCAACATTATC
1 TAATTAATATT-AAATTATT-A-AAATTAT-TCAACATTATC
* * *
25685 TATTTAATAAATTAAA-TAATAAACTTATTCGAACAATTATC
1 TAATTAAT--ATTAAATTATTAAAATTATTC-AAC-ATTATC
25726 TAATTAATATTAAATTATTGAAAATTATT
1 TAATTAATATTAAATTATT-AAAATTATT
25755 TATTATAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
39 8 0.14
40 12 0.21
41 22 0.39
42 8 0.14
43 3 0.05
44 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (38 bp):
TAATTAATATTAAATTATTAAAATTATTCAACATTATC
Found at i:26104 original size:18 final size:18
Alignment explanation
Indices: 26058--26104 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
26048 TATTATTTAA
*
26058 TAAT-ATTAAAAATAAAT
1 TAATAATTAAAATTAAAT
26075 TAATAATT-AAATTAATAT
1 TAATAATTAAAATTAA-AT
26093 TAA-AATTAAAAT
1 TAATAATTAAAAT
26105 CCTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATTAAAATTAAAT
Found at i:26769 original size:20 final size:22
Alignment explanation
Indices: 26746--26794 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
26736 TATTTAATAC
*
26746 TATAATATAATCT-TTATA-TT
1 TATAATATAATCTATAATATTT
*
26766 TATAA-ATAGTCTATAATATTT
1 TATAATATAATCTATAATATTT
26787 TATAATAT
1 TATAATAT
26795 TATATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 7 0.29
22 2 0.08
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TATAATATAATCTATAATATTT
Found at i:27319 original size:18 final size:19
Alignment explanation
Indices: 27293--27330 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
27283 TATAAAATAG
27293 ATTATTAATTAAAATATTA
1 ATTATTAATTAAAATATTA
**
27312 ATTA-TAATTTTAATATTA
1 ATTATTAATTAAAATATTA
27330 A
1 A
27331 ATCATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATTAATTAAAATATTA
Found at i:27463 original size:15 final size:14
Alignment explanation
Indices: 27435--27480 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
27425 TTATTTATAT
*
27435 TTAATTCTTAAATA
1 TTAATTATTAAATA
*
27449 TTAATTAATTTAATA
1 TTAATT-ATTAAATA
*
27464 TGAATTATTAAATA
1 TTAATTATTAAATA
27478 TTA
1 TTA
27481 TCATTATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAATTATTAAATA
Found at i:27702 original size:8 final size:8
Alignment explanation
Indices: 27662--27707 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
27652 ATTATGTTTA
*
27662 ATTAAAAT
1 ATTATAAT
27670 ATTATAAT
1 ATTATAAT
*
27678 -TTA-ACT
1 ATTATAAT
27684 ATTATTAAT
1 ATTA-TAAT
27693 ATTATAAT
1 ATTATAAT
27701 ATTATAA
1 ATTATAA
27708 GTATAACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
6 2 0.06
7 6 0.19
8 18 0.56
9 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTATAAT
Found at i:27839 original size:33 final size:31
Alignment explanation
Indices: 27786--27854 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
27776 TATTAATTTG
* *
27786 ATTAGAAATAAATTAGTATAATTAT-TTAATT
1 ATTAGAAATAAATAAGTATAATAATCTTAA-T
*
27817 ATTAGTAATTAAATAAGTTATAATAATCTTAAT
1 ATTAG-AAATAAATAAG-TATAATAATCTTAAT
27850 ATTAG
1 ATTAG
27855 GACTATCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 5 0.16
32 9 0.28
33 14 0.44
34 4 0.12
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTAGAAATAAATAAGTATAATAATCTTAAT
Found at i:28905 original size:14 final size:14
Alignment explanation
Indices: 28886--28913 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
28876 CAATTATTTA
28886 ATATTAAATTAATT
1 ATATTAAATTAATT
28900 ATATTAAATTAATT
1 ATATTAAATTAATT
28914 TAGTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTAAATTAATT
Found at i:29106 original size:12 final size:12
Alignment explanation
Indices: 29091--29131 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
29081 TAATAAGTTA
29091 ATAAATATTAAT
1 ATAAATATTAAT
29103 ATAAATAATTAAT
1 ATAAAT-ATTAAT
* *
29116 ATTATTATTAAT
1 ATAAATATTAAT
29128 ATAA
1 ATAA
29132 TTTTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:29355 original size:21 final size:21
Alignment explanation
Indices: 29310--29356 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
29300 ACAAAAGGTT
* *
29310 TATAATTATAATTTAAAATAT
1 TATAATAATAATTTAAAATAG
* *
29331 TATAATAATAATTTTATATAG
1 TATAATAATAATTTAAAATAG
29352 TATAA
1 TATAA
29357 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATAATAATTTAAAATAG
Found at i:29396 original size:14 final size:14
Alignment explanation
Indices: 29326--29406 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
29316 TATAATTTAA
29326 AATATTATAATAA-T
1 AATATTAT-ATAATT
* *
29340 AATTTTATATAGTAT
1 AATATTATATAAT-T
*
29355 AA-ATTTAAATAATT
1 AATA-TTATATAATT
29369 AATATTATAATAATT
1 AATATTAT-ATAATT
29384 ATATATTAT-TAATT
1 A-ATATTATATAATT
29398 AAT-TTATAT
1 AATATTATAT
29407 CTAAATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
12 4 0.07
13 6 0.11
14 19 0.35
15 18 0.33
16 7 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
AATATTATATAATT
Found at i:29404 original size:19 final size:16
Alignment explanation
Indices: 29362--29406 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
29352 TATAAATTTA
29362 AATAATTA-ATATTAT
1 AATAATTATATATTAT
29377 AATAATTATATATTATT
1 AATAATTATATATTA-T
29394 AATTAATT-TATAT
1 AA-TAATTATATAT
29407 CTAAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 6 0.22
17 8 0.30
18 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATAATTATATATTAT
Found at i:30615 original size:30 final size:29
Alignment explanation
Indices: 30580--30649 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
30570 AAAACAATTG
* *
30580 TTTAAATTATT-TTATTTAAATAATAAGTAA
1 TTTAAATTATTATTAATTAAACAAT-A-TAA
30610 TTTAAATAATATTATTAATTAAACAATATAA
1 TTTAAAT--TATTATTAATTAAACAATATAA
30641 -TTAAATTAT
1 TTTAAATTAT
30650 AATATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
28 3 0.09
30 13 0.37
31 3 0.09
32 5 0.14
33 11 0.31
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TTTAAATTATTATTAATTAAACAATATAA
Found at i:30637 original size:17 final size:17
Alignment explanation
Indices: 30611--30644 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30601 AATAAGTAAT
* *
30611 TTAAATAATATTATTAA
1 TTAAACAATATAATTAA
30628 TTAAACAATATAATTAA
1 TTAAACAATATAATTAA
30645 ATTATAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAACAATATAATTAA
Found at i:30872 original size:27 final size:24
Alignment explanation
Indices: 30842--30893 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
30832 AAAATTATTA
30842 TTAATATAATAATATATTCATATTAAT
1 TTAATATAATAATA-ATT-A-ATTAAT
*
30869 TTAATGTAATAATAATTAATTAAT
1 TTAATATAATAATAATTAATTAAT
30893 T
1 T
30894 ATTAAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 1 0.04
26 3 0.12
27 13 0.54
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAATATAATAATAATTAATTAAT
Done.