Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold92
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: 2337674
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 15 of 19
Found at i:1772423 original size:32 final size:31
Alignment explanation
Indices: 1772357--1772438 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 31
1772347 AAATATGATA
1772357 ATATTAAATTTAAT-T--TA-AAATATAAAT
1 ATATTAAATTTAATATAATATAAATATAAAT
* *
1772384 ATTTTAAATTTAATATAATATAAATTATTAAT
1 ATATTAAATTTAATATAATATAAA-TATAAAT
1772416 ATATTAAAATTT-ATATAAATATA
1 ATATT-AAATTTAATAT-AATATA
1772439 TAAAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
27 13 0.29
28 1 0.02
30 2 0.04
31 3 0.07
32 14 0.31
33 12 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATTAAATTTAATATAATATAAATATAAAT
Found at i:1772448 original size:20 final size:20
Alignment explanation
Indices: 1772413--1772454 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1772403 ATAAATTATT
*
1772413 AATATATTAAAATTTATATA
1 AATATATTAAAATTTAAATA
1772433 AATATA-TAAAATTTTAAATA
1 AATATATTAAAA-TTTAAATA
1772453 AA
1 AA
1772455 ATTATAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATATTAAAATTTAAATA
Found at i:1772496 original size:27 final size:26
Alignment explanation
Indices: 1772375--1772501 Score: 84
Period size: 27 Copynumber: 4.8 Consensus size: 26
1772365 TTTAATTTAA
* *
1772375 AATATAAATATTTTAAATT-T-AATAT
1 AATATAAATA-TATAAATTATAAAAAT
* *
1772400 AATATAAAT-TATTAATATATTAAAATT
1 AATATAAATATATAAAT-TA-TAAAAAT
* *
1772427 TATATAAATATATAAAATTTTAAATAA-
1 AATATAAATATAT-AAATTATAAA-AAT
*
1772454 AATTATAGCATA-ATAAAATTATAAAAAT
1 AA-TATA-AATATAT-AAATTATAAAAAT
1772482 AATATAAATATATAAATTAT
1 AATATAAATATATAAATTAT
1772502 TCATATATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
23 5 0.06
24 1 0.01
25 9 0.11
26 11 0.14
27 24 0.30
28 23 0.29
29 6 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
AATATAAATATATAAATTATAAAAAT
Found at i:1772498 original size:17 final size:17
Alignment explanation
Indices: 1772449--1772497 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1772439 TAAAATTTTA
**
1772449 AATAAAATTAT-AGCAT
1 AATAAAATTATAAAAAT
1772465 AATAAAATTATAAAAAT
1 AATAAAATTATAAAAAT
1772482 AATATAAATATATAAA
1 AATA-AAAT-TATAAA
1772498 TTATTCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 7 0.25
18 4 0.14
19 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AATAAAATTATAAAAAT
Found at i:1773786 original size:20 final size:20
Alignment explanation
Indices: 1773745--1773783 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1773735 CAAAATATGA
* *
1773745 TATTTTTAGTCTTTATTAAT
1 TATTTTAAGTATTTATTAAT
1773765 TATTTTAAGTATTATATTA
1 TATTTTAAGTATT-TATTA
1773784 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTTAAGTATTTATTAAT
Found at i:1773859 original size:17 final size:18
Alignment explanation
Indices: 1773837--1773870 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1773827 TAACATTTGA
1773837 ATATTTACTTG-ATTATT
1 ATATTTACTTGAATTATT
*
1773854 ATATTTATTTGAATTAT
1 ATATTTACTTGAATTAT
1773871 AAAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (18 bp):
ATATTTACTTGAATTATT
Found at i:1776877 original size:17 final size:18
Alignment explanation
Indices: 1776824--1776884 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 18
1776814 AGTTAAAAAA
1776824 ATTTAATATAAAATAAAT
1 ATTTAATATAAAATAAAT
*
1776842 AATTTTAATATCAAATAAAT
1 -A-TTTAATATAAAATAAAT
*
1776862 ATTTAATAT-TAATAAAT
1 ATTTAATATAAAATAAAT
1776879 ATTTAA
1 ATTTAA
1776885 AAATATACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.33
18 8 0.21
19 2 0.05
20 16 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTAATATAAAATAAAT
Found at i:1777576 original size:21 final size:20
Alignment explanation
Indices: 1777536--1777575 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1777526 TTTTTTATGT
1777536 TTTTATTTATTGATTTAAAA
1 TTTTATTTATTGATTTAAAA
1777556 TTTTATTTTATT-ATTTAAAA
1 TTTTA-TTTATTGATTTAAAA
1777576 AATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATTTATTGATTTAAAA
Found at i:1777805 original size:15 final size:14
Alignment explanation
Indices: 1777782--1777841 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
1777772 TTAAATATAA
*
1777782 AAATTTAATAATATT
1 AAATATAATAATA-T
*
1777797 AAATATAATTATAT
1 AAATATAATAATAT
* *
1777811 AAATATGATATGTAT
1 AAATATAATA-ATAT
1777826 AAATATTAA-AATAT
1 AAATA-TAATAATAT
1777840 AA
1 AA
1777842 CACAATATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 14 0.39
15 20 0.56
16 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AAATATAATAATAT
Found at i:1781657 original size:7 final size:7
Alignment explanation
Indices: 1781647--1781681 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
1781637 AAGATTCCAA
1781647 TAAAATT
1 TAAAATT
1781654 TAAAATT
1 TAAAATT
1781661 TAAAATT
1 TAAAATT
*
1781668 TAATATT
1 TAAAATT
1781675 TATAAAT
1 TA-AAAT
1781682 ATTTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 22 0.88
8 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TAAAATT
Found at i:1793866 original size:16 final size:16
Alignment explanation
Indices: 1793847--1793924 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 16
1793837 TTGATAATTT
1793847 AAATTTAAAATAATCA
1 AAATTTAAAATAATCA
* * *
1793863 AAATTTAAAACGATTAA
1 AAATTTAAAA-TAATCA
1793880 ATAATTTAAAATAAT--
1 A-AATTTAAAATAATCA
* *
1793895 TAATTTAAAATGATCA
1 AAATTTAAAATAATCA
*
1793911 AAACTTAAAATAAT
1 AAATTTAAAATAAT
1793925 TAAACTCAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 12 0.25
16 21 0.44
17 6 0.12
18 9 0.19
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (16 bp):
AAATTTAAAATAATCA
Found at i:1793978 original size:15 final size:14
Alignment explanation
Indices: 1793881--1794068 Score: 77
Period size: 14 Copynumber: 13.1 Consensus size: 14
1793871 AACGATTAAA
1793881 TAATTTAAAATAAT
1 TAATTTAAAATAAT
*
1793895 TAATTTAAAATGAT
1 TAATTTAAAATAAT
* *
1793909 CAAAACTTAAAATAAT
1 --TAATTTAAAATAAT
** *
1793925 TAAACT-CAATAAAT
1 TAATTTAAAAT-AAT
*
1793939 CTAATATCAAATATAAT
1 -TAAT-TTAAA-ATAAT
*
1793956 TAAATTAAAATAGAT
1 TAATTTAAAATA-AT
1793971 TAATTT-AAAT-AT
1 TAATTTAAAATAAT
1793983 TAAATTT--AAT--T
1 T-AATTTAAAATAAT
*
1793994 T-ATTTAAAATATT
1 TAATTTAAAATAAT
* **
1794007 TAAAAATTTAACATTGT
1 T---AATTTAAAATAAT
1794024 TAATTTAAAATAATT
1 TAATTTAAAATAA-T
*
1794039 TAATTTAAATTAAT
1 TAATTTAAAATAAT
*
1794053 TTATCTTAAAATAAT
1 TAAT-TTAAAATAAT
1794068 T
1 T
1794069 TAAATCGTTA
Statistics
Matches: 131, Mismatches: 24, Indels: 37
0.68 0.12 0.19
Matches are distributed among these distances:
9 4 0.03
11 5 0.04
12 6 0.05
13 10 0.08
14 39 0.30
15 37 0.28
16 14 0.11
17 14 0.11
18 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:1794069 original size:15 final size:14
Alignment explanation
Indices: 1794026--1794070 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
1794016 AACATTGTTA
1794026 ATTTAAAATAATTT
1 ATTTAAAATAATTT
*
1794040 AATTTAAATTAATTT
1 -ATTTAAAATAATTT
1794055 ATCTTAAAATAATTT
1 AT-TTAAAATAATTT
1794070 A
1 A
1794071 AATCGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 2 0.07
15 25 0.93
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAAAATAATTT
Found at i:1794881 original size:28 final size:28
Alignment explanation
Indices: 1794836--1794899 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
1794826 CAAGCTTGAA
* *
1794836 TTTTTAAA-ATAATTTTTTTCCTAAATT
1 TTTTTAAATATAATATTTTTACTAAATT
* * *
1794863 TTTTTAAATTTAATATTTTTATTAATTT
1 TTTTTAAATATAATATTTTTACTAAATT
1794891 TTTTTAAAT
1 TTTTTAAAT
1794900 GTCATATGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTTAAATATAATATTTTTACTAAATT
Found at i:1794947 original size:16 final size:17
Alignment explanation
Indices: 1794926--1794959 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1794916 AACTTGAATA
1794926 TGAATA-ATTTACTTTT
1 TGAATATATTTACTTTT
1794942 TGAATATATTTACTTTT
1 TGAATATATTTACTTTT
1794959 T
1 T
1794960 TACTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
TGAATATATTTACTTTT
Found at i:1796170 original size:17 final size:17
Alignment explanation
Indices: 1796131--1796186 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
1796121 ACATACATAA
*
1796131 AAATATTAAAATT-TAT
1 AAATATAAAAATTATAT
* *
1796147 ATA-ATAAAACTTAT-T
1 AAATATAAAAATTATAT
1796162 AACATATAAAAATTATAT
1 AA-ATATAAAAATTATAT
1796180 AAATATA
1 AAATATA
1796187 TAACATACGA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
17 15 0.48
18 3 0.10
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATAAAAATTATAT
Found at i:1803570 original size:24 final size:24
Alignment explanation
Indices: 1803542--1803589 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1803532 CATAATCATA
*
1803542 AATTAAAGCAGATTAAATTTAAAT
1 AATTAAAGCAAATTAAATTTAAAT
**
1803566 AATTAAATTAAATTAAATTTAAAT
1 AATTAAAGCAAATTAAATTTAAAT
1803590 TGAGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
AATTAAAGCAAATTAAATTTAAAT
Found at i:1804330 original size:40 final size:39
Alignment explanation
Indices: 1804232--1804330 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 39
1804222 AACTCAATCA
1804232 ATAAAT-ATAAATAAATAAATATATAAATGAAGGATCTT
1 ATAAATAATAAATAAATAAATATATAAATGAAGGATCTT
* * * * **
1804270 ATTAATTATGGATTTTATAAATATATAAATGAAGGATCTT
1 ATAAATAAT-AAATAAATAAATATATAAATGAAGGATCTT
1804310 ATAAATAAATAAATAAATAAA
1 ATAAAT-AATAAATAAATAAA
1804331 AAGTTTAGTT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
38 5 0.11
39 2 0.04
40 38 0.81
41 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (39 bp):
ATAAATAATAAATAAATAAATATATAAATGAAGGATCTT
Found at i:1804786 original size:21 final size:21
Alignment explanation
Indices: 1804762--1804812 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1804752 TTTAAAAACT
1804762 TTTTTATGTAA-AAAAGATCGA
1 TTTTTATGTAATAAAA-ATCGA
* * *
1804783 TTTTTCTCTAATAAAAATTGA
1 TTTTTATGTAATAAAAATCGA
1804804 TTTTTATGT
1 TTTTTATGT
1804813 GTAAAATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTTATGTAATAAAAATCGA
Found at i:1806283 original size:19 final size:18
Alignment explanation
Indices: 1806248--1806287 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1806238 AATAGTTCGG
1806248 ATATTTTTATTATATTTT
1 ATATTTTTATTATATTTT
1806266 ATATTTTT-TTATCAATTTT
1 ATATTTTTATTAT--ATTTT
1806285 ATA
1 ATA
1806288 AATATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTTTTATTATATTTT
Found at i:1806901 original size:2 final size:2
Alignment explanation
Indices: 1806894--1806970 Score: 136
Period size: 2 Copynumber: 38.5 Consensus size: 2
1806884 AAATGAATAC
* *
1806894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT GT 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
1806936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1806971 ATGAGAAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1807224 original size:18 final size:20
Alignment explanation
Indices: 1807209--1807257 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
1807199 TATAAATATT
*
1807209 AATATATTTTTAAATAATAA
1 AATAAATTTTTAAATAATAA
1807229 AATAAATTTTTAAATTAAATACA
1 AATAAATTTTTAAA-T-AATA-A
1807252 AATAAA
1 AATAAA
1807258 AAATTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 13 0.52
21 1 0.04
22 4 0.16
23 7 0.28
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAAATTTTTAAATAATAA
Found at i:1808276 original size:19 final size:18
Alignment explanation
Indices: 1808235--1808345 Score: 65
Period size: 19 Copynumber: 6.4 Consensus size: 18
1808225 TTAAATTTAA
1808235 AAATA-ATTAATAAATAT
1 AAATATATTAATAAATAT
**
1808252 TTATATATTAATATAATAT
1 AAATATATTAATA-AATAT
** *
1808271 AAATATATTTAAT-TTTTT
1 AAATATA-TTAATAAATAT
* *
1808289 AAATATATAAAAAAATTAT
1 AAATATATTAATAAA-TAT
**
1808308 ATTTATATT--TAAATAT
1 AAATATATTAATAAATAT
1808324 AAATA-A--AATAAATAT
1 AAATATATTAATAAATAT
1808339 AAATATA
1 AAATATA
1808346 AATATTTAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 17
0.66 0.17 0.17
Matches are distributed among these distances:
15 13 0.19
16 7 0.10
17 9 0.13
18 16 0.24
19 18 0.26
20 5 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATTAATAAATAT
Found at i:1808294 original size:29 final size:27
Alignment explanation
Indices: 1808222--1808330 Score: 80
Period size: 27 Copynumber: 3.9 Consensus size: 27
1808212 TATATTATTT
* * * *
1808222 TATTTAAATTTAAAAAT-AATTAATAAA
1 TATTTATATTTAAATATAAATAAAT-TA
1808249 TATTTATATATT-AATATAATATAAA-TA
1 TATTTATAT-TTAAATATAA-ATAAATTA
* *
1808276 TATTTAATTTTTTAAATATATAAAAAAATTA
1 TATTT-A-TATTT-AA-ATATAAATAAATTA
1808307 TATTTATATTTAAATATAAATAAA
1 TATTTATATTTAAATATAAATAAA
1808331 ATAAATATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
27 28 0.43
28 8 0.12
29 10 0.15
30 6 0.09
31 13 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TATTTATATTTAAATATAAATAAATTA
Found at i:1808338 original size:29 final size:29
Alignment explanation
Indices: 1808222--1808363 Score: 86
Period size: 29 Copynumber: 5.0 Consensus size: 29
1808212 TATATTATTT
* * *
1808222 TATTTAAATTTAAAAAT-AAT-TAATAAA
1 TATTTATATTTAAATATAAATAAAATAAA
1808249 TATTTATATATT-AATAT-AATATAAAT--A
1 TATTTATAT-TTAAATATAAATA-AAATAAA
* * *
1808276 TATTTAATTTTTTAAATATATAAAAAAAT-TA
1 TATTT-A-TATTTAAATATA-AATAAAATAAA
1808307 TATTTATATTTAAATATAAATAAAATAAA
1 TATTTATATTTAAATATAAATAAAATAAA
* *
1808336 TA--TAAATATAAATATTTAAATAAAATAA
1 TATTTATATTTAAATA--TAAATAAAATAA
1808364 TGAATCTTAA
Statistics
Matches: 93, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
27 31 0.33
28 12 0.13
29 36 0.39
30 5 0.05
31 9 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TATTTATATTTAAATATAAATAAAATAAA
Found at i:1808354 original size:64 final size:63
Alignment explanation
Indices: 1808222--1808357 Score: 145
Period size: 64 Copynumber: 2.2 Consensus size: 63
1808212 TATATTATTT
* * * *
1808222 TATTTAAAT-TTAAAAATAATTAATAAATATTTATATATTAATATAATATAAATATATTTAAT
1 TATTTAAATATTAAAAATAATTAATAAATATTTAAATATTAATATAAAATAAATATATATAAA
* **
1808284 TTTTTAAATATATAAAAA-AATTATATTTATATTTAAATA-TAA-ATAAAATAAATATAAATATA
1 TATTTAAATAT-TAAAAATAATTA-ATAAATATTTAAATATTAATATAAAATAAATAT--ATATA
1808346 AA
62 AA
1808348 TATTTAAATA
1 TATTTAAATA
1808358 AAATAATGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
62 20 0.33
63 9 0.15
64 32 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (63 bp):
TATTTAAATATTAAAAATAATTAATAAATATTTAAATATTAATATAAAATAAATATATATAAA
Found at i:1812505 original size:32 final size:30
Alignment explanation
Indices: 1812464--1812550 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 30
1812454 TATATATAAA
1812464 ATAAATTTTAATATATTAATAATTTATAATAT
1 ATAAATTTTAATATATT-ATAATTTAT-ATAT
*
1812496 ATAAATTTTAATATATT-TATATCTTATTTAT
1 ATAAATTTTAATATATTATA-AT-TTATATAT
* * *
1812527 ATTAATTTTTATATAATATAATTT
1 ATAAATTTTAATATATTATAATTT
1812551 TACTTATATC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
30 4 0.08
31 21 0.44
32 23 0.48
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (30 bp):
ATAAATTTTAATATATTATAATTTATATAT
Found at i:1812507 original size:14 final size:14
Alignment explanation
Indices: 1812464--1812511 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 14
1812454 TATATATAAA
1812464 ATAAATTTTAATAT
1 ATAAATTTTAATAT
1812478 ATTAATAATTTATAATAT
1 A-T-A-AATTT-TAATAT
1812496 ATAAATTTTAATAT
1 ATAAATTTTAATAT
1812510 AT
1 AT
1812512 TTATATCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.30
15 6 0.20
16 2 0.07
17 6 0.20
18 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAAATTTTAATAT
Found at i:1812511 original size:16 final size:16
Alignment explanation
Indices: 1812464--1812552 Score: 60
Period size: 16 Copynumber: 5.6 Consensus size: 16
1812454 TATATATAAA
1812464 ATAAATTTTAATATAT
1 ATAAATTTTAATATAT
*
1812480 -TAATAATTT-ATAATAT
1 ATAA-ATTTTAAT-ATAT
1812496 ATAAATTTTAATATAT
1 ATAAATTTTAATATAT
* * * *
1812512 TTATATCTT-ATTTAT
1 ATAAATTTTAATATAT
* *
1812527 ATTAATTTTTATATA-
1 ATAAATTTTAATATAT
1812542 ATATAATTTTA
1 ATA-AATTTTA
1812553 CTTATATCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
15 17 0.31
16 32 0.59
17 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAAATTTTAATATAT
Found at i:1812516 original size:18 final size:18
Alignment explanation
Indices: 1812464--1812516 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
1812454 TATATATAAA
*
1812464 ATAAATTTTAATATATTA
1 ATAAATTTTAATATATTT
*
1812482 AT-AA-TTT-ATA-ATAT
1 ATAAATTTTAATATATTT
1812496 ATAAATTTTAATATATTT
1 ATAAATTTTAATATATTT
1812514 ATA
1 ATA
1812517 TCTTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 4 0.14
15 5 0.18
16 6 0.21
17 5 0.18
18 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATTTTAATATATTT
Found at i:1813047 original size:19 final size:19
Alignment explanation
Indices: 1813006--1813044 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1812996 TTATTTAAAC
*
1813006 AATTAATAAAATCTTATTT
1 AATTAATAAAATCTAATTT
*
1813025 AATTAATCAAAT-TAATTT
1 AATTAATAAAATCTAATTT
1813043 AA
1 AA
1813045 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTAATAAAATCTAATTT
Found at i:1815125 original size:13 final size:12
Alignment explanation
Indices: 1815102--1815149 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
1815092 ATATTTTTTT
1815102 ATATAAGATATAA
1 ATATAA-ATATAA
1815115 ATATTAAATATAA
1 ATA-TAAATATAA
*
1815128 ATAATAAA-ATTA
1 AT-ATAAATATAA
1815140 ATATAAATAT
1 ATATAAATAT
1815150 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.16
12 7 0.23
13 15 0.48
14 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
ATATAAATATAA
Found at i:1815128 original size:6 final size:6
Alignment explanation
Indices: 1815102--1815149 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 6
1815092 ATATTTTTTT
*
1815102 ATATAA GATATAA ATATTAA ATATAA ATAATAA A-ATTA ATATAA ATAT
1 ATATAA -ATATAA ATA-TAA ATATAA AT-ATAA ATATAA ATATAA ATAT
1815150 TTTTAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
5 4 0.11
6 15 0.42
7 17 0.47
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:1815164 original size:18 final size:18
Alignment explanation
Indices: 1815143--1815182 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1815133 AAAATTAATA
*
1815143 TAAATATTTTTAA-ATTTT
1 TAAAT-TTTTTAATATATT
1815161 TAAATTTTTTAATATATT
1 TAAATTTTTTAATATATT
1815179 TAAA
1 TAAA
1815183 AAATATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATTTTTTAATATATT
Found at i:1815843 original size:2 final size:2
Alignment explanation
Indices: 1815836--1815875 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1815826 AGGTTAATAG
1815836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1815876 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1821031 original size:11 final size:11
Alignment explanation
Indices: 1821010--1821043 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1821000 ACTGAATTAA
1821010 ATTATTATTATT
1 ATTATT-TTATT
1821022 ATTATTTTATT
1 ATTATTTTATT
*
1821033 ATAATTTTATT
1 ATTATTTTATT
1821044 CTATTTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:1821766 original size:16 final size:16
Alignment explanation
Indices: 1821745--1821777 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1821735 TTCGAGTTAT
1821745 AATAAATTTAAATTTA
1 AATAAATTTAAATTTA
*
1821761 AATAAATTTAGATTTA
1 AATAAATTTAAATTTA
1821777 A
1 A
1821778 GTATTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAAATTTAAATTTA
Found at i:1822278 original size:26 final size:26
Alignment explanation
Indices: 1822249--1822301 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1822239 GTATTATTTA
* *
1822249 ATAA-TAAAAAATATTTTTATTTAAAT
1 ATAATTAAAAAA-ATTTATATTAAAAT
*
1822275 ATAATTATAAAAATTTATATTAAAAT
1 ATAATTAAAAAAATTTATATTAAAAT
1822301 A
1 A
1822302 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAATTAAAAAAATTTATATTAAAAT
Found at i:1824652 original size:15 final size:16
Alignment explanation
Indices: 1824632--1824661 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1824622 CAACTCTAGT
1824632 TTTTTCT-TTTTTTTC
1 TTTTTCTATTTTTTTC
1824647 TTTTTCTATTTTTTT
1 TTTTTCTATTTTTTT
1824662 TAAATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCTATTTTTTTC
Found at i:1829634 original size:16 final size:17
Alignment explanation
Indices: 1829609--1829641 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1829599 ATTAATATTA
1829609 TTTATATTTATTTAAAT
1 TTTATATTTATTTAAAT
1829626 TTTAT-TTTATTTAAAT
1 TTTATATTTATTTAAAT
1829642 ATAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTTATTTAAAT
Found at i:1830803 original size:18 final size:18
Alignment explanation
Indices: 1830780--1830837 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 18
1830770 TTTATGTTAA
1830780 AAATAAATTAATAAAATT
1 AAATAAATTAATAAAATT
** *
1830798 AAATAAAAGGATTAAAAATT
1 AAAT-AAATTAAT-AAAATT
*
1830818 AAATAAGTTAA-AAAATT
1 AAATAAATTAATAAAATT
1830835 AAA
1 AAA
1830838 GTAGAGGGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 8 0.26
20 10 0.32
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAATAAATTAATAAAATT
Found at i:1832406 original size:16 final size:16
Alignment explanation
Indices: 1832385--1832440 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 16
1832375 AATTAAACTG
1832385 AATTTTATTTTTAATT
1 AATTTTATTTTTAATT
1832401 AATTTTTTATTTTTATAATAT
1 AA--TTTTA-TTTT-TAAT-T
1832422 AA-TTTATTTTTAAATT
1 AATTTTATTTTT-AATT
1832438 AAT
1 AAT
1832441 AAAAAACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 9 0.27
19 4 0.12
20 4 0.12
21 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTATTTTTAATT
Found at i:1837134 original size:19 final size:19
Alignment explanation
Indices: 1837110--1837149 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1837100 TTCTTTAGTA
1837110 AATTCAACAATTATTATTC
1 AATTCAACAATTATTATTC
1837129 AATTCAACAATTATTATTC
1 AATTCAACAATTATTATTC
1837148 AA
1 AA
1837150 ATATCTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTCAACAATTATTATTC
Found at i:1837449 original size:19 final size:18
Alignment explanation
Indices: 1837404--1837451 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
1837394 AAAATTATTA
*
1837404 GATTTAAAAAATAAATTT
1 GATTTAAAAAATAAACTT
* * *
1837422 TAATAAAAAAATTAAACTT
1 GATTTAAAAAA-TAAACTT
1837441 GATTTAAAAAA
1 GATTTAAAAAA
1837452 AATTATGCTT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (18 bp):
GATTTAAAAAATAAACTT
Found at i:1837967 original size:5 final size:5
Alignment explanation
Indices: 1837919--1837973 Score: 51
Period size: 6 Copynumber: 10.4 Consensus size: 5
1837909 ATTCGGATTA
1837919 AATTT AATTAT AATATT AATATT -ATTT ATATTT -ATTT AAATTT AATTT
1 AATTT AATT-T AAT-TT AAT-TT AATTT A-ATTT AATTT -AATTT AATTT
1837967 AATTT AA
1 AATTT AA
1837974 ATATAAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 6 0.14
5 18 0.41
6 19 0.43
7 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:1837971 original size:16 final size:16
Alignment explanation
Indices: 1837942--1837975 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1837932 TATTAATATT
1837942 ATTTATATTTATTTAA
1 ATTTATATTTATTTAA
1837958 ATTTA-ATTTAATTTAA
1 ATTTATATTT-ATTTAA
1837974 AT
1 AT
1837976 ATAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATATTTATTTAA
Found at i:1837973 original size:10 final size:10
Alignment explanation
Indices: 1837919--1837973 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 10
1837909 ATTCGGATTA
1837919 AATTTAATTAT
1 AATTTAATT-T
1837930 AATATTAATATT
1 AAT-TTAAT-TT
1837942 -ATTTATATTT
1 AATTTA-ATTT
1837952 -ATTTAAATTT
1 AATTT-AATTT
1837962 AATTTAATTT
1 AATTTAATTT
1837972 AA
1 AA
1837974 ATATAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 20 0.51
11 12 0.31
12 6 0.15
13 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTTAATTT
Found at i:1838261 original size:21 final size:21
Alignment explanation
Indices: 1838236--1838275 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1838226 TCAATTAGAC
*
1838236 TTTGAAAATGAGAGTCAAGAT
1 TTTGAAAATGAGAGGCAAGAT
*
1838257 TTTGAAAGTGAGAGGCAAG
1 TTTGAAAATGAGAGGCAAG
1838276 GCTCAACTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (21 bp):
TTTGAAAATGAGAGGCAAGAT
Found at i:1838305 original size:17 final size:17
Alignment explanation
Indices: 1838280--1838324 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1838270 GGCAAGGCTC
*
1838280 AACTGATTTTTTAAATA
1 AACTTATTTTTTAAATA
***
1838297 AACTTATTTTTTGTCTA
1 AACTTATTTTTTAAATA
1838314 AACTTATTTTT
1 AACTTATTTTT
1838325 CAATTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (17 bp):
AACTTATTTTTTAAATA
Found at i:1842981 original size:15 final size:16
Alignment explanation
Indices: 1842955--1843003 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1842945 AAAAAATGAA
1842955 AATTACTTTTTAAAAT
1 AATTACTTTTTAAAAT
1842971 AATTA-TTTTTAAAA-
1 AATTACTTTTTAAAAT
*
1842985 AATATATTTTTTAAAAT
1 AAT-TACTTTTTAAAAT
1843002 AA
1 AA
1843004 AATTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.10
15 11 0.37
16 14 0.47
17 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTACTTTTTAAAAT
Found at i:1843009 original size:14 final size:15
Alignment explanation
Indices: 1842961--1843009 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1842951 TGAAAATTAC
*
1842961 TTTTTAAAATAATTA
1 TTTTTAAAATAATAA
1842976 TTTTTAAAA-AATATA
1 TTTTTAAAATAATA-A
1842991 TTTTTTAAAATAA-AA
1 -TTTTTAAAATAATAA
1843006 TTTT
1 TTTT
1843010 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.23
15 11 0.37
16 10 0.33
17 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTTAAAATAATAA
Found at i:1843701 original size:18 final size:19
Alignment explanation
Indices: 1843674--1843713 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1843664 AATAAAAATA
*
1843674 TTAAGCTAAAAAAATTAGT
1 TTAAGCTAAAAAAATAAGT
*
1843693 TTAAG-TAAAAAGATAAGT
1 TTAAGCTAAAAAAATAAGT
1843711 TTA
1 TTA
1843714 GCTCTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (19 bp):
TTAAGCTAAAAAAATAAGT
Found at i:1845074 original size:50 final size:50
Alignment explanation
Indices: 1844999--1845257 Score: 416
Period size: 50 Copynumber: 5.2 Consensus size: 50
1844989 AGTTGTTGTC
*
1844999 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1845049 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
* *
1845099 ATTGTTGACAATTCTTCACCAGCCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1845149 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
1845199 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1845249 ATTGTTGAC
1 ATTGTTGAC
1845258 TCTAAGTATA
Statistics
Matches: 195, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
49 1 0.01
50 192 0.98
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:1845172 original size:100 final size:100
Alignment explanation
Indices: 1844999--1845257 Score: 475
Period size: 100 Copynumber: 2.6 Consensus size: 100
1844989 AGTTGTTGTC
* *
1844999 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
1845063 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
1845099 ATTGTTGACAATTCTTCACCAGCCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1845164 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1845199 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
1845258 TCTAAGTATA
Statistics
Matches: 154, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
100 152 0.99
101 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:1849719 original size:50 final size:50
Alignment explanation
Indices: 1849651--1849909 Score: 430
Period size: 50 Copynumber: 5.2 Consensus size: 50
1849641 AGTTGTTGTC
* *
1849651 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAAAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
1849701 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
1849751 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
* * *
1849801 ATTGTTGACGATTCTTCACCAATCTTTGACCATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
1849851 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1849901 ATTGTTGAC
1 ATTGTTGAC
1849910 TCTAAGTATA
Statistics
Matches: 196, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 194 0.99
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:1851149 original size:15 final size:15
Alignment explanation
Indices: 1851103--1851150 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
1851093 AAAAAACTAT
* *
1851103 TAAATTATTAAAAAT
1 TAAATTTTTAAAAAA
*
1851118 TAAATTTTAAAAAAA
1 TAAATTTTTAAAAAA
*
1851133 TATATTTTTAAAAAA
1 TAAATTTTTAAAAAA
1851148 TAA
1 TAA
1851151 TATAGGCCGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATTTTTAAAAAA
Found at i:1854043 original size:13 final size:13
Alignment explanation
Indices: 1854013--1854043 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1854003 CGGGAATGGA
1854013 TTTTTGTGTTGTG
1 TTTTTGTGTTGTG
*
1854026 CTTTTGTGTTGTG
1 TTTTTGTGTTGTG
1854039 TTTTT
1 TTTTT
1854044 TGGTGAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.26, T:0.71
Consensus pattern (13 bp):
TTTTTGTGTTGTG
Found at i:1854987 original size:20 final size:20
Alignment explanation
Indices: 1854936--1854995 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1854926 AGCTACCCTA
1854936 AGTGAAATGTATCGATACAT
1 AGTGAAATGTATCGATACAT
* *
1854956 GGT-ATATTGTATCGATACAT
1 AGTGA-AATGTATCGATACAT
*
1854976 AGTGAAAAGTATCGATACAT
1 AGTGAAATGTATCGATACAT
1854996 TATGCCCAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
AGTGAAATGTATCGATACAT
Found at i:1856594 original size:13 final size:13
Alignment explanation
Indices: 1856576--1856601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1856566 TACACAACAT
1856576 ATGTATCGATACA
1 ATGTATCGATACA
1856589 ATGTATCGATACA
1 ATGTATCGATACA
1856602 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1856599 original size:32 final size:33
Alignment explanation
Indices: 1856558--1856622 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1856548 TAGCCAAACT
*
1856558 TGTATCGATACAC-AACATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1856590 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1856623 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1862775 original size:13 final size:13
Alignment explanation
Indices: 1862757--1862794 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1862747 CATTTTTCTT
1862757 TGTATCGATACAA
1 TGTATCGATACAA
*
1862770 TGTATCGATACAC
1 TGTATCGATACAA
1862783 TGTATCGATACA
1 TGTATCGATACA
1862795 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1862949 original size:20 final size:20
Alignment explanation
Indices: 1862906--1862951 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1862896 AAATCTTTTG
1862906 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1862927 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1862947 CAAAA
1 CAAAA
1862952 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1864578 original size:16 final size:16
Alignment explanation
Indices: 1864557--1864589 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1864547 AAGGGGGAGA
1864557 GAAAGTAGATATGTGT
1 GAAAGTAGATATGTGT
1864573 GAAAGTAGATATGTGT
1 GAAAGTAGATATGTGT
1864589 G
1 G
1864590 CAAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (16 bp):
GAAAGTAGATATGTGT
Found at i:1865376 original size:13 final size:13
Alignment explanation
Indices: 1865358--1865383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1865348 TACACAACAT
1865358 ATGTATCGATACA
1 ATGTATCGATACA
1865371 ATGTATCGATACA
1 ATGTATCGATACA
1865384 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1865381 original size:32 final size:33
Alignment explanation
Indices: 1865340--1865404 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1865330 TAGCCAAACT
*
1865340 TGTATCGATACAC-AACATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1865372 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1865405 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1870811 original size:52 final size:52
Alignment explanation
Indices: 1870741--1870861 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1870731 GAAAATTTAT
*
1870741 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1870793 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1870845 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1870862 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1870874 original size:52 final size:51
Alignment explanation
Indices: 1870741--1870881 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1870731 GAAAATTTAT
1870741 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1870793 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1870845 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1870882 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1870888 original size:13 final size:13
Alignment explanation
Indices: 1870870--1870894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1870860 CAAAGATCAG
1870870 TGTATCGATACAA
1 TGTATCGATACAA
1870883 TGTATCGATACA
1 TGTATCGATACA
1870895 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1870978 original size:13 final size:13
Alignment explanation
Indices: 1870960--1870984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1870950 CAAAAAAATA
1870960 TGTATCGATACAT
1 TGTATCGATACAT
1870973 TGTATCGATACA
1 TGTATCGATACA
1870985 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1870980 original size:33 final size:33
Alignment explanation
Indices: 1870938--1871004 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1870928 AGTAGCTTAA
1870938 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1870971 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1871004 A
1 A
1871005 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1872035 original size:43 final size:45
Alignment explanation
Indices: 1871974--1872107 Score: 191
Period size: 43 Copynumber: 2.9 Consensus size: 45
1871964 GATGGAAAAT
1871974 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-G-
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* *
1872017 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
1872065 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1872108 AATGATGATG
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
43 37 0.46
44 2 0.03
45 1 0.01
46 1 0.01
47 1 0.01
48 3 0.04
49 35 0.44
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
Found at i:1872073 original size:49 final size:49
Alignment explanation
Indices: 1871931--1872117 Score: 233
Period size: 49 Copynumber: 3.9 Consensus size: 49
1871921 GATGTCAACG
* *
1871931 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
1871983 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1872026 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1872075 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1872118 AGAAGAGTGA
Statistics
Matches: 119, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
43 36 0.30
44 2 0.02
45 1 0.01
46 1 0.01
48 2 0.02
49 46 0.39
50 1 0.01
51 2 0.02
52 28 0.24
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:1872104 original size:92 final size:94
Alignment explanation
Indices: 1871930--1872107 Score: 306
Period size: 92 Copynumber: 1.9 Consensus size: 94
1871920 GGATGTCAAC
1871930 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA-GTGCCAATATGCTGATTCAAG
*
1871995 GCCAGCTATATTGGACTTAAAGGTGCCAAT
65 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* *
1872025 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-TGCCAATATGCTGATTCAAGG
1 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
1872088 CCAGCGATATTGGACTTAAA
66 CCAGCGATATTGGACTTAAA
1872108 AATGATGATG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 40 0.50
94 4 0.05
95 36 0.45
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (94 bp):
GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
CCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1872229 original size:55 final size:52
Alignment explanation
Indices: 1872169--1872718 Score: 245
Period size: 49 Copynumber: 10.9 Consensus size: 52
1872159 CGATATTGGG
* *
1872169 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * *
1872224 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
** *
1872276 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * * *
1872319 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
** * *
1872368 C-T-----T---AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * * *
1872411 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
** * *
1872460 C-T-----T---AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * * *
1872503 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* ** * * * * *
1872552 CTTAAAAATGATGATGAGAAGAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTG
1 CTT--AAA-GATG--GAAAAG-GTG--CCA-A---C---ATGCTGATTCAAGGCCAGCTACATTG
**
1872617 GG
51 AA
* *
1872619 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* *
1872674 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTA
1872719 TATTAGGCTT
Statistics
Matches: 395, Mismatches: 57, Indels: 89
0.73 0.11 0.16
Matches are distributed among these distances:
43 110 0.28
44 3 0.01
46 1 0.00
48 2 0.01
49 111 0.28
51 4 0.01
52 59 0.15
53 10 0.03
54 2 0.01
55 41 0.10
57 3 0.01
58 3 0.01
60 1 0.00
61 2 0.01
62 1 0.00
63 2 0.01
64 10 0.03
65 3 0.01
67 27 0.07
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:1872275 original size:266 final size:266
Alignment explanation
Indices: 1871794--1872373 Score: 1097
Period size: 266 Copynumber: 2.2 Consensus size: 266
1871784 TTTAGAGATA
* * *
1871794 ATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
1 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAAGATGAGAAAAG
1871859 TGATAAAGATGCCAATATGTTGATTCATGGCCAAAGATATTGGGCCTAAAGATGAGAAAAAGGAT
66 TGATAAAGATGCCAATATGTTGATTCATGGCCAAAGATATTGGGCCTAAAGATGAGAAAAAGGAT
1871924 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
131 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
1871989 TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
196 TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1872054 TTAAAG
261 TTAAAG
* *
1872060 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAG
1 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAAGATGAGAAAAG
* *
1872125 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
66 TGATAAAGATGCCAATATGTTGATTCATGGCCAAAGATATTGGGCCTAAAGATGAGAAAAAGGAT
1872190 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
131 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
1872255 TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
196 TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1872320 TTAAAG
261 TTAAAG
1872326 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1872374 GGTGCCAATG
Statistics
Matches: 307, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 307 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (266 bp):
ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAAGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCATGGCCAAAGATATTGGGCCTAAAGATGAGAAAAAGGAT
GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
TTAAAG
Found at i:1872301 original size:43 final size:45
Alignment explanation
Indices: 1872240--1872557 Score: 387
Period size: 43 Copynumber: 6.9 Consensus size: 45
1872230 GATGGAAAAT
1872240 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-G-
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* *
1872283 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
1872331 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-G-
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* * *
1872375 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
1872423 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-G-
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* * *
1872467 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
1872515 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1872558 AATGATGATG
Statistics
Matches: 236, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
43 105 0.44
44 8 0.03
45 3 0.01
46 5 0.02
47 3 0.01
48 9 0.04
49 103 0.44
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
Found at i:1872370 original size:92 final size:92
Alignment explanation
Indices: 1872196--1872557 Score: 652
Period size: 92 Copynumber: 3.9 Consensus size: 92
1872186 GGATGTCAAC
* * *
1872196 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
1872261 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
1872291 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1872356 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
1872383 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1872448 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
1872475 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1872540 AGCGATATTGGACTTAAA
66 AGCGATATTGGACTTAAA
1872558 AATGATGATG
Statistics
Matches: 263, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
92 223 0.85
94 4 0.02
95 36 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1872713 original size:52 final size:55
Alignment explanation
Indices: 1872582--1872718 Score: 154
Period size: 55 Copynumber: 2.5 Consensus size: 55
1872572 GAGTGATAAA
* * * * * **
1872582 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* ** *
1872637 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
1872690 G-TGCCAATATGCTGATTCAAGGCCAGCTA
1 GATGCCAATATGCTGATTCAAGGCCAGCTA
1872719 TATTAGGCTT
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
52 25 0.37
53 5 0.07
54 1 0.01
55 37 0.54
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
Found at i:1872883 original size:33 final size:33
Alignment explanation
Indices: 1872799--1873826 Score: 1165
Period size: 34 Copynumber: 29.9 Consensus size: 33
1872789 CTTTGGGAAG
*
1872799 GAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAA
1 GAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAA
1872832 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAA
*
1872868 GAAAAAAGTGCCACGGAGTTGTGGG-TTTAGAAG
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTA-AAA
* *
1872901 GAAAAATAGTGCCACAGAGTTGTGGGC-TTAGAAG
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTA-AAA
* * *
1872935 GAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAG
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
*
1872968 GAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
*
1873002 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAA
*
1873039 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
*
1873073 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAA
* *
1873110 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAA
*
1873144 GAAAAAAGTGCCACGGAGTTGTGGGC-TTAGAAG
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTA-AAA
* *
1873177 GAAAAATAGTGCCACAGAGTTGTGGGC-TTAGAAG
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTA-AAA
* * *
1873211 GAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAG
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
*
1873244 GAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
*
1873278 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAA
*
1873314 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
*
1873348 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAA
* *
1873385 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAA
1873419 GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
1873453 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAA
*
1873490 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
1873524 GGGAAAAAGAGTGCCA-GAGAGTTGTGGGCTTTAAAAA
1 --GAAAAA-AGTGCCACG-GAGTTGTGGGCTTT-AAAA
* *
1873561 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAA
*
1873595 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
1873629 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 --GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAA
* * *
1873666 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGAT
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA-AA
1873701 GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA
* *
1873735 GAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
* * * *
1873767 GGAAAAGGTGCCACGAAGTTGTGGGCTTT-GAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
* * *
1873799 GAAAAAA-TGCCACTGAGTCGTGGACTTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT
1873827 GAGAAGAGAT
Statistics
Matches: 888, Mismatches: 66, Indels: 82
0.86 0.06 0.08
Matches are distributed among these distances:
31 17 0.02
32 43 0.05
33 214 0.24
34 229 0.26
35 157 0.18
36 53 0.06
37 175 0.20
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (33 bp):
GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
Found at i:1873028 original size:70 final size:68
Alignment explanation
Indices: 1872796--1873826 Score: 1194
Period size: 70 Copynumber: 15.0 Consensus size: 68
1872786 GGGCTTTGGG
* *
1872796 AAGGAAAAA-AGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAAA-GG-AAAAGAGTGCCACGGAGTTGTGGG
1872860 CTTTAA
63 CTTTAA
* *
1872866 AA-GAAAAA-AGTGCCACGGAGTTGTGGG-TTTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGTTGTGGGC
*
1872928 -TTAG
64 TTTAA
*
1872932 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1872996 TGAA
66 T-AA
* *
1873000 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAA-AGGTGCCACGGAGTTGTGGG
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGA-GTGCCACGGAGTTGTGGG
1873064 CTTTGAA
63 CTTT-AA
* * * *
1873071 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGG
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAAGGAAAAGAGTGCCACGGAGTTGTGGG
1873136 CTTTAA
63 CTTTAA
* *
1873142 AA-GAAAAA-AGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGTTGTGGGC
*
1873204 -TTAG
64 TTTAA
*
1873208 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1873272 TGAA
66 T-AA
* *
1873276 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA-AGGTGCCACGGAGTTGTGGGC
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA-GTGCCACGGAGTTGTGGGC
1873340 TTTGAA
64 TTT-AA
* * * *
1873346 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGG
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAAGGAAAAGAGTGCCACGGAGTTGTGGG
1873411 CTTTAA
63 CTTTAA
1873417 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-GG-AAAAGAGTGCCACGGAGTTGTGG
1873480 GCTTTAA
62 GCTTTAA
*
1873487 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA-GAGAGTTGTG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-GG-AAAAGAGTGCCACG-GAGTTGTG
1873550 GGCTTTAA
61 GGCTTTAA
* * * *
1873558 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA-AGGTGCCACGGAGTTGTGGGCT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA-GTGCCACGGAGTTGTGGGCT
1873622 TTGAA
65 TT-AA
* * *
1873627 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGG
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAAGGAAAAGAGTGCCACGGAGTTGTGGG
1873692 CTTTAA
63 CTTTAA
* * *
1873698 GATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGC
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAGGAA-AAGAGTGCCACGGAGTTGTGGGC
1873761 TTT-A
64 TTTAA
* * * * * *
1873765 AAGG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAA-GAAAA-AATGCCACTGAGTCGTGGACTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1873826 T
66 T
1873827 GAGAAGAGAT
Statistics
Matches: 860, Mismatches: 60, Indels: 89
0.85 0.06 0.09
Matches are distributed among these distances:
63 20 0.02
64 3 0.00
65 3 0.00
66 92 0.11
67 109 0.13
68 126 0.15
69 58 0.07
70 190 0.22
71 153 0.18
72 106 0.12
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (68 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
TAA
Found at i:1873165 original size:176 final size:176
Alignment explanation
Indices: 1872799--1873798 Score: 1417
Period size: 176 Copynumber: 5.8 Consensus size: 176
1872789 CTTTGGGAAG
* *
1872799 GAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
* * * *
1872863 T-AAAAGAAAAA-AGTGCCACGGAGTTGTGGG-TTTAGAAGGAAAAATAGTGCCACAGAGTTGTG
65 TAAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTG
* *
1872925 GGC-TT-AGAA-GG-AAAAGAGTGCCAC-GTAGTTGTGGGCTTTAAAG
130 GGCTTTGAAAAGGGAAAAAGAGTGCCACAG-AGTTGTGGGCTTTAAAA
*
1872968 GAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
*
1873033 TAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTG
65 TAAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTG
* *
1873097 TGGGCTTT-AAAA-AGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA
128 TGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
* *
1873144 GAAAAAAGTGCCACGGAGTTGTGGGC-TTAGAA-GGAAAAATAGTGCCACAGAGTTGTGGGC-TT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
* * * *
1873206 -AGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAGG-AAAAGAGTGCCACGGAGTTGTGG
66 AAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
1873268 GCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
131 GCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
*
1873314 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
*
1873379 TAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA-GAAAAA-AGTGCCACGGAGTTGTG
65 TAAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTG
*
1873442 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
130 GGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAA
* *
1873490 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAGAGAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
*
1873555 TAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA-GAAAAAG-GTGCCACGGAGTTGTG
65 TAAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTG
*
1873618 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
130 GGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAA
* * * * *
1873666 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTT
1 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
* * *
1873729 TGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAGG-AAAAG-GTGCCACGAAGTTGTG
65 TAAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTG
1873790 GGCTTTGAA
130 GGCTTTGAA
1873799 GAAAAAATGC
Statistics
Matches: 769, Mismatches: 38, Indels: 45
0.90 0.04 0.05
Matches are distributed among these distances:
168 44 0.06
169 15 0.02
170 96 0.12
171 39 0.05
172 61 0.08
173 79 0.10
174 63 0.08
175 103 0.13
176 247 0.32
177 22 0.03
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (176 bp):
GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
AAAAAGAAAAAGTGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
GCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
Found at i:1873249 original size:105 final size:103
Alignment explanation
Indices: 1872796--1873826 Score: 1182
Period size: 105 Copynumber: 10.0 Consensus size: 103
1872786 GGGCTTTGGG
* * **
1872796 AAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1 AAGGAAAAGAG-TGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGGG
*
1872860 CTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGG-TTTAG
65 CTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* * * * *
1872898 AAGGAAAAATAGTGCCACAGAGTTGTGGGC-TT--AGAAGGAAAAGAGTGCCACGTAGTTGTGGG
1 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGGG
* *
1872960 CTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
65 CTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
*
1873000 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAAGAAAAAG-GTGCCACGGAGTTGTGG
1 AA-GG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGG
*
1873063 GCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
64 GCTTT-AAAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AA
* * *
1873108 AAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT--AAAAGAAAAA-AGTGCCACGGAGTTGTGGGC
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC
* * *
1873170 -TTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTAG
66 TTTA-AAAGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
* *
1873208 AAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT---AAAGGAAAAGAGTGCCACGGAGTTGTGGGC
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC
*
1873270 TTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
66 TTT-AAAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
* ** *
1873312 AAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAAAAAGAGTGCCACGGAGTTGTGGG
* *
1873376 CTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
65 CTTT-AAAAGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
* **
1873417 AA-GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAAAAAGAGTGCCACGGAGTTGTGGG
*
1873481 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
65 CTTT-AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
* *
1873522 AAGGGAAAAAGAGTGCCA-GAGAGTTGTGGGCTTT-AAAAAGAAAAAGTGTGCCACAGAGTTGTG
1 AA-GG-AAAAGAGTGCCACG-GAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTG
*
1873585 GGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
63 GGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
* *
1873627 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGTGTGCCACAGAGTTGTGG
1 AA-GG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGG
*
1873691 GCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
64 GCTTTAA-AAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
* *
1873733 AA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTT---AAAGGAAAAG-GTGCCACGAAGTTGTGGG
1 AAGGAA-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGGG
* * * *
1873792 CTTT-GAAGAAAAAA-TGCCACTGAGTCGTGGACTTT
65 CTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
1873827 GAGAAGAGAT
Statistics
Matches: 838, Mismatches: 60, Indels: 67
0.87 0.06 0.07
Matches are distributed among these distances:
97 18 0.02
98 8 0.01
99 8 0.01
100 125 0.15
101 18 0.02
102 52 0.06
103 105 0.13
104 67 0.08
105 252 0.30
106 93 0.11
107 41 0.05
108 51 0.06
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (103 bp):
AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC
TTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:1874847 original size:17 final size:17
Alignment explanation
Indices: 1874810--1874845 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1874800 GTTTTTCCTC
1874810 TTTTGTTTTCTTTTTTG
1 TTTTGTTTTCTTTTTTG
1874827 TTTTG-TTTCTTTTTT-
1 TTTTGTTTTCTTTTTTG
1874842 TTTT
1 TTTT
1874846 TTTGGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (17 bp):
TTTTGTTTTCTTTTTTG
Found at i:1875092 original size:1 final size:1
Alignment explanation
Indices: 1875086--1875161 Score: 62
Period size: 1 Copynumber: 76.0 Consensus size: 1
1875076 TGCCTTTGCA
* * * * * * * * *
1875086 TTTTTTTTGTGTTTTTTTTTGTGTTTTTTTGTTTTTTTTTGTGTTTTTTTATTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1875151 TTATTTTTTTT
1 TTTTTTTTTTT
1875162 AAGGGAACTC
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (1 bp):
T
Found at i:1875101 original size:12 final size:12
Alignment explanation
Indices: 1875086--1875135 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
1875076 TGCCTTTGCA
1875086 TTTTTTTTGTGT
1 TTTTTTTTGTGT
1875098 TTTTTTTTGTG-
1 TTTTTTTTGTGT
1875109 --TTTTTT-TGT
1 TTTTTTTTGTGT
1875118 TTTTTTTTGTGT
1 TTTTTTTTGTGT
1875130 TTTTTT
1 TTTTTT
1875136 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.06
9 6 0.18
11 6 0.18
12 20 0.59
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTGTGT
Found at i:1875150 original size:10 final size:10
Alignment explanation
Indices: 1875086--1875161 Score: 84
Period size: 10 Copynumber: 7.5 Consensus size: 10
1875076 TGCCTTTGCA
1875086 TTTTTTTTGTG
1 TTTTTTTT-TG
1875097 TTTTTTTTTG
1 TTTTTTTTTG
*
1875107 TGTTTTTTTG
1 TTTTTTTTTG
1875117 TTTTTTTTTG
1 TTTTTTTTTG
* *
1875127 TGTTTTTTTA
1 TTTTTTTTTG
1875137 TTTTTATTTT-
1 TTTTT-TTTTG
1875147 TTTTTTATTT-
1 TTTTTT-TTTG
1875157 TTTTT
1 TTTTT
1875162 AAGGGAACTC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
9 1 0.02
10 45 0.78
11 12 0.21
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:1882109 original size:52 final size:52
Alignment explanation
Indices: 1882039--1882159 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1882029 GAAAATTTAT
*
1882039 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1882091 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1882143 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1882160 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1882172 original size:52 final size:51
Alignment explanation
Indices: 1882039--1882179 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1882029 GAAAATTTAT
1882039 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1882091 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1882143 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1882180 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1882186 original size:13 final size:13
Alignment explanation
Indices: 1882168--1882192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1882158 CAAAGATCAG
1882168 TGTATCGATACAA
1 TGTATCGATACAA
1882181 TGTATCGATACA
1 TGTATCGATACA
1882193 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1882276 original size:13 final size:13
Alignment explanation
Indices: 1882258--1882282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1882248 CAAAAAAATA
1882258 TGTATCGATACAT
1 TGTATCGATACAT
1882271 TGTATCGATACA
1 TGTATCGATACA
1882283 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1882278 original size:33 final size:33
Alignment explanation
Indices: 1882236--1882302 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1882226 AGTAGCTTAA
1882236 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1882269 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1882302 A
1 A
1882303 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1884338 original size:17 final size:15
Alignment explanation
Indices: 1884318--1884369 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 15
1884308 TTAGGTAAAA
1884318 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
1884335 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
1884349 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
1884361 AA-AAAGAAA
1 AAGAAAGAAA
1884370 AAAATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.26
13 3 0.09
14 9 0.26
15 1 0.03
16 9 0.26
17 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:1884366 original size:12 final size:12
Alignment explanation
Indices: 1884338--1884373 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
1884328 GAAGATGAAG
1884338 AAGAAAGAAAGAAA
1 AAGAAA-AAA-AAA
1884352 AAGAAAAAAAAA
1 AAGAAAAAAAAA
1884364 AAGAAAAAAA
1 AAGAAAAAAA
1884374 TATGAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.59
13 3 0.14
14 6 0.27
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:1884757 original size:2 final size:2
Alignment explanation
Indices: 1884744--1884778 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1884734 TTATTTTATT
* *
1884744 TA TA TG TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1884779 TTTGAAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1884765 original size:16 final size:16
Alignment explanation
Indices: 1884744--1884778 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1884734 TTATTTTATT
1884744 TATATGTATATATATA
1 TATATGTATATATATA
1884760 TATATGTATATATATA
1 TATATGTATATATATA
1884776 TAT
1 TAT
1884779 TTTGAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATATGTATATATATA
Found at i:1890722 original size:36 final size:36
Alignment explanation
Indices: 1890642--1890722 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1890632 CTTCAAAATG
*
1890642 ACAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATGA
1 ACAAAAAAAAGTCAAAAGCAAAAGCACAAAAAAGGA
* *
1890678 A-AAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGGA
1 ACAAAAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GGA
*
1890713 ACAACAAAAA
1 ACAAAAAAAA
1890723 TAAAAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
34 6 0.16
35 13 0.34
36 19 0.50
ACGTcount: A:0.70, C:0.11, G:0.14, T:0.05
Consensus pattern (36 bp):
ACAAAAAAAAGTCAAAAGCAAAAGCACAAAAAAGGA
Found at i:1894462 original size:52 final size:52
Alignment explanation
Indices: 1894392--1894512 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
1894382 GAAAATTTAT
* *
1894392 CTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
**
1894444 CTGCATGTATCGATACATTTTCTAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1894496 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1894513 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1894525 original size:52 final size:52
Alignment explanation
Indices: 1894414--1894532 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
1894404 ATACATTTAA
***
1894414 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTC
1 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGATC
*
1894466 TAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATC
1 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC-AAGATC
1894519 -AGTGTATCGATACA
1 TAGTGTATCGATACA
1894533 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 58 0.95
53 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGATC
Found at i:1894539 original size:13 final size:13
Alignment explanation
Indices: 1894521--1894545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1894511 CAAAGATCAG
1894521 TGTATCGATACAA
1 TGTATCGATACAA
1894534 TGTATCGATACA
1 TGTATCGATACA
1894546 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1894629 original size:13 final size:13
Alignment explanation
Indices: 1894611--1894635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1894601 CAAAAAAATA
1894611 TGTATCGATACAT
1 TGTATCGATACAT
1894624 TGTATCGATACA
1 TGTATCGATACA
1894636 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1894631 original size:33 final size:33
Alignment explanation
Indices: 1894589--1894655 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1894579 AGTAGCTTAA
1894589 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1894622 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1894655 A
1 A
1894656 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1898405 original size:33 final size:32
Alignment explanation
Indices: 1898363--1898426 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1898353 AAGCCTAGAA
* * *
1898363 GTATCGATACATATTGCTTTGTATTGATACACT
1 GTATCGATACATAAT-CTTGGTATCGATACACT
1898396 GTATCGATACATAATCTTGGTATCGATACAC
1 GTATCGATACATAATCTTGGTATCGATACAC
1898427 AAGCGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (32 bp):
GTATCGATACATAATCTTGGTATCGATACACT
Found at i:1899958 original size:23 final size:23
Alignment explanation
Indices: 1899928--1899982 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
1899918 TATCACTTAC
1899928 TATTTTTAAATAAAATATAAT-TT
1 TATTTTTAAATAAAATA-AATATT
1899951 TATTTTT-AA-AAAATAAATATT
1 TATTTTTAAATAAAATAAATATT
1899972 TATTTTTAAAT
1 TATTTTTAAAT
1899983 TATTGATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.10
21 15 0.52
22 4 0.14
23 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTTTAAATAAAATAAATATT
Found at i:1900021 original size:15 final size:16
Alignment explanation
Indices: 1899996--1900025 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1899986 TGATTTACTC
1899996 TTTTCTTTCTTTCTCA
1 TTTTCTTTCTTTCTCA
1900012 TTTT-TTTCTTTCTC
1 TTTTCTTTCTTTCTC
1900026 CTAATCTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCTTTCTTTCTCA
Found at i:1900454 original size:20 final size:21
Alignment explanation
Indices: 1900396--1900457 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1900386 TACTTTTCCA
*
1900396 ATTTAAAATAAAATTT-TTTT
1 ATTTAATATAAAATTTATTTT
* * * *
1900416 ATTAAATTTATACTTTATTTT
1 ATTTAATATAAAATTTATTTT
1900437 -TTTAATATAAAATTTATTTT
1 ATTTAATATAAAATTTATTTT
1900457 A
1 A
1900458 CAATTTTTCT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAATATAAAATTTATTTT
Found at i:1900479 original size:38 final size:39
Alignment explanation
Indices: 1900397--1900480 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 39
1900387 ACTTTTCCAA
* *
1900397 TTTAAAATAAAATTTTTTTATTAAATTTATACTTTATTTT
1 TTTAATATAAAATTTTTTTA-TAAATTTATACTTTAATTT
* *
1900437 TTTAATATAAAATTTATTTTA-CAATTT-TTCTTTAATTT
1 TTTAATATAAAATTT-TTTTATAAATTTATACTTTAATTT
1900475 TTTAAT
1 TTTAAT
1900481 TATTTTCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 15 0.38
39 5 0.13
40 14 0.36
41 5 0.13
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTAATATAAAATTTTTTTATAAATTTATACTTTAATTT
Found at i:1904168 original size:27 final size:28
Alignment explanation
Indices: 1904138--1904210 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
1904128 TAGCCATCAA
1904138 TTTTGACAAACA-AAAAGGAACCACCAT
1 TTTTGACAAACACAAAAGGAACCACCAT
* * *
1904165 TTTTGATAAATACAAAA-TAACCACCAT
1 TTTTGACAAACACAAAAGGAACCACCAT
* *
1904192 TGTTAACAAACACAAAAGG
1 TTTTGACAAACACAAAAGG
1904211 TGGCTTTTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (28 bp):
TTTTGACAAACACAAAAGGAACCACCAT
Found at i:1905388 original size:106 final size:106
Alignment explanation
Indices: 1905203--1905423 Score: 406
Period size: 106 Copynumber: 2.1 Consensus size: 106
1905193 CCTAGATTCT
* *
1905203 TCATCTCGAACTCTTGATTCAACTGAGCCTTCAATTTGTCTATCTCTTTTTGACTCTTTCAAGCG
1 TCATCTTGAACTCTTGATTCAACTGAGCCTTCAATTTGTCTATCTCTTTTTGACTCTTTAAAGCG
1905268 ATTAGCATATCATCAACATACAAGAGGAGATAAATGAAAGA
66 ATTAGCATATCATCAACATACAAGAGGAGATAAATGAAAGA
*
1905309 TCATCTTGAACTCTTGATTCAACTGAGCCTTCAATTTGTCTATCTCTTTTTGACTCTTTAAAGTG
1 TCATCTTGAACTCTTGATTCAACTGAGCCTTCAATTTGTCTATCTCTTTTTGACTCTTTAAAGCG
1905374 ATTAGCATATCATCAACATACAAGAGGAGATAAATGAAAGA
66 ATTAGCATATCATCAACATACAAGAGGAGATAAATGAAAGA
1905415 TCCATCTTG
1 T-CATCTTG
1905424 TAGCTTACGT
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
106 104 0.94
107 7 0.06
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (106 bp):
TCATCTTGAACTCTTGATTCAACTGAGCCTTCAATTTGTCTATCTCTTTTTGACTCTTTAAAGCG
ATTAGCATATCATCAACATACAAGAGGAGATAAATGAAAGA
Found at i:1908807 original size:27 final size:27
Alignment explanation
Indices: 1908770--1908842 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
1908760 TAAAAATTAG
*
1908770 CTACCAATTTTGACAAACAAAAAGGAA
1 CTACCATTTTTGACAAACAAAAAGGAA
* * * *
1908797 CTATCATTTTTGACAAATACAAAGTAA
1 CTACCATTTTTGACAAACAAAAAGGAA
*
1908824 CTACCATTGTTGACAAACA
1 CTACCATTTTTGACAAACA
1908843 CCAAAGATTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (27 bp):
CTACCATTTTTGACAAACAAAAAGGAA
Found at i:1910075 original size:15 final size:14
Alignment explanation
Indices: 1910055--1910105 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
1910045 AAAAACTACA
1910055 TTTTAAAATAATTAT
1 TTTTAAAAT-ATTAT
*
1910070 TTTTAAAATGTGTATT
1 TTTTAAAATAT-TA-T
*
1910086 TTTTAAAATATAAT
1 TTTTAAAATATTAT
1910100 TTTTAA
1 TTTTAA
1910106 TTTTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 8 0.26
15 12 0.39
16 11 0.35
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (14 bp):
TTTTAAAATATTAT
Found at i:1910171 original size:24 final size:24
Alignment explanation
Indices: 1910144--1910191 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1910134 TTCTATTTTA
*
1910144 AAATAAAGATATTTTATTGAATTT
1 AAATAAAAATATTTTATTGAATTT
1910168 AAATAAAAATATTTTATTGAATTT
1 AAATAAAAATATTTTATTGAATTT
1910192 GTACTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
AAATAAAAATATTTTATTGAATTT
Found at i:1913294 original size:16 final size:15
Alignment explanation
Indices: 1913273--1913302 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1913263 GGACAGAGAG
1913273 GAAGAAAAAAGAAAAA
1 GAAGAAAAAA-AAAAA
1913289 GAAGAAAAAAAAAA
1 GAAGAAAAAAAAAA
1913303 GTTAAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAAAAAAA
Found at i:1914969 original size:336 final size:336
Alignment explanation
Indices: 1914353--1915023 Score: 1189
Period size: 336 Copynumber: 2.0 Consensus size: 336
1914343 TGAAACCTAC
* * *
1914353 ATTTTAAGTTGGACCGAGTTTGAATAAACATAAATAATGTTAATATTATATTTAATTTTAATTTA
1 ATTTTAAGTTGGACCGAGTTTGAATAAACATAAATAATGTTAATATCATATATAATTTCAATTTA
* * **
1914418 AACTTGACCCAACTTGTATGAGTGAATGATTAATCCCCAAAAACTTAAAAATGTAATTTTAATAT
66 AACTTGACCCAACTTGTATGAGTAAATGATTAATCCCAAAAAACTTAAAAATACAATTTTAATAT
*
1914483 TTATGTTAATTAAAATAGATCTTGTTCATCTATTTTTGGTTTAATGACTATAATTTGAATGAAAT
131 TTATGTTAATTAAAATAGATATTGTTCATCTATTTTTGGTTTAATGACTATAATTTGAATGAAAT
* * *
1914548 AAAATTTCTTTTATTTAATTTCATAAGACACGGTGGAAGATTGAGGACTTATTTTTAATTTATTT
196 AAAATTTCTTTTATTTAATTTCATAAGACACGATGAAAGATCGAGGACTTATTTTTAATTTATTT
1914613 TTGTAAAATTCAAAACTTATTTGAGTACTATATATTTTTATATATTTTTTTAAATTAATAAAATC
261 TTGTAAAATTCAAAACTTATTTGAGTACTATATATTTTTATATATTTTTTTAAATTAATAAAATC
1914678 TATTATTTTGT
326 TATTATTTTGT
* *
1914689 ATTTTAAGTTGGACCGAGTTTGAATAAACATAAGTAGTGTTAATATCATATATAATTTCAATTTA
1 ATTTTAAGTTGGACCGAGTTTGAATAAACATAAATAATGTTAATATCATATATAATTTCAATTTA
*
1914754 AACTTGACTCAACTTGTATGAGTAAATGATTAATCCCAAAAAACTTAAAAATACAATTTTAATAT
66 AACTTGACCCAACTTGTATGAGTAAATGATTAATCCCAAAAAACTTAAAAATACAATTTTAATAT
1914819 TTATGTTAATTAAAATAGATATTGTTCATCTATTTTTGGTTTAATGACTATAATTTGAATGAAAT
131 TTATGTTAATTAAAATAGATATTGTTCATCTATTTTTGGTTTAATGACTATAATTTGAATGAAAT
*
1914884 AAAATTTCTTTTATTTAATTTCATAAGATACGATGAAAGATCGAGGACTTATTTTTAATTTATTT
196 AAAATTTCTTTTATTTAATTTCATAAGACACGATGAAAGATCGAGGACTTATTTTTAATTTATTT
* *
1914949 TTGTAAAATTCAAGACTTATTTGAGTACTATATATTTTTATATATTTTTTTAAGTTAATAAAATC
261 TTGTAAAATTCAAAACTTATTTGAGTACTATATATTTTTATATATTTTTTTAAATTAATAAAATC
1915014 TATTATTTTG
326 TATTATTTTG
1915024 CACTATTAAT
Statistics
Matches: 318, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
336 318 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (336 bp):
ATTTTAAGTTGGACCGAGTTTGAATAAACATAAATAATGTTAATATCATATATAATTTCAATTTA
AACTTGACCCAACTTGTATGAGTAAATGATTAATCCCAAAAAACTTAAAAATACAATTTTAATAT
TTATGTTAATTAAAATAGATATTGTTCATCTATTTTTGGTTTAATGACTATAATTTGAATGAAAT
AAAATTTCTTTTATTTAATTTCATAAGACACGATGAAAGATCGAGGACTTATTTTTAATTTATTT
TTGTAAAATTCAAAACTTATTTGAGTACTATATATTTTTATATATTTTTTTAAATTAATAAAATC
TATTATTTTGT
Found at i:1916100 original size:21 final size:21
Alignment explanation
Indices: 1916061--1916112 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1916051 AAAGATATAT
*
1916061 TTGGATGAAATGATGCATTGG
1 TTGGATGAAATGATACATTGG
**
1916082 TTGGATGAAA-GAATACATTTT
1 TTGGATGAAATG-ATACATTGG
1916103 TTGGATGAAA
1 TTGGATGAAA
1916113 AAAAGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (21 bp):
TTGGATGAAATGATACATTGG
Found at i:1921127 original size:21 final size:21
Alignment explanation
Indices: 1921088--1921127 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1921078 AAAGATATAT
* *
1921088 TTAGATGAAATGATGCATTAG
1 TTAGATGAAATAATACATTAG
1921109 TTAGATGAAATAATACATT
1 TTAGATGAAATAATACATT
1921128 TTTGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (21 bp):
TTAGATGAAATAATACATTAG
Found at i:1922464 original size:29 final size:29
Alignment explanation
Indices: 1922406--1922460 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1922396 GAAAAGGAAT
*
1922406 AAAAGGTACTTTTTAAAATAATTATTTAA
1 AAAAGGTACTTTTTAAAATAAATATTTAA
* *
1922435 AAAATGTATTTTTTAAAATAAA-ATTT
1 AAAAGGTACTTTTTAAAATAAATATTT
1922461 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (29 bp):
AAAAGGTACTTTTTAAAATAAATATTTAA
Found at i:1923024 original size:22 final size:22
Alignment explanation
Indices: 1922976--1923025 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1922966 AGTCATTTTA
*
1922976 AGTTT-AAATTTGAATTAATCG
1 AGTTTAAAAATTGAATTAATCG
*
1922997 -GATTTAAAAATTGAATTCATCG
1 AG-TTTAAAAATTGAATTAATCG
1923019 AGTTTAA
1 AGTTTAA
1923026 GTCATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 19 0.79
23 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (22 bp):
AGTTTAAAAATTGAATTAATCG
Found at i:1923855 original size:21 final size:22
Alignment explanation
Indices: 1923831--1923872 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1923821 AACTGATTCA
1923831 AAAT-TTTATATTA-TAACTTGT
1 AAATATTT-TATTATTAACTTGT
*
1923852 AAATATTTTTTTATTAACTTG
1 AAATATTTTATTATTAACTTG
1923873 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
AAATATTTTATTATTAACTTGT
Found at i:1923941 original size:16 final size:16
Alignment explanation
Indices: 1923922--1923952 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1923912 TCATTCTGGA
1923922 TTCAGGTCATTTCGAG
1 TTCAGGTCATTTCGAG
1923938 TTCAGGTCATTTCGA
1 TTCAGGTCATTTCGA
1923953 ATTCGGGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (16 bp):
TTCAGGTCATTTCGAG
Found at i:1924274 original size:17 final size:18
Alignment explanation
Indices: 1924254--1924287 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1924244 ATATTAAGCT
*
1924254 TAAAAA-ATTAGTTTAAA
1 TAAAAAGATGAGTTTAAA
1924271 TAAAAAGATGAGTTTAA
1 TAAAAAGATGAGTTTAA
1924288 CTCCAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
TAAAAAGATGAGTTTAAA
Done.