Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold522
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: 216214
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:1251 original size:16 final size:16
Alignment explanation
Indices: 1230--1260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1220 CACAAGATAA
1230 TTATTTTATTATAATT
1 TTATTTTATTATAATT
*
1246 TTATTTTATTTTAAT
1 TTATTTTATTATAAT
1261 AAATTATATA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTATTATAATT
Found at i:1692 original size:27 final size:27
Alignment explanation
Indices: 1668--1721 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1658 AATTATTATG
* *
1668 ATTTAATCTTTAATTATTAAAATTAAA
1 ATTTAATATTTAATTAATAAAATTAAA
*
1695 ATTTAATATTTTATTAAT-AAATTAAA
1 ATTTAATATTTAATTAATAAAATTAAA
1721 A
1 A
1722 GTATATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTAATATTTAATTAATAAAATTAAA
Found at i:1753 original size:17 final size:18
Alignment explanation
Indices: 1689--1754 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 18
1679 AATTATTAAA
*
1689 ATTA-AAATTTAATATTTT
1 ATTATAAATTTAA-ATTAT
* *
1707 ATTAATAAATTAAAAGTAT
1 ATT-ATAAATTTAAATTAT
*
1726 A-TATGAA-TTAAATTAT
1 ATTATAAATTTAAATTAT
1742 ATTAT-AATTTAAA
1 ATTATAAATTTAAA
1755 ATTTTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
16 10 0.26
17 12 0.32
18 4 0.11
19 5 0.13
20 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTATAAATTTAAATTAT
Found at i:1860 original size:22 final size:22
Alignment explanation
Indices: 1814--1891 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 22
1804 TATCAATATT
*
1814 TATTATTTATAATT-AA-TAAAA
1 TATT-TTTATAATTAAATTTAAA
1835 TATTTTTAT-ATTAATATTTAAA
1 TATTTTTATAATTAA-ATTTAAA
1857 TA-TTTTATAATTAAATTTAAA
1 TATTTTTATAATTAAATTTAAA
1878 TAATTTTT-TAATTA
1 T-ATTTTTATAATTA
1892 TTAAATATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 19 0.38
22 18 0.36
23 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTAAA
Found at i:1864 original size:21 final size:21
Alignment explanation
Indices: 1832--1900 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
1822 ATAATTAATA
1832 AAATATTTTTATATTAATATTT
1 AAATA-TTTTATATTAATATTT
1854 AAATATTTTATAATTAA-ATTT
1 AAATATTTTAT-ATTAATATTT
*
1875 AAATAATTT-T-TTAAT-TATT
1 AAATATTTTATATTAATAT-TT
1894 AAATATT
1 AAATATT
1901 AATAAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 1 0.02
21 18 0.43
22 10 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATTTTATATTAATATTT
Found at i:1895 original size:47 final size:41
Alignment explanation
Indices: 1797--1904 Score: 96
Period size: 39 Copynumber: 2.5 Consensus size: 41
1787 ACACAGTTGA
* *
1797 TTTATATTATCAATATTTATTATTTATAATTAATAAAATATT
1 TTTA-ATTATTAATATTTAATATTTATAATTAATAAAATATT
*
1839 TTT-A-TATTAATATTTAAATATTTTATAATTAAATTTAAATAATTT
1 TTTAATTATTAATATTT-AATA-TTTATAATT-AA-TAAAAT-A-TT
1884 TTTAATTATTAA-ATATTAATA
1 TTTAATTATTAATAT-TTAATA
1905 AAAAATTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
39 10 0.19
40 4 0.07
41 9 0.17
42 5 0.09
43 5 0.09
44 1 0.02
45 5 0.09
46 7 0.13
47 8 0.15
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (41 bp):
TTTAATTATTAATATTTAATATTTATAATTAATAAAATATT
Found at i:2223 original size:26 final size:26
Alignment explanation
Indices: 2179--2252 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
2169 TAATTAGATT
*
2179 TATAATAATAAATATAATATAATACGA
1 TATAATAA-AAATAAAATATAATACGA
* *
2206 TATGAA-AAAAATAAAATAAAATATGA
1 TAT-AATAAAAATAAAATATAATACGA
*
2232 TATAATATAAATAAAATATAA
1 TATAATAAAAATAAAATATAA
2253 ATATATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 31 0.77
27 5 0.12
28 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (26 bp):
TATAATAAAAATAAAATATAATACGA
Found at i:2229 original size:21 final size:21
Alignment explanation
Indices: 2205--2263 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
2195 ATATAATACG
2205 ATATGAAAAAA-ATAAAATAAA
1 ATATGAAAAAATAT-AAATAAA
* *
2226 ATATGATATAATATAAATAAA
1 ATATGAAAAAATATAAATAAA
*
2247 ATAT--AAATATATAAATA
1 ATATGAAAAAATATAAATA
2264 TTTTATATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 10 0.31
21 20 0.62
22 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (21 bp):
ATATGAAAAAATATAAATAAA
Found at i:2360 original size:7 final size:8
Alignment explanation
Indices: 2231--2367 Score: 72
Period size: 8 Copynumber: 16.6 Consensus size: 8
2221 ATAAAATATG
2231 ATATAATAT
1 ATATAA-AT
*
2240 AAATAAA-
1 ATATAAAT
2247 ATATAAAT
1 ATATAAAT
2255 ATATAAAT
1 ATATAAAT
*
2263 AT-T--TT
1 ATATAAAT
2268 ATATAAAT
1 ATATAAAT
2276 -TATAAAT
1 ATATAAAT
*
2283 -TATTAAT
1 ATATAAAT
*
2290 GTAGTAAAAT
1 ATA-T-AAAT
*
2300 TTATATAA-
1 ATATA-AAT
2308 ATATAAAT
1 ATATAAAT
2316 ATATTAAAT
1 ATA-TAAAT
2325 ATGATAATATT
1 AT-ATAA-A-T
2336 ATGATAAAAT
1 AT-AT-AAAT
*
2346 ATATATAAA
1 ATATA-AAT
2355 ATATAAAT
1 ATATAAAT
2363 ATATA
1 ATATA
2368 TTATTTAATT
Statistics
Matches: 103, Mismatches: 10, Indels: 31
0.72 0.07 0.22
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 22 0.21
8 30 0.29
9 28 0.27
10 10 0.10
11 7 0.07
12 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:2594 original size:17 final size:18
Alignment explanation
Indices: 2572--2620 Score: 73
Period size: 17 Copynumber: 2.7 Consensus size: 18
2562 TAGGTGATCC
*
2572 AATATAAACTATAATAT-
1 AATATAAAATATAATATA
2589 AATATAAAATATAATATA
1 AATATAAAATATAATATA
2607 AATATATAAATATA
1 AATATA-AAATATA
2621 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.55
18 6 0.21
19 7 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATAAAATATAATATA
Found at i:2599 original size:12 final size:12
Alignment explanation
Indices: 2584--2620 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
2574 TATAAACTAT
2584 AATATAATATAA
1 AATATAATATAA
2596 AATATAATATAA
1 AATATAATATAA
2608 ATATATAAATATA
1 A-ATAT-AATATA
2621 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.57
13 4 0.17
14 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AATATAATATAA
Found at i:2625 original size:17 final size:17
Alignment explanation
Indices: 2573--2639 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 17
2563 AGGTGATCCA
*
2573 ATATAAACTATAATATAAT
1 ATATAAA-TATATTA-AAT
2592 ATA-AAATATAATATAAAT
1 ATATAAATAT-AT-TAAAT
2610 ATATAAATATATTAAAAT
1 ATATAAATATATT-AAAT
*
2628 TTATATAATATA
1 ATATA-AATATA
2640 AATTTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 4 0.10
18 20 0.49
19 17 0.41
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAAATATATTAAAT
Found at i:2633 original size:14 final size:15
Alignment explanation
Indices: 2585--2644 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 15
2575 ATAAACTATA
2585 ATATAATATAAA---
1 ATATAATATAAATTT
*
2597 ATATAATATAAATAT
1 ATATAATATAAATTT
*
2612 ATAAATATATTAAAATTT
1 ATATA-ATA-T-AAATTT
2630 ATATAATATAAATTT
1 ATATAATATAAATTT
2645 TTAATATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 12 0.31
15 10 0.26
16 4 0.10
17 4 0.10
18 9 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAATATAAATTT
Found at i:2723 original size:11 final size:11
Alignment explanation
Indices: 2709--2744 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2699 ATTTAATAAT
2709 TTATAATTATA
1 TTATAATTATA
2720 TTATAATTATA
1 TTATAATTATA
* *
2731 TTTTTATTATA
1 TTATAATTATA
2742 TTA
1 TTA
2745 CTTTAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATAATTATA
Found at i:2738 original size:17 final size:18
Alignment explanation
Indices: 2704--2741 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2694 TAATAATTTA
2704 ATAATTTATAATTATATT
1 ATAATTTATAATTATATT
* *
2722 ATAA-TTATATTTTTATT
1 ATAATTTATAATTATATT
2739 ATA
1 ATA
2742 TTACTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAATTTATAATTATATT
Found at i:2829 original size:16 final size:17
Alignment explanation
Indices: 2796--2835 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2786 TTTAAATATT
*
2796 ATTATAACATATAAAAA
1 ATTATAACATACAAAAA
2813 ATTATAA-ATACAAAAA
1 ATTATAACATACAAAAA
2829 ATATATA
1 AT-TATA
2836 TAAATAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTATAACATACAAAAA
Found at i:3179 original size:18 final size:19
Alignment explanation
Indices: 3156--3199 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
3146 ATATATTATG
**
3156 AAATTAATTCAAAA-ATAA
1 AAATTAATAAAAAAGATAA
3174 AAATTAAATAAAAAAGATAA
1 AAATT-AATAAAAAAGATAA
3194 AAATTA
1 AAATTA
3200 TGGTAGAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAATTAATAAAAAAGATAA
Found at i:3703 original size:13 final size:13
Alignment explanation
Indices: 3685--3709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3675 ATAATAAAAA
3685 TAATTAAATTAAT
1 TAATTAAATTAAT
3698 TAATTAAATTAA
1 TAATTAAATTAA
3710 CACTTTAAAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTAAATTAAT
Found at i:3763 original size:30 final size:30
Alignment explanation
Indices: 3701--3763 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
3691 AATTAATTAA
*
3701 TTAAATTAACACTTTAAATCAATTAAGATT
1 TTAAATTAACACTTAAAATCAATTAAGATT
*
3731 TTAAATTAA-A-TTAAAATTAATTAATGACTT
1 TTAAATTAACACTTAAAATCAATTAA-GA-TT
3761 TTA
1 TTA
3764 CTTTTCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.41
29 3 0.10
30 14 0.48
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (30 bp):
TTAAATTAACACTTAAAATCAATTAAGATT
Found at i:4228 original size:14 final size:15
Alignment explanation
Indices: 4199--4264 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
4189 GGATTTTGAT
*
4199 TTTAATATAATAATTA
1 TTTAATAT-TTAATTA
4215 TTTAAT-TTTAATTAA
1 TTTAATATTTAATT-A
*
4230 TTT-ATATTTAAATA
1 TTTAATATTTAATTA
* *
4244 TTTATAAATTTAATTT
1 TTTA-ATATTTAATTA
4260 TTTAA
1 TTTAA
4265 AATTATTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 11 0.27
15 12 0.29
16 18 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATATTTAATTA
Found at i:4265 original size:14 final size:14
Alignment explanation
Indices: 4209--4265 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
4199 TTTAATATAA
*
4209 TAATTATTTAATTT
1 TAATTATTTAAATT
*
4223 TAATTAATTTATATT
1 TAATT-ATTTAAATT
*
4238 TAAATATTTATAAATT
1 TAATTA-TT-TAAATT
*
4254 TAATTTTTTAAA
1 TAATTATTTAAA
4266 ATTATTTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTATTTAAATT
Found at i:6804 original size:18 final size:18
Alignment explanation
Indices: 6781--6815 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6771 TTAGCTCAAC
* *
6781 AGAGAGAGAGAGGATTCT
1 AGAGAGAAAAAGGATTCT
6799 AGAGAGAAAAAGGATTC
1 AGAGAGAAAAAGGATTC
6816 CAAAAGAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.34, T:0.14
Consensus pattern (18 bp):
AGAGAGAAAAAGGATTCT
Found at i:8910 original size:80 final size:79
Alignment explanation
Indices: 8807--8955 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 79
8797 TTCATCTCGA
* * * *
8807 GATACTCTAACCCTATTATTTTTGAGGAGATACT-TCAACCCCATTTTTATTTCCCAAACACTGA
1 GATACCCTAACCCTATCATTTTTGAGG-GATACTCT-AAACCCATTTTTATTTCCCAAACAATGA
8871 ATTTTTTATCACTTAG
64 ATTTTTTATCACTTAG
* ***
8887 GATACCCTAAGCCC-ATCATTTTTGAGGGTTACTCTAAACTTGTTTTTATTTCCCAAACAATGAA
1 GATACCCTAA-CCCTATCATTTTTGAGGGATACTCTAAACCCATTTTTATTTCCCAAACAATGAA
8951 TTTTT
65 TTTTT
8956 CATTTTTGGG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 34 0.58
80 22 0.37
81 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.40
Consensus pattern (79 bp):
GATACCCTAACCCTATCATTTTTGAGGGATACTCTAAACCCATTTTTATTTCCCAAACAATGAAT
TTTTTATCACTTAG
Found at i:14980 original size:20 final size:20
Alignment explanation
Indices: 14955--15007 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14945 GTTGGGCATA
** *
14955 ATGTATCGATACTTTTTACC
1 ATGTATCGATACAATATACC
* *
14975 ATGTATCAATACAATATCCC
1 ATGTATCGATACAATATACC
14995 ATGTATCGATACA
1 ATGTATCGATACA
15008 TTTCACTTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:17295 original size:148 final size:150
Alignment explanation
Indices: 17097--17383 Score: 352
Period size: 148 Copynumber: 1.9 Consensus size: 150
17087 TGTCCCCTAT
* * *
17097 TTAATTTAAATTTTCTTTAAAAAGATCATTTCGTACTTTGATGAAAACCCGCCAAAATACA-AAA
1 TTAATTTAAATTTTCTCTAAAAAGATCATTTCGTACCTTAATGAAAACCCG--AAAATACATAAA
* * *
17161 AA-TTTTAAAATCTTTTAATACCCCTACGGATATCCATAGGAATATAAAA-AATTGAAAACGATT
64 AAGTTTTAAAATCTTTT-ATACCCCTACGGATACCCATAAGAATATAAAAGAATTGAAAACAATT
17224 AATATTTATTTTAGTGAGGAGAG
128 AATATTTATTTTAGTGAGGAGAG
* * *
17247 TTAATTT-AATTATT-TCTAAAAA-ATCATTTCGTACCTTAATGGATACCCGAAAATATATAAAA
1 TTAATTTAAATT-TTCTCTAAAAAGATCATTTCGTACCTTAATGAAAACCCGAAAATACATAAAA
* * * * * *
17309 AGTTTTTGAAATCTTTTATATCTCTACGGATACCCATAAGAATATAAAAGACTTGAAAATAATTG
65 AG-TTTTAAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGAATTGAAAACAATTA
17374 ATATTTATTT
129 ATATTTATTT
17384 ATGTTTTTAA
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
146 7 0.06
147 5 0.04
148 51 0.44
149 45 0.38
150 9 0.08
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (150 bp):
TTAATTTAAATTTTCTCTAAAAAGATCATTTCGTACCTTAATGAAAACCCGAAAATACATAAAAA
GTTTTAAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGAATTGAAAACAATTAAT
ATTTATTTTAGTGAGGAGAG
Found at i:18470 original size:24 final size:25
Alignment explanation
Indices: 18443--18490 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
18433 TTTCTATTTT
18443 TTTCTATATTTTCT-TTTTTTTTCC
1 TTTCTATATTTTCTCTTTTTTTTCC
* *
18467 TTTCTCTCTTTTCTCCTTTTTTTT
1 TTTCTATATTTTCT-CTTTTTTTT
18491 TTTTTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
26 8 0.40
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCTATATTTTCTCTTTTTTTTCC
Found at i:20632 original size:20 final size:20
Alignment explanation
Indices: 20588--20635 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
20578 ATATTATTGT
*
20588 AATTATATTTAAATATGATT
1 AATTATATTTAAATATGATC
20608 AATTATATTTAAATAT-ATC
1 AATTATATTTAAATATGATC
20627 ATATTATAT
1 A-ATTATAT
20636 ATATTATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTATATTTAAATATGATC
Found at i:21259 original size:12 final size:12
Alignment explanation
Indices: 21229--21260 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21219 TTATTGAATA
*
21229 TTTATTATTTAT
1 TTTATTTTTTAT
21241 TTTATTTTTTAT
1 TTTATTTTTTAT
21253 TTTATTTT
1 TTTATTTT
21261 AATAAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:21545 original size:15 final size:16
Alignment explanation
Indices: 21507--21545 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
21497 AAGTTATGTA
*
21507 AATATATTTTTATTTT
1 AATATATTTTAATTTT
21523 -ATATATTTTAATTTT
1 AATATATTTTAATTTT
21538 AATA-ATTT
1 AATATATTT
21546 CAATCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATATATTTTAATTTT
Found at i:22139 original size:20 final size:20
Alignment explanation
Indices: 22092--22146 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
22082 TATTAAATAA
* *
22092 ATTTTT-TTAAATAATAATAT
1 ATTTTTATTAAAT-TTAACAT
*
22112 AATTTTATTAAATTTAACAT
1 ATTTTTATTAAATTTAACAT
22132 ATTTTTATATAAATT
1 ATTTTTAT-TAAATT
22147 AAGTTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTATTAAATTTAACAT
Found at i:22271 original size:18 final size:18
Alignment explanation
Indices: 22245--22280 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22235 TATATTATAT
22245 TTAAATAAATTTTACTTA
1 TTAAATAAATTTTACTTA
*
22263 TTAACTAAATTTTACTTA
1 TTAAATAAATTTTACTTA
22281 ACACCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATAAATTTTACTTA
Found at i:22501 original size:6 final size:6
Alignment explanation
Indices: 22484--22556 Score: 52
Period size: 6 Copynumber: 13.3 Consensus size: 6
22474 AATAATTTTT
** *
22484 TATAAA -ATAAA TATAAA TAT-AA CCT-AA CATAAA T-T-AA TAT-AA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
* *
22526 TATAAA AAT-AA TATAAA TATTAA TATAAA TA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TA
22557 AATAAATTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 3 0.06
5 23 0.43
6 28 0.52
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (6 bp):
TATAAA
Found at i:22551 original size:12 final size:11
Alignment explanation
Indices: 22488--22560 Score: 66
Period size: 11 Copynumber: 6.9 Consensus size: 11
22478 ATTTTTTATA
22488 AAATA-AATAT
1 AAATATAATAT
**
22498 AAATATAACCT
1 AAATATAATAT
22509 AACATA-AAT-T
1 AA-ATATAATAT
22519 -AATATAATAT
1 AAATATAATAT
*
22529 AAAAATAATAT
1 AAATATAATAT
22540 AAATATTAATAT
1 AAATA-TAATAT
22552 AAATA-AATA
1 AAATATAATA
22561 AATTAATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 11 0.21
11 20 0.38
12 14 0.27
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATAATAT
Found at i:22558 original size:42 final size:41
Alignment explanation
Indices: 22487--22572 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
22477 AATTTTTTAT
* *
22487 AAAATAAATATAAATATAACCTAACATAAATTAATATAATATA
1 AAAATAAATATAAATATAACATAACATAAATAAAT-TAAT-TA
*
22530 AAAAT-AATATAAATATTAATATAA-ATAAATAAATTAATTA
1 AAAATAAATATAAATA-TAACATAACATAAATAAATTAATTA
22570 AAA
1 AAA
22573 TTTATATACC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
40 5 0.13
41 4 0.10
42 19 0.49
43 11 0.28
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.31
Consensus pattern (41 bp):
AAAATAAATATAAATATAACATAACATAAATAAATTAATTA
Found at i:22579 original size:28 final size:28
Alignment explanation
Indices: 22484--22580 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
22474 AATAATTTTT
* **
22484 TATAAAATAAATATAAATAT-AACCTAA
1 TATAAAATTAATATAAATATAAAAATAA
*
22511 CAT-AAATTAATAT-AATATAAAAATAA
1 TATAAAATTAATATAAATATAAAAATAA
22537 TATAAATATTAATATAAATA-AATAAATTAA
1 TATAAA-ATTAATATAAATATAA-AAA-TAA
*
22567 T-TAAAATTTATATA
1 TATAAAATTAATATA
22581 CCATAAATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.09
26 16 0.28
27 4 0.07
28 18 0.31
29 11 0.19
30 4 0.07
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
TATAAAATTAATATAAATATAAAAATAA
Found at i:28190 original size:28 final size:27
Alignment explanation
Indices: 28151--28213 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
28141 AATTTTTTTT
28151 ATTATA-ATTATTTTTAAAATATTATATA
1 ATTATATA-TATTTTTAAAATATTA-ATA
*
28179 ATTATATATATTTTTAATATATTAATA
1 ATTATATATATTTTTAAAATATTAATA
28206 ATTA-ATAT
1 ATTATATAT
28214 TATATAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 7 0.21
28 21 0.64
29 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTATATATATTTTTAAAATATTAATA
Found at i:30638 original size:21 final size:21
Alignment explanation
Indices: 30614--30662 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
30604 GATAAAAGAC
30614 AAACCCAATTCAAATCAAGCA
1 AAACCCAATTCAAATCAAGCA
*
30635 AAACCCAATTCAAATCAAGTA
1 AAACCCAATTCAAATCAAGCA
30656 AAACCCA
1 AAACCCA
30663 TTTTACAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.53, C:0.29, G:0.04, T:0.14
Consensus pattern (21 bp):
AAACCCAATTCAAATCAAGCA
Found at i:31112 original size:18 final size:20
Alignment explanation
Indices: 31068--31117 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
31058 AGGTAAAACC
31068 TTTTATTTTTTAAAATTATTA
1 TTTTA-TTTTTAAAATTATTA
*
31089 TTTTATTTTTAATA-TATT-
1 TTTTATTTTTAAAATTATTA
*
31107 TTTTATATTTA
1 TTTTATTTTTA
31118 TAATGTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 10 0.37
19 4 0.15
20 8 0.30
21 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTTAAAATTATTA
Found at i:31169 original size:13 final size:12
Alignment explanation
Indices: 31150--31191 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
31140 TTAAAATCAG
31150 ATATATATTAAT
1 ATATATATTAAT
*
31162 ATTATATATTTAT
1 A-TATATATTAAT
*
31175 ATATATGTT-AT
1 ATATATATTAAT
31186 ATATAT
1 ATATAT
31192 TAAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 8 0.30
12 8 0.30
13 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
ATATATATTAAT
Found at i:31185 original size:11 final size:10
Alignment explanation
Indices: 31150--31232 Score: 60
Period size: 11 Copynumber: 7.7 Consensus size: 10
31140 TTAAAATCAG
31150 ATATATATTAAT
1 ATATATATT--T
31162 ATTATATATTT
1 A-TATATATTT
31173 ATATATATGTT
1 ATATATAT-TT
*
31184 ATATATATTA
1 ATATATATTT
*
31194 AAATTATATTT
1 ATA-TATATTT
* *
31205 ATAAATGAATT
1 ATATAT-ATTT
31216 ATAATATATTT
1 AT-ATATATTT
31227 AT-TATA
1 ATATATA
31233 ATATTAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
9 4 0.07
10 12 0.21
11 30 0.52
12 4 0.07
13 8 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
ATATATATTT
Found at i:32220 original size:21 final size:22
Alignment explanation
Indices: 32179--32220 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
32169 TTTTTAAAAA
* *
32179 ATAATTGTTTTTTAAATAAGTG
1 ATAATTGTTTTTAAAAAAAGTG
32201 ATAATT-TTTTTAAAAAAAGT
1 ATAATTGTTTTTAAAAAAAGT
32221 TATTATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
ATAATTGTTTTTAAAAAAAGTG
Found at i:32324 original size:21 final size:23
Alignment explanation
Indices: 32300--32348 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
32290 GTATTATTAC
32300 TTTTTAAA-TTTAAA-AATAATT
1 TTTTTAAAGTTTAAATAATAATT
*
32321 TTTTTAAAGTTTAAATAATATTT
1 TTTTTAAAGTTTAAATAATAATT
32344 TTTTT
1 TTTTT
32349 CTTAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.32
22 6 0.24
23 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTAAAGTTTAAATAATAATT
Found at i:33000 original size:24 final size:24
Alignment explanation
Indices: 32969--33018 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
32959 CAATACATTT
* *
32969 TTTAAATAATAATATATTAATTAA
1 TTTAAATAAAAATATATTAATAAA
*
32993 TTTAAATAAAAATATTTTAATAAA
1 TTTAAATAAAAATATATTAATAAA
33017 TT
1 TT
33019 CATTTGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAAATAAAAATATATTAATAAA
Found at i:33832 original size:19 final size:19
Alignment explanation
Indices: 33783--33833 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
33773 TTTATAACTT
* *
33783 TATAAATATATATAATTTA
1 TATATATATATTTAATTTA
*
33802 TAT-TTTATTATTTAATTTA
1 TATATATA-TATTTAATTTA
33821 TATATATATATTT
1 TATATATATATTT
33834 TTTAATTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 21 0.81
20 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATATATATTTAATTTA
Found at i:36367 original size:14 final size:14
Alignment explanation
Indices: 36348--36392 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
36338 CTATTTATTT
36348 TTATATATAATTAA
1 TTATATATAATTAA
*
36362 TTATATAAAATT-A
1 TTATATATAATTAA
* *
36375 TTTTATATCATTAA
1 TTATATATAATTAA
36389 TTAT
1 TTAT
36393 TAAATAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATATATAATTAA
Found at i:39858 original size:20 final size:20
Alignment explanation
Indices: 39829--39867 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39819 GTTTTTTTAT
* *
39829 GAAAATTTATTTTAAAAATA
1 GAAAAGTTATATTAAAAATA
39849 GAAAAGTTATATTAAAAAT
1 GAAAAGTTATATTAAAAAT
39868 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (20 bp):
GAAAAGTTATATTAAAAATA
Found at i:40904 original size:15 final size:16
Alignment explanation
Indices: 40868--40907 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
40858 TGTAATATTT
*
40868 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
40885 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
40900 ATAAAATT
1 ATAAAATT
40908 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:40910 original size:16 final size:17
Alignment explanation
Indices: 40868--40910 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
40858 TGTAATATTT
*
40868 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
40885 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
40900 ATAAAATTTAT
1 ATAAAATTTAT
40911 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:41857 original size:18 final size:17
Alignment explanation
Indices: 41824--41856 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41814 TTTTTTCTCC
41824 TTTCTTTATTTCTTTTA
1 TTTCTTTATTTCTTTTA
41841 TTTCTTTTATTT-TTTT
1 TTTC-TTTATTTCTTTT
41857 TGACAGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTATTTCTTTTA
Found at i:42040 original size:57 final size:59
Alignment explanation
Indices: 41979--42093 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 59
41969 ACGTAATTTT
* *
41979 TTAAATTAAATCACTATAACAAATTATA-AAAA-AAGTCACGAATTGAGATATGATACC
1 TTAAATTAAATCACTATAACAAATTACACAAAATAAGTCACGAATAGAGATATGATACC
* * * * * *
42036 TTAAATTAAATTATTATGATAAATTACACAAAATATGTCATGAATAGAGATATGATAC
1 TTAAATTAAATCACTATAACAAATTACACAAAATAAGTCACGAATAGAGATATGATAC
42094 GAACCTGACA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 23 0.48
58 4 0.08
59 21 0.44
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (59 bp):
TTAAATTAAATCACTATAACAAATTACACAAAATAAGTCACGAATAGAGATATGATACC
Found at i:42837 original size:14 final size:14
Alignment explanation
Indices: 42814--42844 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42804 ATGAATATAA
*
42814 TTTTTTTTTCTTTC
1 TTTTTCTTTCTTTC
42828 TTTTTCTTTCTTTC
1 TTTTTCTTTCTTTC
42842 TTT
1 TTT
42845 CCTGCCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:43543 original size:20 final size:21
Alignment explanation
Indices: 43518--43556 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43508 ATCTTCTTTA
*
43518 TATTATA-ATTATTTTAAAAT
1 TATTATATATTATTATAAAAT
43538 TATTATATATTATTATAAA
1 TATTATATATTATTATAAA
43557 TTTTACCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTATATATTATTATAAAAT
Found at i:43609 original size:32 final size:33
Alignment explanation
Indices: 43538--43616 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 33
43528 ATTTTAAAAT
* *
43538 TATTATATATTATTATAAATTTTACCGTATTAATA
1 TATT-TATATTA-TATAAATTTTAACATATTAATA
* *
43573 -ATTTATATTATATAAA-TTTAATATATTTATA
1 TATTTATATTATATAAATTTTAACATATTAATA
*
43604 TATTTATGTTATA
1 TATTTATATTATA
43617 CTTTATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 11 0.29
32 17 0.45
33 7 0.18
34 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (33 bp):
TATTTATATTATATAAATTTTAACATATTAATA
Found at i:49888 original size:15 final size:16
Alignment explanation
Indices: 49858--49900 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
49848 TTAAACTTAT
49858 TTAAAAAAATATTAAA
1 TTAAAAAAATATTAAA
*
49874 TTAATAAAA-ATTAAA
1 TTAAAAAAATATTAAA
*
49889 TTTTAAAAAATA
1 -TTAAAAAAATA
49901 CATATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 15 0.68
17 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAAAATATTAAA
Found at i:51920 original size:16 final size:16
Alignment explanation
Indices: 51899--51929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51889 ATTTGTGGTT
51899 AGAAAAAAAAGAAAAA
1 AGAAAAAAAAGAAAAA
*
51915 AGAAAAAAACGAAAA
1 AGAAAAAAAAGAAAA
51930 TCCAACTGTA
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:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAGAAAAA
Found at i:57551 original size:31 final size:29
Alignment explanation
Indices: 57511--57575 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
57501 TTGAACCTAA
57511 ACAAGAGAAACAGAATGAAGT-ATGTAAATTT
1 ACAAGAGAAACAG-AT-AA-TCATGTAAATTT
* *
57542 ACAATAGAAAGAGATAATCATGTAAATTT
1 ACAAGAGAAACAGATAATCATGTAAATTT
57571 A-AAGA
1 ACAAGA
57576 ATCATAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 4 0.13
29 13 0.43
30 2 0.07
31 11 0.37
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (29 bp):
ACAAGAGAAACAGATAATCATGTAAATTT
Found at i:58394 original size:6 final size:6
Alignment explanation
Indices: 58385--58457 Score: 83
Period size: 6 Copynumber: 11.8 Consensus size: 6
58375 TTATATACAT
* * * * *
58385 ATATAC ATATAT ATATAT ACACAT ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
58433 ATATAAAC ATATAC ATATAC ATATA
1 ATAT--AC ATATAC ATATAC ATATA
58458 TATGTTCCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
6 53 0.90
8 6 0.10
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:58400 original size:14 final size:14
Alignment explanation
Indices: 58377--58459 Score: 85
Period size: 14 Copynumber: 5.9 Consensus size: 14
58367 ACCATATTTT
*
58377 ATATACATATATAC
1 ATATATATATATAC
58391 ATATATATATATAC
1 ATATATATATATAC
* * *
58405 ACATATATACATAT
1 ATATATATATATAC
* *
58419 ACATATACATATAC
1 ATATATATATATAC
* *
58433 ATATAAACATATAC
1 ATATATATATATAC
*
58447 ATATACATATATA
1 ATATATATATATA
58460 TGTTCCATTC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 58 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:58459 original size:8 final size:8
Alignment explanation
Indices: 58376--58445 Score: 77
Period size: 8 Copynumber: 8.5 Consensus size: 8
58366 CACCATATTT
58376 TATATACA
1 TATATACA
58384 TATATACA
1 TATATACA
*
58392 TATATATA
1 TATATACA
*
58400 TATACACA
1 TATATACA
58408 TATATACA
1 TATATACA
*
58416 TATACATATA
1 TAT--ATACA
*
58426 CATATACA
1 TATATACA
*
58434 TATAAACA
1 TATATACA
58442 TATA
1 TATA
58446 CATATACATA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 45 0.88
10 6 0.12
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (8 bp):
TATATACA
Found at i:60111 original size:14 final size:14
Alignment explanation
Indices: 60092--60136 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
60082 TTAATTTTTT
60092 ATTATATTTATATA
1 ATTATATTTATATA
*
60106 ATTATATTTATTATT
1 ATTATATTTA-TATA
*
60121 ATTAGATTTAATATA
1 ATTATATTT-ATATA
60136 A
1 A
60137 AAAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 10 0.38
15 15 0.58
16 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTATATTTATATA
Found at i:60689 original size:6 final size:7
Alignment explanation
Indices: 60670--60734 Score: 96
Period size: 7 Copynumber: 9.1 Consensus size: 7
60660 ATTTTCAAAA
60670 AATTTTT
1 AATTTTT
60677 AATTTTT
1 AATTTTT
60684 AATTTTTT
1 AA-TTTTT
*
60692 ATCTTTTT
1 A-ATTTTT
60700 AATTTTT
1 AATTTTT
60707 AATTTTT
1 AATTTTT
60714 AATTTTT
1 AATTTTT
60721 AA-TTTT
1 AATTTTT
60727 AATTTTT
1 AATTTTT
60734 A
1 A
60735 TTATAACATG
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
6 6 0.11
7 35 0.66
8 12 0.23
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:61111 original size:18 final size:18
Alignment explanation
Indices: 61090--61208 Score: 70
Period size: 18 Copynumber: 6.7 Consensus size: 18
61080 AAATTAGATG
61090 ATATTATAATAATAAAAT
1 ATATTATAATAATAAAAT
** *
61108 ATA-TATTTTAATTTAAAT
1 ATATTATAATAA-TAAAAT
*
61126 ATAATATTAATAATAAAAT
1 ATATTA-TAATAATAAAAT
61145 GA-ATTATAATAA-AAAAT
1 -ATATTATAATAATAAAAT
** *
61162 A-AAAATAATTATTAAAA-
1 ATATTATAA-TAATAAAAT
*
61179 ATATTATATTAA-AAAAT
1 ATATTATAATAATAAAAT
*
61196 TTATATATAATAA
1 ATAT-TATAATAA
61209 AAATCATAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
16 10 0.13
17 19 0.25
18 32 0.42
19 10 0.13
20 5 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
ATATTATAATAATAAAAT
Found at i:61203 original size:16 final size:14
Alignment explanation
Indices: 61161--61193 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
61151 TAATAAAAAA
*
61161 TAAAAATAAT-TAT
1 TAAAAATATTATAT
61174 TAAAAATATTATAT
1 TAAAAATATTATAT
61188 TAAAAA
1 TAAAAA
61194 ATTTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATATTATAT
Found at i:61210 original size:16 final size:15
Alignment explanation
Indices: 61162--61201 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
61152 AATAAAAAAT
*
61162 AAAAATAAT-TATT-
1 AAAAATATTATATTA
61175 AAAAATATTATATTA
1 AAAAATATTATATTA
61190 AAAAAT-TTATAT
1 AAAAATATTATAT
61202 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 10 0.42
15 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATATTATATTA
Found at i:62000 original size:28 final size:28
Alignment explanation
Indices: 61967--62067 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 28
61957 TTATTTTTGT
61967 ATATTTTATTATATTATAATTTTATTTA
1 ATATTTTATTATATTATAATTTTATTTA
* *
61995 ATA-TTTATATAAATTATAA-TAT-TTTA
1 ATATTTTAT-TATATTATAATTTTATTTA
*
62021 ATATATTTA-TATATT-TATTTTATATTTA
1 ATAT-TTTATTATATTATAATTT-TATTTA
*
62049 TATTATTTT-TTATTTTATA
1 -A-TATTTTATTATATTATA
62068 TAATATTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
25 2 0.04
26 13 0.23
27 8 0.14
28 20 0.35
29 9 0.16
30 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
ATATTTTATTATATTATAATTTTATTTA
Found at i:62030 original size:19 final size:19
Alignment explanation
Indices: 62008--62093 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
61998 TTTATATAAA
62008 TTATAATATTTTAATATAT
1 TTATAATATTTTAATATAT
**
62027 TTAT-ATATTTATTTTATAT
1 TTATAATATTT-TAATATAT
* * *
62046 TTATATTATTTT-TTATTT
1 TTATAATATTTTAATATAT
62064 TATATAATATTTTAAT-TAT
1 T-TATAATATTTTAATATAT
*
62083 TATTTAATATT
1 T-TATAATATT
62094 ATATAATCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
18 12 0.22
19 37 0.67
20 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATAATATTTTAATATAT
Found at i:62050 original size:17 final size:18
Alignment explanation
Indices: 62022--62068 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
62012 AATATTTTAA
62022 TATATTTATATATTTATTT
1 TATATTT-TATATTTATTT
62041 TATA-TTTATA-TTATTT
1 TATATTTTATATTTATTT
*
62057 TTTATTTTATAT
1 TATATTTTATAT
62069 AATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 9 0.36
17 10 0.40
18 2 0.08
19 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TATATTTTATATTTATTT
Found at i:62074 original size:47 final size:46
Alignment explanation
Indices: 61968--62098 Score: 137
Period size: 47 Copynumber: 2.8 Consensus size: 46
61958 TATTTTTGTA
* **
61968 TATTTTAT-TATA-TTATAATTTTATTTAATATTTATATAAATTATAA
1 TATTTTATATATATTTATAATTTTATTTAATATTTATAT-TATT-TTT
*
62014 TATTTTA-ATATATTTAT-ATATTTATTTTATATTTATATTATTTTT
1 TATTTTATATATATTTATAAT-TTTATTTAATATTTATATTATTTTT
62059 TATTTTATATAATATTT-TAATTATTATTTAATATTATATA
1 TATTTTATAT-ATATTTATAATT-TTATTTAATATT-TATA
62099 ATCATATAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
45 8 0.11
46 20 0.28
47 40 0.56
48 4 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (46 bp):
TATTTTATATATATTTATAATTTTATTTAATATTTATATTATTTTT
Found at i:62086 original size:24 final size:23
Alignment explanation
Indices: 61968--62098 Score: 85
Period size: 24 Copynumber: 5.7 Consensus size: 23
61958 TATTTTTGTA
61968 TATTTTAT-TATAT-TATAATT-T
1 TATTTTATATATATAT-TAATTAT
* * *
61989 TATTTAATATTTATATAAATTAT
1 TATTTTATATATATATTAATTAT
62012 AATATTTTA-ATATAT-TT-ATATATT
1 --TATTTTATATATATATTAAT-TA-T
* * *
62036 TATTTTATATTTATATTATTTTT
1 TATTTTATATATATATTAATTAT
*
62059 TATTTTATATAATATTTTAATTAT
1 TATTTTATAT-ATATATTAATTAT
*
62083 TATTTAATATTATATA
1 TATTTTATA-TATATA
62099 ATCATATAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 21
0.70 0.13 0.18
Matches are distributed among these distances:
21 7 0.08
22 17 0.20
23 21 0.25
24 30 0.36
25 8 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTTTATATATATATTAATTAT
Found at i:62195 original size:33 final size:35
Alignment explanation
Indices: 62150--62216 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
62140 TAAAAAAATT
62150 ATAATACATTAAACATATCATA-TTAATTATATTA
1 ATAATACATTAAACATATCATATTTAATTATATTA
** *
62184 ATAATA-ATTAAATTTATCATATTTTATTATATT
1 ATAATACATTAAACATATCATATTTAATTATATT
62217 TTTATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (35 bp):
ATAATACATTAAACATATCATATTTAATTATATTA
Found at i:62557 original size:17 final size:18
Alignment explanation
Indices: 62526--62560 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
62516 ACTTATATAT
62526 ATATTTTTTCATATTTTAG
1 ATATTTTTT-ATATTTTAG
62545 ATATTTTTT-TATTTTA
1 ATATTTTTTATATTTTA
62561 ATTCATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
ATATTTTTTATATTTTAG
Found at i:63442 original size:22 final size:22
Alignment explanation
Indices: 63417--63461 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
63407 ACATACTTTT
* *
63417 TTTAAATATAATTAAAAATTAA
1 TTTAAAAATAAATAAAAATTAA
*
63439 TTTAAAAATAAATAAAATTTAA
1 TTTAAAAATAAATAAAAATTAA
63461 T
1 T
63462 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAAATAAATAAAAATTAA
Found at i:63578 original size:23 final size:22
Alignment explanation
Indices: 63509--63580 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 22
63499 TCAATATATA
63509 AAAACAAACTTTATTATTTAAAT
1 AAAACAAAC-TTATTATTTAAAT
**
63532 AAAA-AAA-TTATTAATAAGAAAAAT
1 AAAACAAACTTATT-AT---TTAAAT
63556 AAAACAAACTCTATTATTTAAAT
1 AAAACAAACT-TATTATTTAAAT
63579 AA
1 AA
63581 GTGTTAGTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 5 0.13
21 2 0.05
22 3 0.08
23 10 0.26
24 8 0.21
25 3 0.08
26 3 0.08
27 4 0.11
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (22 bp):
AAAACAAACTTATTATTTAAAT
Found at i:63960 original size:17 final size:17
Alignment explanation
Indices: 63926--63963 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
63916 TTATATAAGT
63926 AAATTATTAATATAATA
1 AAATTATTAATATAATA
*
63943 AAATTATATAA-ATTATA
1 AAATTAT-TAATATAATA
63960 AAAT
1 AAAT
63964 ACGATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTATTAATATAATA
Found at i:64392 original size:19 final size:18
Alignment explanation
Indices: 64362--64398 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
64352 CAATTATAAG
64362 ATGATAAAATATATAAAT
1 ATGATAAAATATATAAAT
64380 ATGATATAAATATATAAAT
1 ATGATA-AAATATATAAAT
64399 TACTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
ATGATAAAATATATAAAT
Found at i:65161 original size:18 final size:19
Alignment explanation
Indices: 65138--65178 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
65128 GTTTAATTGT
*
65138 TTTTAATATTTT-TTATTA
1 TTTTAAAATTTTATTATTA
*
65156 TTTTAAAATTTTATTTTTA
1 TTTTAAAATTTTATTATTA
65175 TTTT
1 TTTT
65179 TATAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAAAATTTTATTATTA
Found at i:74648 original size:50 final size:50
Alignment explanation
Indices: 74580--74699 Score: 170
Period size: 50 Copynumber: 2.4 Consensus size: 50
74570 TAGTATAGAT
**
74580 TTGGACTCTATAAAACTTGACCTT-CTCATTAAGTACTAACTAGTGTGAAC
1 TTGGACTCTATAGGACTTGACCTTCCT-ATTAAGTACTAACTAGTGTGAAC
* *
74630 TTGGACTTTATAGGACTTGACCTTCCTATTAAGTGCTAACTAGTGTGAAC
1 TTGGACTCTATAGGACTTGACCTTCCTATTAAGTACTAACTAGTGTGAAC
**
74680 TTAAACTCTATAGGACTTGA
1 TTGGACTCTATAGGACTTGA
74700 ACTTTTTATC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 60 0.97
51 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (50 bp):
TTGGACTCTATAGGACTTGACCTTCCTATTAAGTACTAACTAGTGTGAAC
Found at i:74808 original size:50 final size:50
Alignment explanation
Indices: 74633--74816 Score: 158
Period size: 50 Copynumber: 3.7 Consensus size: 50
74623 TGTGAACTTG
* * * * *
74633 GACTTTATAGGACTTGACCTTCCTATTAAGTGCTAACTAGTGTGAACTTA
1 GACTTTATAGGACTTGACTTTCCTATTAAGTGCTAGCTAGCGTGGATTTA
* * * * * * * * * *
74683 AACTCTATAGGACTTGAACTTT-TTATCATGAGCCAGCTAGGGTAGATTTT
1 GACTTTATAGGACTTG-ACTTTCCTATTAAGTGCTAGCTAGCGTGGATTTA
* * *
74733 CACTTTAT-GCGAC-TGACTTTTCTATTAAGTGCTAGCAAGCGTGGATTTA
1 GACTTTATAG-GACTTGACTTTCCTATTAAGTGCTAGCTAGCGTGGATTTA
*
74782 GACTTTATAGGACTTGACTTTCCTATTAGGTGCTA
1 GACTTTATAGGACTTGACTTTCCTATTAAGTGCTA
74817 TTTAGTATAG
Statistics
Matches: 101, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
48 5 0.05
49 32 0.32
50 60 0.59
51 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (50 bp):
GACTTTATAGGACTTGACTTTCCTATTAAGTGCTAGCTAGCGTGGATTTA
Found at i:78582 original size:79 final size:79
Alignment explanation
Indices: 78451--78627 Score: 266
Period size: 79 Copynumber: 2.2 Consensus size: 79
78441 TAGAGATAAC
* * * * * *
78451 AACAGGGCTGGAGTATCCCTGATTGTGAAAAATCCGTGTTTTGAAAATAAAATCAGGGTTGTAGT
1 AACAGGGTTGGAGTATCCCTAATTATGAAAAATCAGTATTTTGAAAATAAAATCAGGGTTGGAGT
*
78516 ATCCCCTCGAAAAT
66 ATCCCCTCAAAAAT
78530 AACAGGGTTGGAGTATCCCTAATTAT-AGAAAATCAGTATTTTGAAAATAAAATCAGGGTTGGAG
1 AACAGGGTTGGAGTATCCCTAATTATGA-AAAATCAGTATTTTGAAAATAAAATCAGGGTTGGAG
78594 TATCCCCTCAAAAAT
65 TATCCCCTCAAAAAT
*
78609 AACGGGGTTGGAGTATCCC
1 AACAGGGTTGGAGTATCCC
78628 CGATCGATGC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 1 0.01
79 88 0.99
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (79 bp):
AACAGGGTTGGAGTATCCCTAATTATGAAAAATCAGTATTTTGAAAATAAAATCAGGGTTGGAGT
ATCCCCTCAAAAAT
Found at i:78751 original size:120 final size:120
Alignment explanation
Indices: 78534--78751 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 120
78524 GAAAATAACA
* *
78534 GGGTTGGAGTATCCCTAATTATAGAAAATCAGTATTTTGAAAATAAAATCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCAGGGTTGGAGTATCC
*
78599 CCTCAAAAATAACGGGGTTGGAGTATCCCCGATCGATGCTTTAGAAATAGGGCTG
66 CCTCAAAAATAACAGGGTTGGAGTATCCCCGATCGATGCTTTAGAAATAGGGCTG
* * * * *
78654 GGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCAATTATAGA-AAATCAATATTTTGAAAATAAAATCAGGGTTGGAGTATC
* *
78718 TCCTCAAAAATAACAGGGTTGGAGTATCTCCGAT
65 CCCTCAAAAATAACAGGGTTGGAGTATCCCCGAT
78752 GAAATAATGG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
119 2 0.02
120 85 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (120 bp):
GGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCAGGGTTGGAGTATCC
CCTCAAAAATAACAGGGTTGGAGTATCCCCGATCGATGCTTTAGAAATAGGGCTG
Found at i:78756 original size:28 final size:28
Alignment explanation
Indices: 78705--78779 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
78695 AATAAAGTCG
*
78705 GGGTTGGAGTATCTCCTCA-AAAATAACA
1 GGGTTGGAGTATCTCC-GATAAAATAACA
* **
78733 GGGTTGGAGTATCTCCGATGAAATAATG
1 GGGTTGGAGTATCTCCGATAAAATAACA
* *
78761 GGGTTGAAGTATCCCCGAT
1 GGGTTGGAGTATCTCCGAT
78780 TATGAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (28 bp):
GGGTTGGAGTATCTCCGATAAAATAACA
Found at i:78826 original size:51 final size:51
Alignment explanation
Indices: 78763--78878 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
78753 AAATAATGGG
* *
78763 GTTGAAGTATCCCCGATTATGAAAAATTCATGTTTTAGAAATAAAACCAAA
1 GTTGGAGTATCCCCAATTATGAAAAATTCATGTTTTAGAAATAAAACCAAA
* * ***
78814 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCAATTATGAAAAATTCATGTTTTAGAAATAAAACCAAA
78865 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
78879 TTGGAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTATGAAAAATTCATGTTTTAGAAATAAAACCAAA
Found at i:81855 original size:41 final size:41
Alignment explanation
Indices: 81810--81888 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
81800 ATAATATGCA
* *
81810 CTCCTTCCATACCTGTGCTTTCATCTCCACCTTGTCTTGTG
1 CTCCTTCCATACCTATACTTTCATCTCCACCTTGTCTTGTG
* **
81851 CTCCTTCCATACCTATACTTTCTTCTCCATTTTGTCTT
1 CTCCTTCCATACCTATACTTTCATCTCCACCTTGTCTT
81889 TTATAAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.11, C:0.35, G:0.08, T:0.46
Consensus pattern (41 bp):
CTCCTTCCATACCTATACTTTCATCTCCACCTTGTCTTGTG
Found at i:84724 original size:21 final size:22
Alignment explanation
Indices: 84679--84732 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
84669 TGGACATGTT
84679 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
84701 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
84722 AAAAATGCATG
1 AAAAATGCATG
84733 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:85692 original size:20 final size:20
Alignment explanation
Indices: 85645--85719 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
85635 AAAAAGACAT
* ** *
85645 AATGTATCGTTACATTGTAG
1 AATGTATCGATACATTCAAA
* *
85665 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
85685 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
85705 AATGTATCGATACAT
1 AATGTATCGATACAT
85720 CAAGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:85713 original size:40 final size:39
Alignment explanation
Indices: 85642--85719 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
85632 GGTAAAAAGA
* * *
85642 CATAATGTATCGTTACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
85681 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
85720 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:86321 original size:32 final size:32
Alignment explanation
Indices: 86293--86843 Score: 901
Period size: 32 Copynumber: 17.2 Consensus size: 32
86283 GGTGCCACTA
* * * **
86293 ACTTATGTGGGCCTTGAAAAGAATTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
86325 ACTCGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
86357 ACTTGTGTGGACTTTGAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
86389 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
86421 ACTTGTGTGGGCTTTGGAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
86453 ACTTGTGTGGGCTTTGAAAAGGGTTGCCAGCCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCA-CCG
*
86486 AATTGTGTGGGCTTTGAAAAT-GGTTGCCACCG
1 ACTTGTGTGGGCTTTG-AAATGGGTTGCCACCG
86518 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
86550 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
86582 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
86614 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
86646 ACTTGTGTGGGCTTTGAAAAT-GGTTGCCACCG
1 ACTTGTGTGGGCTTTG-AAATGGGTTGCCACCG
86678 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
86710 ACTTGTGTGGGCTTTGAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
86742 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
86774 ACTTGTGTGGGCTTTGAAATGGGTTGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
86806 ACTTTTGTGGGTTTTGAAATGGG-TGCCACAG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
86837 AGTTGTG
1 ACTTGTG
86844 GATTTTAAAA
Statistics
Matches: 489, Mismatches: 25, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
31 20 0.04
32 436 0.89
33 30 0.06
34 3 0.01
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
Found at i:86923 original size:27 final size:27
Alignment explanation
Indices: 86826--88001 Score: 1805
Period size: 27 Copynumber: 43.0 Consensus size: 27
86816 GTTTTGAAAT
* *
86826 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
86854 GAGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
86881 GAGATGCCACAGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
86909 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
86936 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
86963 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
86990 GGGTGCCACGGAGTTATGGA-TTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
87017 GGGTGCCACGGAGTTGTGGACTTTAAAT
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
87045 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
87072 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
87100 GGGTACCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
87127 GGGTGTCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
87154 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
87182 GGGTACCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
87209 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87236 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
87264 GGGTGCCGCGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87291 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87318 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** * *
87345 GAATGTCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87372 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
87400 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87427 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87454 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
87481 GATATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
87509 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
87536 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
87563 GTGATGCCACAGAGTTGTAGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
87591 GGGTGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87618 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87645 GGGTGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
87673 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
87700 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
87728 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
87755 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87782 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
87810 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87837 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
87864 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
87892 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
87919 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
87947 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
87974 GGGTGCCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
88001 G
1 G
88002 AGGTCACACT
Statistics
Matches: 1055, Mismatches: 78, Indels: 31
0.91 0.07 0.03
Matches are distributed among these distances:
26 2 0.00
27 711 0.67
28 340 0.32
29 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:86950 original size:82 final size:81
Alignment explanation
Indices: 86826--88001 Score: 1805
Period size: 82 Copynumber: 14.3 Consensus size: 81
86816 GTTTTGAAAT
* * * * * *
86826 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* *
86891 AGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
86909 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
86974 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
86990 GGGTGCCACGGAGTTATGGA-TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAATGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
*
87054 AGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * * * *
87072 GAGATGCCATGGAGTTATGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGGTGTCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
87137 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
87154 GGGATGCCACAGAGTTGTGGACTTAAAAGGGTACCGCGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
87219 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* *
87236 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCGCGGAGTTGTGGACTAAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
87301 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** * *
87318 GGGTGCCACGGAGTTGTGGACTTAAAAGAATGTCACGAAGTTGTGGACTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
87383 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
87400 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
87465 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
** *
87481 GATATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
87546 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
87563 GTGATGCCACAGAGTTGTAGACTTAAAAGGGTGCCGCGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
87628 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
87645 GGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
87710 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
87728 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
87793 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
**
87810 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
87875 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* *
87892 GGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
87957 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
87974 GGGTGCCACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG
88002 AGGTCACACT
Statistics
Matches: 1010, Mismatches: 71, Indels: 25
0.91 0.06 0.02
Matches are distributed among these distances:
80 2 0.00
81 178 0.18
82 679 0.67
83 149 0.15
84 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:87049 original size:109 final size:108
Alignment explanation
Indices: 86826--88001 Score: 1805
Period size: 109 Copynumber: 10.8 Consensus size: 108
86816 GTTTTGAAAT
* * * * * *
86826 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* * *
86891 AGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
86936 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
87001 AGTTATGGA-TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAT
66 AGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * * * *
87045 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGGAGTTATGGACTTAAAAGGGTACCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
87110 GAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
87154 GGGATGCCACAGAGTTGTGGACTTAAAAGGGTACCGCGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
87219 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
* *
87264 GGGTGCCGCGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
** * *
87329 AGTTGTGGACTTAAAAGAATGTCACGAAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
87372 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
87437 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** *
87481 GATATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* * * *
87546 GAGTTGTGGTCTTAAAAGTGATGCCACAGAGTTGTAGACTTAAAA
65 GAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
*
87591 GGGTGCCGCGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
87656 AGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
87700 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
87765 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
**
87810 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
87875 AGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
87919 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
87984 GAGTTGTGGGCTTTAAAG
65 GAGTTGTGGACTTAAAAG
88002 AGGTCACACT
Statistics
Matches: 979, Mismatches: 73, Indels: 29
0.91 0.07 0.03
Matches are distributed among these distances:
107 2 0.00
108 66 0.07
109 573 0.59
110 336 0.34
111 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:89342 original size:23 final size:24
Alignment explanation
Indices: 89316--89367 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
89306 TTTTATTTTG
*
89316 TTTTTGCACTTTTTCTTTTCA-TT
1 TTTTTGCACTTTTGCTTTTCAGTT
** *
89339 TTTTTGTGCTTTTGCTTTTGAGTT
1 TTTTTGCACTTTTGCTTTTCAGTT
89363 TTTTT
1 TTTTT
89368 TTGTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTTTGCACTTTTGCTTTTCAGTT
Found at i:94108 original size:26 final size:27
Alignment explanation
Indices: 94079--94129 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
94069 TTTCTTGATT
94079 GAAA-AACAGGGTTGGAGTATCCCCTC
1 GAAAGAACAGGGTTGGAGTATCCCCTC
**
94105 GAAAGAATGGGGTTGGAGTATCCCC
1 GAAAGAACAGGGTTGGAGTATCCCC
94130 AATGATGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (27 bp):
GAAAGAACAGGGTTGGAGTATCCCCTC
Found at i:95505 original size:23 final size:23
Alignment explanation
Indices: 95479--95527 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
95469 TGGACATGTT
95479 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
95502 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
95525 AAA
1 AAA
95528 TGCATGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.16
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:95527 original size:21 final size:22
Alignment explanation
Indices: 95479--95533 Score: 94
Period size: 23 Copynumber: 2.5 Consensus size: 22
95469 TGGACATGTT
95479 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAAT-AA
95502 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
95523 AAAAATGCATG
1 AAAAATGCATG
95534 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 12 0.38
23 20 0.62
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:101665 original size:25 final size:25
Alignment explanation
Indices: 101637--101696 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
101627 TTATTTTTAA
*
101637 AATTTTTAATTAAATTAAAATTT-TT
1 AATTTTAAATTAAA-TAAAATTTATT
* *
101662 AATTATAAATTAAATAAATTTTATT
1 AATTTTAAATTAAATAAAATTTATT
*
101687 AATTTAAAAT
1 AATTTTAAAT
101697 ATTTATAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTTTAAATTAAATAAAATTTATT
Found at i:101672 original size:20 final size:18
Alignment explanation
Indices: 101633--101716 Score: 80
Period size: 18 Copynumber: 4.3 Consensus size: 18
101623 AAATTTATTT
101633 TTAAAATTTTTAATTAAA
1 TTAAAATTTTTAATTAAA
101651 TTAAAATTTTTAATTATAAA
1 TTAAAATTTTTAA-T-TAAA
* *
101671 TTAAATAAATTTT-ATTAAT
1 TT-AA-AATTTTTAATTAAA
101690 TTAAAATATTTATAATTACAA
1 TTAAAAT-TTT-TAATTA-AA
101711 TTAAAA
1 TTAAAA
101717 AATATAACAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.04
18 18 0.33
19 7 0.13
20 11 0.20
21 10 0.19
22 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAAATTTTTAATTAAA
Found at i:101694 original size:39 final size:40
Alignment explanation
Indices: 101635--101719 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 40
101625 ATTTATTTTT
*
101635 AAAATTTTTAATTAAATTAAAAT-TTT-TAATTATAAATTA
1 AAAAATTTTAATTAAATTAAAATATTTATAATTA-AAATTA
* *
101674 AATAAATTTT-ATTAATTTAAAATATTTATAATTACAATTA
1 AA-AAATTTTAATTAAATTAAAATATTTATAATTAAAATTA
101714 AAAAAT
1 AAAAAT
101720 ATAACATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.45
40 16 0.40
41 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (40 bp):
AAAAATTTTAATTAAATTAAAATATTTATAATTAAAATTA
Found at i:111149 original size:2 final size:2
Alignment explanation
Indices: 111142--111186 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
111132 TAAGGCCAGA
111142 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111183 AT AT
1 AT AT
111187 CTACACACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120374 original size:16 final size:15
Alignment explanation
Indices: 120338--120376 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
120328 ACTTGAAATC
120338 AAAATGATCCGAACT
1 AAAATGATCCGAACT
*
120353 AGAAATGATCCGAATTT
1 A-AAATGATCCGAA-CT
120370 AAAATGA
1 AAAATGA
120377 CTTGAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (15 bp):
AAAATGATCCGAACT
Found at i:123091 original size:18 final size:17
Alignment explanation
Indices: 123068--123106 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
123058 AAATATAATT
*
123068 TTTTAAATATATAAAAAA
1 TTTTAAA-AAATAAAAAA
*
123086 TTTTAAAAAATTAAAAA
1 TTTTAAAAAATAAAAAA
123103 TTTT
1 TTTT
123107 CATATCGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAATAAAAAA
Found at i:125228 original size:19 final size:18
Alignment explanation
Indices: 125188--125253 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 18
125178 TAAATTATTT
* *
125188 TTATAATTTTTAT-ATTAT
1 TTAT-ATTTTAATAATTAA
125206 TTATATTTTAATAAATTAA
1 TTATATTTTAAT-AATTAA
125225 TTATTAATTTTAATAATATAA
1 TTA-T-ATTTTAATAAT-TAA
*
125246 TTTTATTT
1 TTATATTT
125254 GTTATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.17
18 4 0.10
19 11 0.28
20 5 0.12
21 13 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATTTTAATAATTAA
Found at i:125585 original size:35 final size:34
Alignment explanation
Indices: 125537--125614 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 34
125527 AATTTTTTTT
*
125537 TTTATT-TAGGTTCGGGTCAATCATATCAATCCCA
1 TTTATTATTGGTTCGGGTCAATCATATCAA-CCCA
125571 TTTATTATTGGTTCGGGTCAATCATATCAACCCA
1 TTTATTATTGGTTCGGGTCAATCATATCAACCCA
125605 TATTATTATT
1 T-TTATTATT
125615 TAAAATAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
34 11 0.27
35 30 0.73
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (34 bp):
TTTATTATTGGTTCGGGTCAATCATATCAACCCA
Found at i:126106 original size:22 final size:21
Alignment explanation
Indices: 126080--126154 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
126070 TTTAAAATTA
126080 AAATAAGAAAAACCATGAACTT
1 AAATAA-AAAAACCATGAACTT
* *
126102 AAATAAAAAAATTCA--AAATT
1 AAATAAAAAAA-CCATGAACTT
*
126122 AAAATAACAAAACCATGAACTT
1 -AAATAAAAAAACCATGAACTT
126144 AAATAAAAAAA
1 AAATAAAAAAA
126155 TTCAAAACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
20 6 0.14
21 25 0.58
22 12 0.28
ACGTcount: A:0.67, C:0.11, G:0.04, T:0.19
Consensus pattern (21 bp):
AAATAAAAAAACCATGAACTT
Found at i:126142 original size:42 final size:43
Alignment explanation
Indices: 126073--126161 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 43
126063 TATTTTATTT
126073 AAAATTAAAATAAGAAAAACCATGAACTTAAATAAAAAAATTC
1 AAAATTAAAATAAGAAAAACCATGAACTTAAATAAAAAAATTC
*
126116 AAAATTAAAATAA-CAAAACCATGAACTTAAATAAAAAAATTC
1 AAAATTAAAATAAGAAAAACCATGAACTTAAATAAAAAAATTC
126158 AAAA
1 AAAA
126162 CTTTTTGTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 32 0.71
43 13 0.29
ACGTcount: A:0.66, C:0.10, G:0.03, T:0.20
Consensus pattern (43 bp):
AAAATTAAAATAAGAAAAACCATGAACTTAAATAAAAAAATTC
Found at i:126163 original size:21 final size:21
Alignment explanation
Indices: 126097--126164 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
126087 AAAAACCATG
126097 AACTTAAATAAAAAAATTCAA
1 AACTTAAATAAAAAAATTCAA
* * *
126118 AA-TTAAAATAACAAAA-CCATG
1 AACTT-AAATAAAAAAATTCA-A
126139 AACTTAAATAAAAAAATTCAA
1 AACTTAAATAAAAAAATTCAA
126160 AACTT
1 AACTT
126165 TTTGTTCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 4 0.11
21 29 0.78
22 4 0.11
ACGTcount: A:0.63, C:0.12, G:0.01, T:0.24
Consensus pattern (21 bp):
AACTTAAATAAAAAAATTCAA
Found at i:126320 original size:21 final size:21
Alignment explanation
Indices: 126298--126343 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
126288 TTTAAACTTT
* *
126298 AAATATAATTTTTATTAATTTA
1 AAAT-TAATATTTAATAATTTA
*
126320 AAATTAATATTTAATAATTAA
1 AAATTAATATTTAATAATTTA
126341 AAA
1 AAA
126344 AATTATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTAATATTTAATAATTTA
Found at i:126771 original size:23 final size:25
Alignment explanation
Indices: 126733--126782 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
126723 TAATAAAAAT
**
126733 ATATAATATATGAAA-T-ATATATA
1 ATATAATATAAAAAATTAATATATA
126756 ATATAATATAAAAAATTAATATATA
1 ATATAATATAAAAAATTAATATATA
126781 AT
1 AT
126783 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 1 0.04
25 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATAATATAAAAAATTAATATATA
Found at i:126819 original size:40 final size:42
Alignment explanation
Indices: 126760--126844 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 42
126750 TATATAATAT
126760 AATATAAAAAATTAATATA-TAATTATTT-TA-AAATTTAT-AA
1 AATATAAAAAATTAATATATTAA-TATTTATATAAA-TTATGAA
** *
126800 AATATAAATTATTATTATATTAATATTTATATAAATTATGAA
1 AATATAAAAAATTAATATATTAATATTTATATAAATTATGAA
126842 AAT
1 AAT
126845 TTCAAACACG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
40 21 0.55
41 9 0.24
42 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (42 bp):
AATATAAAAAATTAATATATTAATATTTATATAAATTATGAA
Found at i:126828 original size:32 final size:33
Alignment explanation
Indices: 126728--126835 Score: 101
Period size: 32 Copynumber: 3.2 Consensus size: 33
126718 ATAAGTAATA
* *
126728 AAAATATATAATATATGAAATATATATAATATAATAT
1 AAAATATA-AATATAT-AATTATAT-TAATAT-TTAT
* * * *
126765 AAAAAATTAATATATAATTATTTTAAAATTTAT
1 AAAATATAAATATATAATTATATTAATATTTAT
*
126798 AAAATATAAAT-TATTATTATATTAATATTTAT
1 AAAATATAAATATATAATTATATTAATATTTAT
126830 ATAAAT
1 A-AAAT
126836 TATGAAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
32 19 0.32
33 16 0.27
34 5 0.08
35 6 0.10
36 7 0.12
37 6 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.44
Consensus pattern (33 bp):
AAAATATAAATATATAATTATATTAATATTTAT
Found at i:132342 original size:2 final size:2
Alignment explanation
Indices: 132335--132372 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
132325 GGGGAAATCA
* *
132335 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132373 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133232 original size:21 final size:23
Alignment explanation
Indices: 133175--133233 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 23
133165 TCAATTATTT
* *
133175 TATA-ATTATATAATATATTAAT
1 TATATATTTTATAATATATTAAG
*
133197 TATATATTTT-T-ATATATTAGG
1 TATATATTTTATAATATATTAAG
133218 TA-AT-TTTTATAATATA
1 TATATATTTTATAATATA
133234 AAGAATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 15 0.48
22 5 0.16
23 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (23 bp):
TATATATTTTATAATATATTAAG
Found at i:133374 original size:13 final size:13
Alignment explanation
Indices: 133341--133373 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
133331 AATTAAATTT
*
133341 TTAAAAAATACAC
1 TTAAAAAATACAA
133354 TTAAAAAATA-AA
1 TTAAAAAATACAA
133366 TTAAAAAA
1 TTAAAAAA
133374 AAGATAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAAAAATACAA
Found at i:133554 original size:144 final size:148
Alignment explanation
Indices: 133313--133596 Score: 468
Period size: 144 Copynumber: 1.9 Consensus size: 148
133303 TTAATAAAAA
133313 AATTATGAAATTACTAAAAATTAAATTTTTAAAAAATACACTTAAAAAATAAATTAAAAAAAAGA
1 AATTATGAAATTACTAAAAATTAAATTTTTAAAAAATACACTT-AAAAATAAATT-AAAAAAAGA
* * *
133378 TAAGCTTAAATGAGTTTAGATTATTTATTTACAAATGTGAGTAGATTTAGATAAATTTAAAATTT
64 T-A--TTAAATGAGTTTAAATTACTTATTTACAAATGTGAGTAGATTTAAATAAATTTAAAATTT
133443 ATATTTTAAGTCGAACATATTTG
126 ATATTTTAAGTCGAACATATTTG
133466 AATTATGAAATTACTAAAAATTAAATTTTTAAAAAATACACTT-AAAATAAATT-AAAAAA-AT-
1 AATTATGAAATTACTAAAAATTAAATTTTTAAAAAATACACTTAAAAATAAATTAAAAAAAGATA
133527 TTAAATGAGTTTAAATTACTTATTTACAAATGTGAGTAGATTTAAATAAATTTAAAATTTATATT
66 TTAAATGAGTTTAAATTACTTATTTACAAATGTGAGTAGATTTAAATAAATTTAAAATTTATATT
133592 TTAAG
131 TTAAG
133597 CCAAAAAAAT
Statistics
Matches: 128, Mismatches: 3, Indels: 9
0.91 0.02 0.06
Matches are distributed among these distances:
144 67 0.52
148 2 0.02
149 6 0.05
151 10 0.08
153 43 0.34
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (148 bp):
AATTATGAAATTACTAAAAATTAAATTTTTAAAAAATACACTTAAAAATAAATTAAAAAAAGATA
TTAAATGAGTTTAAATTACTTATTTACAAATGTGAGTAGATTTAAATAAATTTAAAATTTATATT
TTAAGTCGAACATATTTG
Found at i:133870 original size:23 final size:25
Alignment explanation
Indices: 133818--133881 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
133808 TTTATTTTTG
*
133818 ATAAGTTTTT-ATATTTATATTAAC
1 ATAAATTTTTAATATTTATATTAAC
*
133842 AT-AATTTTTAATTTTTATA-TAA-
1 ATAAATTTTTAATATTTATATTAAC
*
133864 ATAAATTATTAATATTTA
1 ATAAATTTTTAATATTTA
133882 ATTTATATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.06
23 22 0.65
24 10 0.29
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
ATAAATTTTTAATATTTATATTAAC
Found at i:133965 original size:29 final size:28
Alignment explanation
Indices: 133924--133999 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 28
133914 TATTTTATTT
*
133924 AAAATA-AAAATTTATTTAAATATAAATA
1 AAAATATAAAATTTATTTAAACAT-AATA
*
133952 AAAAT-TATTAATTTATTTAAACATAATA
1 AAAATATA-AAATTTATTTAAACATAATA
133980 AAAATATAAAATTTATTTAA
1 AAAATATAAAATTTATTTAA
134000 TAATGTGTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 26 0.62
29 16 0.38
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAATATAAAATTTATTTAAACATAATA
Found at i:133977 original size:25 final size:24
Alignment explanation
Indices: 133907--133977 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 24
133897 CTCTTAGCAT
*
133907 AAATTATTATTTTATTTAAAATAA
1 AAATTATTAATTTATTTAAAATAA
**
133931 AAA-T-TT-ATTTAAATATAAATAA
1 AAATTATTAATTTATTTA-AAATAA
133953 AAATTATTAATTTATTTAAACATAA
1 AAATTATTAATTTATTTAAA-ATAA
133978 TAAAAATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 6 0.16
22 11 0.30
23 2 0.05
24 7 0.19
25 11 0.30
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTATTAATTTATTTAAAATAA
Found at i:134917 original size:19 final size:19
Alignment explanation
Indices: 134895--134940 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
134885 TAAAAATTAA
134895 ATATAATTATATTAAATAT
1 ATATAATTATATTAAATAT
* **
134914 ATATATTTATATTTTATAT
1 ATATAATTATATTAAATAT
*
134933 TTATAATT
1 ATATAATT
134941 GATCAGTACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATAATTATATTAAATAT
Found at i:137120 original size:4 final size:4
Alignment explanation
Indices: 137113--137143 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
137103 ATATATATAT
137113 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
137144 TATCTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:137421 original size:14 final size:14
Alignment explanation
Indices: 137402--137430 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
137392 AGGGAGGATA
137402 TATTTTGTTTTATT
1 TATTTTGTTTTATT
137416 TATTTTGTTTTATT
1 TATTTTGTTTTATT
137430 T
1 T
137431 TATGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TATTTTGTTTTATT
Found at i:139783 original size:3 final size:3
Alignment explanation
Indices: 139775--139807 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
139765 TTTAATCTAC
139775 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
139808 GTAAATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.