Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1585607
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1315447 original size:36 final size:35
Alignment explanation
Indices: 1315407--1315482 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 35
1315397 AAAATACTTT
* *
1315407 AATTTAGGGTTTAGAATGTAATTAAAGTATTTTTGG
1 AATTTAGGGTTTAGAATGCAATTAAAGT-GTTTTGG
* *
1315443 AATTTGGGGTTTAGAATGCAATTGAAGTGTTTTGG
1 AATTTAGGGTTTAGAATGCAATTAAAGTGTTTTGG
1315478 AATTT
1 AATTT
1315483 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 11 0.31
36 25 0.69
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.43
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATGCAATTAAAGTGTTTTGG
Found at i:1317527 original size:31 final size:31
Alignment explanation
Indices: 1317453--1317518 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
1317443 AAGTTGGGGG
1317453 GACCTAAATGCAAGCGCCTAAAATGTTCAAT
1 GACCTAAATGCAAGCGCCTAAAATGTTCAAT
*
1317484 GACCTAAATGCAAGCGCCTGAAATGTTCAAT
1 GACCTAAATGCAAGCGCCTAAAATGTTCAAT
1317515 GACC
1 GACC
1317519 ATATTGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (31 bp):
GACCTAAATGCAAGCGCCTAAAATGTTCAAT
Found at i:1325150 original size:2 final size:2
Alignment explanation
Indices: 1325143--1325190 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1325133 AAATTAAGAC
1325143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1325185 AT AT AT
1 AT AT AT
1325191 TAAATTTAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1327865 original size:14 final size:13
Alignment explanation
Indices: 1327829--1327889 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
1327819 TTATTTATTT
*
1327829 ATTTTATTAATAAA
1 ATTTTATT-TTAAA
1327843 ATTTTATTTTAAA
1 ATTTTATTTTAAA
*
1327856 ATTTTAATTTTATAC
1 ATTTT-ATTTTA-AA
* *
1327871 ATCTCA-TTTAAA
1 ATTTTATTTTAAA
1327883 ATTTTAT
1 ATTTTAT
1327890 GTTATTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
12 5 0.14
13 13 0.35
14 15 0.41
15 4 0.11
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTATTTTAAA
Found at i:1336738 original size:17 final size:16
Alignment explanation
Indices: 1336699--1336766 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 16
1336689 TATGTAAAAA
*
1336699 ATTAATTAAA-TACAAT
1 ATTAAATAAATTA-AAT
*
1336715 ATTAAATAATTTAAAT
1 ATTAAATAAATTAAAT
1336731 ACTTAAATAAATTAAAT
1 A-TTAAATAAATTAAAT
*
1336748 ATTAAATATAATAAAAT
1 ATTAAATA-AATTAAAT
1336765 AT
1 AT
1336767 ACCTTAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
16 19 0.42
17 26 0.58
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:1348997 original size:34 final size:34
Alignment explanation
Indices: 1348958--1349031 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
1348948 TGATTATATA
1348958 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
1348992 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
1349026 TATATA
1 TATATA
1349032 ATACAAACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:1355818 original size:18 final size:18
Alignment explanation
Indices: 1355795--1355841 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
1355785 TTCCCAGTAA
1355795 TTATATTCCCTGGTAATC
1 TTATATTCCCTGGTAATC
*
1355813 TTATATTTTCACTGGTAATC
1 TTATA--TTCCCTGGTAATC
*
1355833 TTACATTCC
1 TTATATTCC
1355842 GTGAACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (18 bp):
TTATATTCCCTGGTAATC
Found at i:1356722 original size:21 final size:21
Alignment explanation
Indices: 1356698--1356763 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
1356688 ATGATGAATG
1356698 TTTTTATATTCTTGTAGTATA
1 TTTTTATATTCTTGTAGTATA
* *
1356719 -TTTTATTCTTGCTTGTA-TACA
1 TTTTTA-TATT-CTTGTAGTATA
**
1356740 TTTTTA-A-GATTGTAGTATA
1 TTTTTATATTCTTGTAGTATA
1356759 TTTTT
1 TTTTT
1356764 TTTATGACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 5 0.14
19 8 0.23
20 5 0.14
21 6 0.17
22 11 0.31
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.61
Consensus pattern (21 bp):
TTTTTATATTCTTGTAGTATA
Found at i:1359384 original size:20 final size:22
Alignment explanation
Indices: 1359337--1359390 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
1359327 AAGGGTGGTA
*
1359337 GGTATCGATA-CTGTAATGGGT
1 GGTATCGATACCTGTAATGGAT
*
1359358 AGTATCGATACCTG-AA-GGAT
1 GGTATCGATACCTGTAATGGAT
1359378 GGTATCGATACCT
1 GGTATCGATACCT
1359391 TGAAACATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.52
21 11 0.38
22 3 0.10
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
GGTATCGATACCTGTAATGGAT
Found at i:1359441 original size:53 final size:54
Alignment explanation
Indices: 1359359--1359476 Score: 170
Period size: 53 Copynumber: 2.2 Consensus size: 54
1359349 GTAATGGGTA
1359359 GTATCGATACCTGAAGGATGGTATCGATA-CCTTGAAACATCGAATGCTAGATTG
1 GTATCGATACCTGAAGGATGGTATCGATACCCTTG-AACATCGAATGCTAGATTG
* **
1359413 GTATCGGTACCTTG-AGGA-GGTATCGATACCCTTGAACATCGAATGCTATTTTG
1 GTATCGATACC-TGAAGGATGGTATCGATACCCTTGAACATCGAATGCTAGATTG
1359466 GTATCGATACC
1 GTATCGATACC
1359477 CTTATAGGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
53 37 0.64
54 19 0.33
55 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (54 bp):
GTATCGATACCTGAAGGATGGTATCGATACCCTTGAACATCGAATGCTAGATTG
Found at i:1359903 original size:20 final size:21
Alignment explanation
Indices: 1359861--1359910 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1359851 ATGTTATGGA
1359861 AATGTGAACTTTGAACTAGTG
1 AATGTGAACTTTGAACTAGTG
1359882 AATGTGAACTTTGAAC-AGTG
1 AATGTGAACTTTGAACTAGTG
1359902 AATGTGAAC
1 AATGTGAAC
1359911 AAACTCTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (21 bp):
AATGTGAACTTTGAACTAGTG
Found at i:1360073 original size:21 final size:21
Alignment explanation
Indices: 1360047--1360099 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1360037 AGGGTCTTAT
1360047 GTGGTCCTTCGGGATAAATAA
1 GTGGTCCTTCGGGATAAATAA
* *
1360068 GTGGTCATTCGGGATAAATAT
1 GTGGTCCTTCGGGATAAATAA
*
1360089 GTGGTACTTCG
1 GTGGTCCTTCG
1360100 ATGCAAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (21 bp):
GTGGTCCTTCGGGATAAATAA
Found at i:1366765 original size:21 final size:21
Alignment explanation
Indices: 1366740--1366790 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1366730 ATGTTATGGA
*
1366740 AATGTGAACTTTGAACTAGTG
1 AATGTGAACTTTGAACCAGTG
* *
1366761 GATGTGAACTTTGGACCAGTG
1 AATGTGAACTTTGAACCAGTG
1366782 AATGTGAAC
1 AATGTGAAC
1366791 AACTTTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (21 bp):
AATGTGAACTTTGAACCAGTG
Found at i:1366973 original size:23 final size:23
Alignment explanation
Indices: 1366920--1367029 Score: 103
Period size: 21 Copynumber: 5.0 Consensus size: 23
1366910 TGTCGAGGGT
1366920 CTTATGTGGTCA-TTCGG-GACAAA
1 CTTATGTGG-CACTTCGGTG-CAAA
1366943 --TATGTGGCACTTCGGTGCAAA
1 CTTATGTGGCACTTCGGTGCAAA
*
1366964 CTTATGTGGCACTTCGGTGTAAA
1 CTTATGTGGCACTTCGGTGCAAA
*
1366987 C-TATGTGGTCA-TTTGG-G-ACAA
1 CTTATGTGG-CACTTCGGTGCA-AA
1367008 -TTATGTGGCACTTCGGTGCAAA
1 CTTATGTGGCACTTCGGTGCAAA
1367030 TTGCGATCTG
Statistics
Matches: 74, Mismatches: 3, Indels: 21
0.76 0.03 0.21
Matches are distributed among these distances:
20 5 0.07
21 30 0.41
22 15 0.20
23 24 0.32
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (23 bp):
CTTATGTGGCACTTCGGTGCAAA
Found at i:1375142 original size:5 final size:5
Alignment explanation
Indices: 1375134--1375167 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
1375124 AAAAATAAAA
*
1375134 ATAAT ATAAT A-AAT ATGAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1375168 CAAATGCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:1375651 original size:16 final size:16
Alignment explanation
Indices: 1375630--1375665 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1375620 ATAGAATATG
*
1375630 TGAAGGAATTGAAATT
1 TGAAGGAATTGAAATC
1375646 TGAAGGAATTGAAATC
1 TGAAGGAATTGAAATC
1375662 TGAA
1 TGAA
1375666 TCTGAAACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (16 bp):
TGAAGGAATTGAAATC
Found at i:1376323 original size:28 final size:28
Alignment explanation
Indices: 1376230--1376406 Score: 205
Period size: 28 Copynumber: 6.1 Consensus size: 28
1376220 AAACCTGAAC
1376230 CCCGAATATCACACTTAAAAAAATGACCCGA
1 CCCGAATATCACACTT-AAAAAA--ACCCGA
1376261 CCCGAATAT-ACACTTAAAAAAACCCGACCTGA
1 CCCGAATATCACACTTAAAAAAA--C--CC-GA
* *
1376293 CCCGAATTTCAAACTTAAAAAAACCCGA
1 CCCGAATATCACACTTAAAAAAACCCGA
* *
1376321 CCCGAATATCATACTTAATAAAACCCGA
1 CCCGAATATCACACTTAAAAAAACCCGA
* *
1376349 CTCGAACATCACACTT-AAAAAACCCGA
1 CCCGAATATCACACTTAAAAAAACCCGA
*
1376376 CCCGAATATCAAACTTAAAAAAACCCGA
1 CCCGAATATCACACTTAAAAAAACCCGA
1376404 CCC
1 CCC
1376407 AAACCCGATT
Statistics
Matches: 127, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
27 24 0.19
28 54 0.43
29 9 0.07
30 6 0.05
31 12 0.09
32 10 0.08
33 12 0.09
ACGTcount: A:0.45, C:0.31, G:0.08, T:0.16
Consensus pattern (28 bp):
CCCGAATATCACACTTAAAAAAACCCGA
Found at i:1376373 original size:55 final size:57
Alignment explanation
Indices: 1376231--1376404 Score: 210
Period size: 55 Copynumber: 3.0 Consensus size: 57
1376221 AACCTGAACC
*
1376231 CCGAATATCACACTTAAAAAAATGACCCGACCCGAATAT-ACACTTAAAAAAACCCGACCT
1 CCGAATATCACACTT-AAAAAA--ACCCGACCCGAATATCAAACTTAAAAAAACCCGA-CT
* * * *
1376291 GACCCGAATTTCAAACTTAAAAAAACCCGACCCGAATATCATACTTAATAAAACCCGACT
1 ---CCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGACT
*
1376351 -CGAACATCACACTT-AAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGAC
1 CCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGAC
1376405 CCAAACCCGA
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
55 38 0.38
56 11 0.11
60 17 0.17
61 16 0.16
62 6 0.06
63 13 0.13
ACGTcount: A:0.45, C:0.30, G:0.08, T:0.17
Consensus pattern (57 bp):
CCGAATATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGACT
Found at i:1376462 original size:33 final size:33
Alignment explanation
Indices: 1376390--1376470 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
1376380 AATATCAAAC
*
1376390 TTAAAAAAACCCGACCCAAACCCGATTTTTTTT
1 TTAAAAAAATCCGACCCAAACCCGATTTTTTTT
** * *
1376423 AAAAAAAAATCCGACCCAATCCTGATTTTTTTT
1 TTAAAAAAATCCGACCCAAACCCGATTTTTTTT
1376456 TT--AAAAATCCGACCC
1 TTAAAAAAATCCGACCC
1376471 GAATACCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 13 0.32
33 28 0.68
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (33 bp):
TTAAAAAAATCCGACCCAAACCCGATTTTTTTT
Found at i:1376961 original size:56 final size:57
Alignment explanation
Indices: 1376900--1377013 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 57
1376890 ATAGACAGAA
1376900 GGATTATTTCATG-AAAAATGAAGAACCTTATAATAAACAATGGTAATTCACAGTTT
1 GGATTATTTCATGAAAAAATGAAGAACCTTATAATAAACAATGGTAATTCACAGTTT
1376956 GGATTATTTCATGAAAAAAATGAAGAACCTTATAATAAACAATGGTAATTCACAGTTT
1 GGATTATTTCATG-AAAAAATGAAGAACCTTATAATAAACAATGGTAATTCACAGTTT
1377014 CCGGACGTGG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 13 0.23
58 43 0.77
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (57 bp):
GGATTATTTCATGAAAAAATGAAGAACCTTATAATAAACAATGGTAATTCACAGTTT
Found at i:1378718 original size:15 final size:15
Alignment explanation
Indices: 1378698--1378727 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1378688 GACAACTTCT
*
1378698 CTAACATTCCAAGAA
1 CTAACACTCCAAGAA
1378713 CTAACACTCCAAGAA
1 CTAACACTCCAAGAA
1378728 TGGAACCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.30, G:0.07, T:0.17
Consensus pattern (15 bp):
CTAACACTCCAAGAA
Found at i:1379237 original size:18 final size:18
Alignment explanation
Indices: 1379216--1379280 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 18
1379206 AACAGTACAA
*
1379216 ATACTCTAAGGAGTATCG
1 ATACTCTAAGTAGTATCG
1379234 ATACTACTTGTAATAGTAGTATCG
1 ATACT-C---T-A-AGTAGTATCG
1379258 ATACTCTAAGTAGTATCG
1 ATACTCTAAGTAGTATCG
1379276 ATACT
1 ATACT
1379281 GCCCTTAGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 20 0.50
19 2 0.05
20 1 0.03
22 1 0.03
23 2 0.05
24 14 0.35
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (18 bp):
ATACTCTAAGTAGTATCG
Found at i:1381817 original size:24 final size:24
Alignment explanation
Indices: 1381778--1381902 Score: 178
Period size: 24 Copynumber: 5.2 Consensus size: 24
1381768 AAACATATTT
* *
1381778 CAGGTCAAGTAGCATATCAGAATC
1 CAGGTCAAGTATCATATCAAAATC
* *
1381802 CATGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATCAAAATC
1381826 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
* *
1381850 CAGGTCAAGTATCATATTAAAATA
1 CAGGTCAAGTATCATATCAAAATC
* *
1381874 TAGGTCAAATATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
1381898 CAGGT
1 CAGGT
1381903 TAAAAATCAG
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 88 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:1382092 original size:21 final size:21
Alignment explanation
Indices: 1382068--1382107 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1382058 ATCCATATTG
1382068 TAATCCTAATATAAATAATCT
1 TAATCCTAATATAAATAATCT
* * *
1382089 TAATCTTTATTTAAATAAT
1 TAATCCTAATATAAATAAT
1382108 ATACGGAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATCCTAATATAAATAATCT
Found at i:1382637 original size:28 final size:30
Alignment explanation
Indices: 1382594--1382649 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
1382584 TTACACATTT
*
1382594 ATCACCCTTTTAAAAA-AATTA-TAAAAAG
1 ATCACCATTTTAAAAATAATTACTAAAAAG
*
1382622 ATCACCATTTTCAAAATAATTACTAAAA
1 ATCACCATTTTAAAAATAATTACTAAAA
1382650 TATCACCCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.58
29 5 0.21
30 5 0.21
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (30 bp):
ATCACCATTTTAAAAATAATTACTAAAAAG
Found at i:1382654 original size:29 final size:28
Alignment explanation
Indices: 1382593--1382656 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
1382583 TTTACACATT
*
1382593 TATCACCCTTTTAAAAAAATTATAAAAA
1 TATCACCATTTTAAAAAAATTATAAAAA
* *
1382621 GATCACCATTTTCAAAATAATTACT-AAAA
1 TATCACCATTTT-AAAAAAATTA-TAAAAA
1382650 TATCACC
1 TATCACC
1382657 CGGTTAACGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 10 0.33
29 19 0.63
30 1 0.03
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (28 bp):
TATCACCATTTTAAAAAAATTATAAAAA
Found at i:1388860 original size:24 final size:24
Alignment explanation
Indices: 1388836--1388957 Score: 181
Period size: 24 Copynumber: 5.1 Consensus size: 24
1388826 CATATTTCAT
* * * *
1388836 GTCAAGTAGCAAATCATAATCCAT
1 GTCAAGTATCATATCAAAATCCAG
*
1388860 GTCAAGTATCATATAAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
1388884 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
*
1388908 GTCAAGTATCATATTAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
*
1388932 GTCAAATATCATATCAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
1388956 GT
1 GT
1388958 TAAAAATCAG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAAAATCCAG
Found at i:1389702 original size:28 final size:29
Alignment explanation
Indices: 1389670--1389732 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
1389660 TTTACACATT
*
1389670 TATCACCCTTTT-AAAAAAAATACAAAAA
1 TATCACCATTTTCAAAAAAAATACAAAAA
* * *
1389698 TATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCATTTTCAAAAAAAATACAAAAA
1389727 TATCAC
1 TATCAC
1389733 TCGGTCAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (29 bp):
TATCACCATTTTCAAAAAAAATACAAAAA
Found at i:1393271 original size:35 final size:34
Alignment explanation
Indices: 1393186--1393272 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1393176 ATTTGGTATT
*
1393186 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1393220 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1393258 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1393273 ATTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1395579 original size:111 final size:111
Alignment explanation
Indices: 1395385--1395717 Score: 603
Period size: 111 Copynumber: 3.0 Consensus size: 111
1395375 ATTACAAAAA
* *
1395385 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAACTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
1395450 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTCGAGATAT
* *
1395496 TTAATTCTTAATCTAATAATCATGCATTAAATAAATTAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1395561 AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTCGAGATAT
1395607 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
1395672 AATTAAAACGTTAAAATGTTACTGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTCGAGATAT
1395718 ATGATTTCCA
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTCGAGATAT
Found at i:1396052 original size:50 final size:49
Alignment explanation
Indices: 1395998--1396122 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
1395988 AGATACCTAG
* * * *
1395998 GTATAACGCAGATCAGGGGGCGCGCTATACCCACGTGGTGCCAGATCACC
1 GTATAACGCGGATCAGGGGGCGCGCTATACCCACGTAGCGCCAAATCA-C
* ** *
1396048 GTATATCGCGGGGCAGGGGGCACGCTATACCCACGTAGCGCCAAATCAC
1 GTATAACGCGGATCAGGGGGCGCGCTATACCCACGTAGCGCCAAATCAC
* * *
1396097 GTATAGCGCGGTTCAGGGGGTGCGCT
1 GTATAACGCGGATCAGGGGGCGCGCT
1396123 TTACTGCTAC
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 22 0.35
50 40 0.65
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.17
Consensus pattern (49 bp):
GTATAACGCGGATCAGGGGGCGCGCTATACCCACGTAGCGCCAAATCAC
Found at i:1397357 original size:3 final size:3
Alignment explanation
Indices: 1397349--1397381 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1397339 TATTTTTAAA
*
1397349 ATT ATT ATT ATT ATT ATT ATT A-A ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1397382 CAGGTCCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 26 0.96
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1399288 original size:17 final size:18
Alignment explanation
Indices: 1399263--1399297 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1399253 AGAAAAATTA
1399263 TTATATTCTTCTTAATAT
1 TTATATTCTTCTTAATAT
*
1399281 TTAT-TTCTTTTTAATAT
1 TTATATTCTTCTTAATAT
1399298 CAAAGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATTCTTCTTAATAT
Found at i:1402305 original size:21 final size:21
Alignment explanation
Indices: 1402280--1402326 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1402270 TTGCATTCGT
1402280 ATTTTTT-TCATTACATTTGC
1 ATTTTTTATCATTACATTTGC
** *
1402300 ATTTTTTATGTTTGCATTTGC
1 ATTTTTTATCATTACATTTGC
1402321 ATTTTT
1 ATTTTT
1402327 ATATTTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.64
Consensus pattern (21 bp):
ATTTTTTATCATTACATTTGC
Found at i:1402325 original size:20 final size:21
Alignment explanation
Indices: 1402293--1402338 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1402283 TTTTTCATTA
*
1402293 CATTTGCATTTTTTATGTTTG
1 CATTTGCATTTTTTATATTTG
*
1402314 CATTTGCA-TTTTTATATTTT
1 CATTTGCATTTTTTATATTTG
1402334 CATTT
1 CATTT
1402339 ATATTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (21 bp):
CATTTGCATTTTTTATATTTG
Found at i:1402337 original size:14 final size:14
Alignment explanation
Indices: 1402315--1402351 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
1402305 TTATGTTTGC
*
1402315 ATTTGCATTTTTAT
1 ATTTTCATTTTTAT
1402329 ATTTTCA--TTTAT
1 ATTTTCATTTTTAT
1402341 ATTTTCATTTT
1 ATTTTCATTTT
1402352 ATGTTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (14 bp):
ATTTTCATTTTTAT
Found at i:1402341 original size:12 final size:12
Alignment explanation
Indices: 1402324--1402350 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1402314 CATTTGCATT
1402324 TTTATATTTTCA
1 TTTATATTTTCA
1402336 TTTATATTTTCA
1 TTTATATTTTCA
1402348 TTT
1 TTT
1402351 TATGTTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTTTCA
Found at i:1402344 original size:20 final size:20
Alignment explanation
Indices: 1402302--1402345 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1402292 ACATTTGCAT
* *
1402302 TTTTTATGTTTGCATTTGCA
1 TTTTTATATTTGCATTTACA
* *
1402322 TTTTTATATTTTCATTTATA
1 TTTTTATATTTGCATTTACA
1402342 TTTT
1 TTTT
1402346 CATTTTATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTGCATTTACA
Found at i:1407850 original size:54 final size:53
Alignment explanation
Indices: 1407786--1407951 Score: 233
Period size: 54 Copynumber: 3.1 Consensus size: 53
1407776 GCATCACTGG
* * *
1407786 CGAACATCTGTACAGAAGCCACATGAAAGGATGAATGTATTATCAAATGTTTTA
1 CGAACATCTGTGCAGAAGCCACA-GAAAGGATGAATGTGTTGTCAAATGTTTTA
*
1407840 CGAACATCTGTGCAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGTTTTA
1 CGAACATCTGTGCAGAAGCCACA-GAAAGGATGAATGTGTTGTCAAATGTTTTA
* * * * *
1407894 CAAATATCTGGGCAGAAGGCACAGAAAGGATGAATGTGTTGGCAAATGTTTTA
1 CGAACATCTGTGCAGAAGCCACAGAAAGGATGAATGTGTTGTCAAATGTTTTA
1407947 CGAAC
1 CGAAC
1407952 CAGTGATTAT
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
53 32 0.32
54 67 0.68
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (53 bp):
CGAACATCTGTGCAGAAGCCACAGAAAGGATGAATGTGTTGTCAAATGTTTTA
Found at i:1408341 original size:22 final size:23
Alignment explanation
Indices: 1408312--1408369 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
1408302 TCTACATCTA
1408312 TATTCTTCAAAGATGATAGATTC
1 TATTCTTCAAAGATGATAGATTC
*
1408335 -ATTCTTCAAAGATGATGGATTC
1 TATTCTTCAAAGATGATAGATTC
*
1408357 TATT-TTTAAAGAT
1 TATTCTTCAAAGAT
1408370 AAAACCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (23 bp):
TATTCTTCAAAGATGATAGATTC
Found at i:1409123 original size:37 final size:37
Alignment explanation
Indices: 1409069--1409277 Score: 130
Period size: 45 Copynumber: 5.0 Consensus size: 37
1409059 TTCAGTGTAT
*
1409069 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTA
1 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTA
*
1409106 GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCA
1 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGA-C--C--T--A
* * *
1409150 TGATGTTTTCAAGACCTTCAGGTTATCTGTAAGCCCTTCAGTGCA
1 -GATGTTTTCAAAACCTTCAGGTCATCTGTAAG-AC--C--T--A
*
1409195 GGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCA
1 -GATGTTTTCAAAACCTTCAGGTCATCTGTAAG----AC-CT--A
* *
1409240 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTA
1 -GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTA
1409278 CAGTGTGATG
Statistics
Matches: 142, Mismatches: 18, Indels: 23
0.78 0.10 0.13
Matches are distributed among these distances:
37 31 0.22
38 2 0.01
40 2 0.01
41 2 0.01
42 1 0.01
44 1 0.01
45 102 0.72
48 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (37 bp):
GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTA
Found at i:1409170 original size:45 final size:45
Alignment explanation
Indices: 1409106--1409296 Score: 278
Period size: 45 Copynumber: 4.3 Consensus size: 45
1409096 GTAAGACCTA
*
1409106 GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCAT
1 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAGTGCAT
* * * * *
1409151 GATGTTTTCAAGACCTTCAGGTTATCTGTAAGCCCTTCAGTGCAG
1 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAGTGCAT
*
1409196 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCAT
1 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAGTGCAT
* *
1409241 GATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTG--T
1 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAGTGCAT
*
1409284 GATGTTTGCAAAA
1 GATGTTTTCAAAA
1409297 AGCCTTCGGG
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
43 13 0.10
45 119 0.90
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
GATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAGTGCAT
Found at i:1409303 original size:90 final size:87
Alignment explanation
Indices: 1409046--1409303 Score: 330
Period size: 90 Copynumber: 3.0 Consensus size: 87
1409036 CTACTTCCCA
* *
1409046 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCT-A---G
1 CATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTCAGTGG
1409107 ATGTTTTC-AAAGCCTTCAGGT
66 ATGTTTTCAAAAGCCTTCAGGT
* * * * *
1409128 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAGACCTTCAGGTTATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACC-TCAGT-
1409193 CAGGATGTTTTCAAAA-CCTTCAGGT
64 --GGATGTTTTCAAAAGCCTTCAGGT
*
1409218 CATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTG
1 CATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCT-CAGTG
*
1409283 TGATGTTTGCAAAAAGCCTTC
65 -GATGTTTTC-AAAAGCCTTC
1409304 GGGAGCTTTT
Statistics
Matches: 149, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
82 51 0.34
83 1 0.01
84 1 0.01
87 1 0.01
88 8 0.05
89 5 0.03
90 79 0.53
91 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (87 bp):
CATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTCAGTGG
ATGTTTTCAAAAGCCTTCAGGT
Found at i:1409378 original size:45 final size:45
Alignment explanation
Indices: 1409314--1409417 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 45
1409304 GGGAGCTTTT
*
1409314 TGATGTTTTCAAAGCCTTCAGGTCATCTATAAGACCTAT-AGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGACCT-TCAGTGCA
* *
1409359 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGACCTTCAGTGCA
1409404 TGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1409418 AGCCTTCGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 1 0.02
45 54 0.98
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCAGGTCATCTATAAGACCTTCAGTGCA
Found at i:1409478 original size:121 final size:121
Alignment explanation
Indices: 1409196--1409670 Score: 683
Period size: 121 Copynumber: 3.9 Consensus size: 121
1409186 TTCAGTGCAG
* *
1409196 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGG
1 GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
* *
1409261 GTCATCTATAAGACCTACAGTG--TGATGTTTGCAAAAAGCCTTCGGGAGCTTTTT
66 GTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTT
* * *
1409315 GATGTTTTCAAAGCCTTCAGGTCATCTATAAGACCTATAGTGCATGATGTTTTCAAAACCTTCAG
1 GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
* * *
1409380 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTT
66 GTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTT
* *
1409436 GATGTTTTCAAAGCCTTC-GGATCACCTGTAAGTCCTACAGTGCATGATGTTTTCAAAACCTTCG
1 GATGTTTTCAAAGCCTTCAGG-TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
* * * *
1409500 GGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAAAGCCTTCGGGAGCTTTTT
65 GGTCATCTATAAGACCTACAGTGCATGATGTTTTC--AAAAAGCCTTCGAGAGCTTTTT
*
1409559 GATGTTTTCAAAGCCTT-GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTC
1 GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC--AAAACCTTC
* * *
1409623 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGAG
64 GGGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAG
1409671 TCATATGTAA
Statistics
Matches: 317, Mismatches: 31, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
119 79 0.25
120 9 0.03
121 119 0.38
122 31 0.10
123 40 0.13
124 39 0.12
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (121 bp):
GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
GTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTT
Found at i:1409497 original size:240 final size:240
Alignment explanation
Indices: 1409196--1409670 Score: 751
Period size: 240 Copynumber: 2.0 Consensus size: 240
1409186 TTCAGTGCAG
*
1409196 GATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGG
1 GATGTTTTCAAAACCTTCAGGTCACCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGG
* * *
1409261 GTCATCTATAAGACCTACAGTG-TGATGTTTGC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 GCCATCCATAAGACCTACAGTGAAGATGTTTGCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
1409324 AAAGCCTTCAGGTCATCTATAAGACCTATAGTGCATGATGTTTTC-AAAACCTTCAGGTCATCTG
131 AAAGCCTT-AGGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCAGGTCATCTG
*
1409388 TAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTT
195 TAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGAGAGCTTTTT
* *
1409436 GATGTTTTCAAAGCCTTC-GGATCACCTGTAAGTCCTACAGTGCATGATGTTTTCAAAACCTTCG
1 GATGTTTTCAAAACCTTCAGG-TCACCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
*
1409500 GGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAAAGCCTTCGGGAGCTTTTTGATGTT
65 GGCCATCCATAAGACCTACAGTG-AAGATGTTTGC-AAAAAAGCCTTCGGGAGCTTTTTGATGTT
* * *
1409565 TTCAAAGCCTTGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGGGTCAT
128 TTCAAAGCCTTAGGTCATCTATAAGACCTACAGTGCATGATGTTTTC-AAAAACCTTCAGGTCAT
1409630 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAG
192 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAG
1409671 TCATATGTAA
Statistics
Matches: 216, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
239 2 0.01
240 79 0.37
242 8 0.04
243 41 0.19
244 43 0.20
245 43 0.20
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (240 bp):
GATGTTTTCAAAACCTTCAGGTCACCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGG
GCCATCCATAAGACCTACAGTGAAGATGTTTGCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
AAAGCCTTAGGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCAGGTCATCTGT
AAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGAGCTTTTT
Found at i:1409499 original size:45 final size:45
Alignment explanation
Indices: 1409435--1409538 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
1409425 GAGAGCTTTT
* * * *
1409435 TGATGTTTTCAAAGCCTTCGGATCA-CCTGTAAGTCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGACCATCC-ATAAGACCTACAGTGCA
*
1409480 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGACCATCCATAAGACCTACAGTGCA
*
1409525 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1409539 AAAGCCTTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGACCATCCATAAGACCTACAGTGCA
Found at i:1409608 original size:77 final size:76
Alignment explanation
Indices: 1409480--1409625 Score: 222
Period size: 77 Copynumber: 1.9 Consensus size: 76
1409470 CTACAGTGCA
1409480 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAAAGCC
1 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTC-AAAAAA-CC
1409545 TTCGGGAGCTTTT
64 TTCGGGAGCTTTT
* * ** *
1409558 TGATGTTTTCAAAGCCTT-GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
1409622 CGGG
66 CGGG
1409626 TCATCTGTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 8 0.13
76 6 0.10
77 32 0.51
78 17 0.27
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (76 bp):
TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
CGGGAGCTTTT
Found at i:1409680 original size:45 final size:44
Alignment explanation
Indices: 1409558--1409788 Score: 318
Period size: 45 Copynumber: 5.1 Consensus size: 44
1409548 GGGAGCTTTT
* *
1409558 TGATGTTTTCAAAGCCTTGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTGGGTCATCTGTAAGCCCTACAGTGCA
*
1409602 TGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC--AAAACCTT-GGGTCATCTGTAAGCCCTACAGTGCA
* *
1409649 TGATGTTTTCAAAACCTTCGAGTCATATGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTT-GGGTCATCTGTAAGCCCTACAGTGCA
* *
1409694 TGATGTTTTCAAAGCCGTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACC-TTGGGTCATCTGTAAGCCCTACAGTGCA
* *
1409739 TGATGTTTTCAAAACTTTAGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTT-GGGTCATCTGTAAGCCCTACAGTGCA
*
1409784 AGATG
1 TGATG
1409789 ATAAGACCTC
Statistics
Matches: 167, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
44 12 0.07
45 112 0.67
46 9 0.05
47 34 0.20
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
TGATGTTTTCAAAACCTTGGGTCATCTGTAAGCCCTACAGTGCA
Found at i:1409977 original size:3 final size:3
Alignment explanation
Indices: 1409969--1410042 Score: 105
Period size: 3 Copynumber: 24.3 Consensus size: 3
1409959 TATTTTTAAA
1409969 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* *
1410015 AAT ATT ATAT ATT ATT A-A ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT A
1410043 CATGCCCCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
2 1 0.02
3 57 0.89
4 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1410009 original size:28 final size:28
Alignment explanation
Indices: 1409969--1410042 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
1409959 TATTTTTAAA
*
1409969 ATTATTATTATTATTATTATTATTATAT
1 ATTATTATTATTATTATTAATATTATAT
1409997 ATTATTATTATTATTATTAATATTATAT
1 ATTATTATTATTATTATTAATATTATAT
*
1410025 ATTATTA-AATTATTATTA
1 ATTATTATTATTATTATTA
1410043 CATGCCCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 10 0.23
28 34 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATTATTATTATTATTATTAATATTATAT
Found at i:1410803 original size:16 final size:18
Alignment explanation
Indices: 1410777--1410810 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1410767 CTCTATTAGA
1410777 GAGAGAATGAAA-AAAAT
1 GAGAGAATGAAAGAAAAT
1410794 GAGA-AATGAAAGAAAAT
1 GAGAGAATGAAAGAAAAT
1410811 TGGCTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.12
Consensus pattern (18 bp):
GAGAGAATGAAAGAAAAT
Found at i:1411215 original size:45 final size:45
Alignment explanation
Indices: 1411162--1411260 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
1411152 GATCTTTTAT
* *
1411162 TACAGTGCATGATGTTTTCAAAGCCGTT-GGGTCATCTGTAAGCCC
1 TACAGTGCATGATGTTTTCAAA-ACGTTAGGGTCATCTGTAAGACC
* *
1411207 TTCAGTGCATGATGTTTTCAAAACTTTAGGGTCATCTGTAAGACC
1 TACAGTGCATGATGTTTTCAAAACGTTAGGGTCATCTGTAAGACC
1411252 TACAGTGCA
1 TACAGTGCA
1411261 AGATTATAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 3 0.06
45 45 0.94
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (45 bp):
TACAGTGCATGATGTTTTCAAAACGTTAGGGTCATCTGTAAGACC
Found at i:1411457 original size:3 final size:3
Alignment explanation
Indices: 1411449--1411524 Score: 118
Period size: 3 Copynumber: 25.3 Consensus size: 3
1411439 TTTTAAAATC
*
1411449 ATT ATT ATT ATT ATT ATAT ATT ATT ATT ATT AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1411495 ATT ATT ATT ATT ATT ATT A-A ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1411525 CATGCCCCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.01
3 63 0.94
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1412291 original size:16 final size:18
Alignment explanation
Indices: 1412265--1412298 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1412255 CTCTATTAGA
1412265 GAGAGAATGAAA-AAAAT
1 GAGAGAATGAAAGAAAAT
1412282 GAGA-AATGAAAGAAAAT
1 GAGAGAATGAAAGAAAAT
1412299 TGGCTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.12
Consensus pattern (18 bp):
GAGAGAATGAAAGAAAAT
Found at i:1412902 original size:16 final size:17
Alignment explanation
Indices: 1412859--1412902 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1412849 GATGTTTGTA
1412859 TCTTTGACTTTAATTTT
1 TCTTTGACTTTAATTTT
*
1412876 TCCTT-ACTTTAA-TTT
1 TCTTTGACTTTAATTTT
*
1412891 TCTTTGAATTTA
1 TCTTTGACTTTA
1412903 TTTATAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 12 0.52
17 4 0.17
ACGTcount: A:0.20, C:0.14, G:0.05, T:0.61
Consensus pattern (17 bp):
TCTTTGACTTTAATTTT
Found at i:1413136 original size:30 final size:28
Alignment explanation
Indices: 1413101--1413176 Score: 71
Period size: 31 Copynumber: 2.6 Consensus size: 28
1413091 AGTGTATTTA
*
1413101 TATTATAGTTTTAATTTTATTTATTTTAT
1 TATTATAGTTTTAATTTT-TTTATTTAAT
**
1413130 TCATTATTAGATTGCAATTTTTTTATTTAAT
1 T-ATTA-TAG-TTTTAATTTTTTTATTTAAT
**
1413161 TATTATCCTTTTAATT
1 TATTATAGTTTTAATT
1413177 CCAATATGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
28 6 0.16
29 2 0.05
30 8 0.22
31 13 0.35
32 8 0.22
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (28 bp):
TATTATAGTTTTAATTTTTTTATTTAAT
Found at i:1413509 original size:2 final size:2
Alignment explanation
Indices: 1413497--1413552 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
1413487 TTTATTAAAC
*
1413497 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1413539 TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA T
1413553 TTTTTATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1415157 original size:2 final size:2
Alignment explanation
Indices: 1415150--1415184 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1415140 TTAGACACAT
1415150 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1415185 TATTTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1415301 original size:6 final size:6
Alignment explanation
Indices: 1415260--1415361 Score: 56
Period size: 6 Copynumber: 17.2 Consensus size: 6
1415250 TATGTATATA
* *
1415260 TTATTA TTATTA TTATTT TCCT-TTT TTATTTAT TTATTT TTA-TT TTATTT
1 TTATTT TTATTT TTATTT T--TATTT TTA-TT-T TTATTT TTATTT TTATTT
* * *
1415310 TCA-TT TT-TTG TTATCT TTA-TT TT-TTT TTATTT TT-TTT CTTCATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT -TT-ATTT
1415355 TTATTT T
1 TTATTT T
1415362 AATTCTTTTG
Statistics
Matches: 76, Mismatches: 7, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
5 22 0.29
6 36 0.47
7 10 0.13
8 8 0.11
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:1415323 original size:27 final size:28
Alignment explanation
Indices: 1415293--1415362 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
1415283 TTTTATTTAT
*
1415293 TTATTTTTATTTTATTTTCA-TTTTTTG
1 TTATTTTTATTTTATTTTCATTTTTTTC
* *
1415320 TTATCTTTATTTT-TTTTTATTTTTTTTC
1 TTATTTTTATTTTATTTTCA-TTTTTTTC
1415348 TTCATTTTTATTTTA
1 TT-ATTTTTATTTTA
1415363 ATTCTTTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.14
27 12 0.34
28 8 0.23
29 10 0.29
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (28 bp):
TTATTTTTATTTTATTTTCATTTTTTTC
Found at i:1415344 original size:10 final size:10
Alignment explanation
Indices: 1415281--1415362 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 10
1415271 ATTATTTTCC
1415281 TTTTTTATTTA
1 TTTTTT-TTTA
*
1415292 TTTATTTTTA
1 TTTTTTTTTA
*
1415302 TTTTATTTTCA
1 TTTT-TTTTTA
*
1415313 TTTTTTGTTA
1 TTTTTTTTTA
*
1415323 TCTTTATTTT-
1 T-TTTTTTTTA
*
1415333 TTTTTATTT-
1 TTTTTTTTTA
* *
1415342 TTTTTCTTCA
1 TTTTTTTTTA
1415352 TTTTTATTTTA
1 TTTTT-TTTTA
1415363 ATTCTTTTGT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 13 0.24
10 18 0.33
11 23 0.43
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:1415375 original size:29 final size:27
Alignment explanation
Indices: 1415302--1415376 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 27
1415292 TTTATTTTTA
* *
1415302 TTTTATTTTCATTTTTTGTTATCTTTAT
1 TTTTATTTT-ATTTTTTGTTTTCTTCAT
1415330 TTTT-TTTTA--TTTT-TTTTCTTCAT
1 TTTTATTTTATTTTTTGTTTTCTTCAT
1415353 TTTTATTTTAATTCTTTTGTTTTC
1 TTTTATTTT-ATT-TTTTGTTTTC
1415377 CTTATCTTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 12 0.31
24 8 0.21
25 1 0.03
26 1 0.03
27 4 0.10
28 8 0.21
29 5 0.13
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (27 bp):
TTTTATTTTATTTTTTGTTTTCTTCAT
Found at i:1415433 original size:38 final size:37
Alignment explanation
Indices: 1415372--1415530 Score: 96
Period size: 38 Copynumber: 4.2 Consensus size: 37
1415362 AATTCTTTTG
** * *
1415372 TTTTCC-TTATCTTCGTTTCATTTATTTTATTTACTTT
1 TTTTCCTTTATCTTATTTTTATTTACTTTATTTA-TTT
*
1415409 TTTAT-CTTTA-CTTTATTTTTATTTACTTTCTTTATTT
1 TTT-TCCTTTATC-TTATTTTTATTTACTTTATTTATTT
* * *
1415446 TTTTCCTTTATCTTA-TTTTCTTT-GTTTCATTTGTTTT
1 TTTTCCTTTATCTTATTTTTATTTACTTT-ATTT-ATTT
* ** *
1415483 TGTTTCCTTTATTTTA-TTTTCCTTATTTTATTTATTT
1 T-TTTCCTTTATCTTATTTTTATTTACTTTATTTATTT
1415520 TCATTTCCTTT
1 T--TTTCCTTT
1415531 TTCCTCTAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 19
0.75 0.11 0.15
Matches are distributed among these distances:
35 3 0.03
36 11 0.11
37 27 0.28
38 54 0.55
39 3 0.03
ACGTcount: A:0.13, C:0.14, G:0.03, T:0.71
Consensus pattern (37 bp):
TTTTCCTTTATCTTATTTTTATTTACTTTATTTATTT
Found at i:1415455 original size:37 final size:38
Alignment explanation
Indices: 1415391--1415464 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 38
1415381 TCTTCGTTTC
*
1415391 ATTTATTTTATTTACTTTTTTATCTTTA-CTTTATTTTT
1 ATTTACTTTATTTACTTTTTTATCTTTATC-TTATTTTT
*
1415429 ATTTACTTTCTTTA-TTTTTT-TCCTTTATCTTATTTT
1 ATTTACTTTATTTACTTTTTTAT-CTTTATCTTATTTT
1415465 CTTTGTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 1 0.03
37 18 0.56
38 13 0.41
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (38 bp):
ATTTACTTTATTTACTTTTTTATCTTTATCTTATTTTT
Found at i:1415459 original size:19 final size:19
Alignment explanation
Indices: 1415439--1415530 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 19
1415429 ATTTACTTTC
1415439 TTTATTTT-TTTCCTTTAT
1 TTTATTTTCTTTCCTTTAT
* *
1415457 CTTATTTTCTTT-GTTTCAT
1 TTTATTTTCTTTCCTTT-AT
*
1415476 TTGT-TTTTGTTTCCTTTAT
1 TT-TATTTTCTTTCCTTTAT
* **
1415495 TTTATTTTCCTTATTTTA-
1 TTTATTTTCTTTCCTTTAT
1415513 TTTATTTTCATTTCCTTT
1 TTTATTTTC-TTTCCTTT
1415531 TTCCTCTAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
18 20 0.36
19 32 0.57
20 4 0.07
ACGTcount: A:0.11, C:0.13, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTATTTTCTTTCCTTTAT
Found at i:1415497 original size:15 final size:15
Alignment explanation
Indices: 1415466--1415511 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1415456 TCTTATTTTC
* *
1415466 TTTGTTTCATTTGTT
1 TTTGTTTCCTTTATT
1415481 TTTGTTTCCTTTATT
1 TTTGTTTCCTTTATT
1415496 TTAT-TTTCC-TTATT
1 TT-TGTTTCCTTTATT
1415510 TT
1 TT
1415512 ATTTATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.25
15 20 0.71
16 1 0.04
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.74
Consensus pattern (15 bp):
TTTGTTTCCTTTATT
Found at i:1415508 original size:14 final size:15
Alignment explanation
Indices: 1415485--1415515 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1415475 TTTGTTTTTG
1415485 TTTCCTTTATTTTAT
1 TTTCCTTTATTTTAT
1415500 TTTCC-TTATTTTAT
1 TTTCCTTTATTTTAT
1415514 TT
1 TT
1415516 ATTTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCCTTTATTTTAT
Found at i:1419586 original size:99 final size:99
Alignment explanation
Indices: 1419473--1419667 Score: 266
Period size: 99 Copynumber: 2.0 Consensus size: 99
1419463 ATTTTATATC
* * *
1419473 TACAATAAAGCTTGAGA-TGTCCCTTTAGAGCAATTAGTTAAACGCCCCGGCTTTATGGATAAGA
1 TACAATAAAGCTTGA-ACCGTCCCTCTAGAGCAATTAGTTAAACGCCCCGACTTTATGGATAAGA
*
1419537 TTCAACTAGCCTAATAAAGGAAATTATAATATCTA
65 TTCAACTAGCCTAATAAAAGAAATTATAATATCTA
* * * *
1419572 TACAATAAATCTTGAACCGTCCCTCTAGAGCAATTGGTTAAATGGCCCGACTTTATGGATAAGAT
1 TACAATAAAGCTTGAACCGTCCCTCTAGAGCAATTAGTTAAACGCCCCGACTTTATGGATAAGAT
* * **
1419637 TCAGCTAGCCTTATAAAAGTGATTATAATAT
66 TCAACTAGCCTAATAAAAGAAATTATAATAT
1419668 TGAGTTGTCC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 82 0.99
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (99 bp):
TACAATAAAGCTTGAACCGTCCCTCTAGAGCAATTAGTTAAACGCCCCGACTTTATGGATAAGAT
TCAACTAGCCTAATAAAAGAAATTATAATATCTA
Found at i:1420970 original size:85 final size:85
Alignment explanation
Indices: 1420818--1421732 Score: 1037
Period size: 85 Copynumber: 10.7 Consensus size: 85
1420808 AACTATTTGT
* * * *
1420818 AGCATAACTCAAGCCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAACT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
1420883 CAAAGGCATATCCAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * * * * *
1420903 AACATAAATCAAGGCGAGAAGGGTTATCTGTCAGCCAAGACATTTGAGTTCGATTACATTAAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
1420968 CAAAGACATATCAAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * *
1420988 AGCATAACTCAAGGCGAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCAATTACACTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * *
1421053 CAAAGGCACATCGAATTTTC
66 CAAAGGCATATCAAATTTAC
* * **
1421073 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTGGAGTTCGATTACACCCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
**
1421138 TCAAAGGCGCATCAAATTTAC
65 TCAAAGGCATATCAAATTTAC
* * * * *
1421159 AGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAATACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
*
1421224 TCAAAGGCATATCCAATTTAC
65 TCAAAGGCATATCAAATTTAC
* * * * * *
1421245 AGCACAACTCAAGGTGAGAAGGGTTATCTATCAGCCAAGACCTTCGAGTTCGATTATA-TCTAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC-AGC
1421309 TCAAAGGCATATCAAATTTAC
65 TCAAAGGCATATCAAATTTAC
* * * *
1421330 AGAATAGCTCAAGGCGAGAAGGGTTATCTGTCAAGAAAGACCTTCGAGTTCGATTATATTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
1421395 CAAAGGCATATCAAATTCAC
66 CAAAGGCATATCAAATTTAC
* * * * *
1421415 AACATAACTAAAGGCGAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTCGATTACACTT-GG
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACA-TTCAG
*
1421479 TTCAAAGGCATATCAAATTTAC
64 CTCAAAGGCATATCAAATTTAC
** * ***
1421501 AGCATAACTCAAGAAGAGAAGGGTTATCTATCAACCGTGACCTTCGAGTTCGATTACATTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * *
1421566 CAAAAGAACATTAAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * * *
1421586 AGCATAACTCAAGGCGAG-AGTGATTATCTATCAACAAATACCTTTGAGTTCGATTCCATTCAGC
1 AGCATAACTCAAGGCGAGAAG-GGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* * *
1421650 TCAAGGGCATGTCAAATTCAC
65 TCAAAGGCATATCAAATTTAC
* * * * ** * * * * *
1421671 AACATAGCTTAAGTCGAGAAAAGCTACCTGTTAACAAA-AACTATCGAGTTCGATTCCATTCA
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCA
1421733 TCTCGATGAC
Statistics
Matches: 701, Mismatches: 120, Indels: 18
0.84 0.14 0.02
Matches are distributed among these distances:
84 9 0.01
85 468 0.67
86 222 0.32
87 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
CAAAGGCATATCAAATTTAC
Found at i:1421486 original size:342 final size:341
Alignment explanation
Indices: 1420818--1421690 Score: 1121
Period size: 342 Copynumber: 2.6 Consensus size: 341
1420808 AACTATTTGT
* * * *
1420818 AGCATAACTCAAGCCA-AGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAAC
1 AGCATAACTCAAG-AAGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTACATTCAGC
* * * *
1420882 TCAAAGGCATATCCAATTTACAACATAAATCAAGGCGAGAAGGGTTATCTGTCAGCCAAGACATT
65 TCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAGCCAAGACCTT
* * * *
1420947 TGAGTTCGATTACAT-TAAGCTCAAAGACATATCAAATTTACAGCATAACTCAAGGCGAGAAGGG
130 TGAGTTCGATTATATCT-AGCTCAAAGGCATATCAAATTTACAGAATAGCTCAAGGCGAGAAGGG
* * ** *
1421011 TTATCTATCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCGAATTTTCAGC
194 TTATCTATCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCAAATTCACAAC
* *
1421076 ATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTGGAGTTCGATTACACCCAGCTCA
259 ATAACTAAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACCCAGCTCA
*
1421141 AAGGCGCATCAAATTTAC
324 AAGGCACATCAAATTTAC
* * * *
1421159 AGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAATACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGAAGAGAAGGGTTATCTGTCAAC-AAATACCTTCGAGTTCGATTACATTCAGC
* *
1421224 TCAAAGGCATATCCAATTTACAGCACAACTCAAGGTGAGAAGGGTTATCTATCAGCCAAGACCTT
65 TCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAGCCAAGACCTT
*
1421289 CGAGTTCGATTATATCTAGCTCAAAGGCATATCAAATTTACAGAATAGCTCAAGGCGAGAAGGGT
130 TGAGTTCGATTATATCTAGCTCAAAGGCATATCAAATTTACAGAATAGCTCAAGGCGAGAAGGGT
* * * * * *
1421354 TATCTGTCAAGAAAGACCTTCGAGTTCGATTATATTCAGCTCAAAGGCATATCAAATTCACAACA
195 TATCTATCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCAAATTCACAACA
* *** *
1421419 TAACTAAAGGCGAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTCGATTACACTTGGTTCAA
260 TAACTAAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACCCAGCTCAA
*
1421484 AGGCATATCAAATTTAC
325 AGGCACATCAAATTTAC
* **
1421501 AGCATAACTCAAGAAGAGAAGGGTTATCTATCAAC-CGTGACCTTCGAGTTCGATTACATTCAGC
1 AGCATAACTCAAGAAGAGAAGGGTTATCTGTCAACAAAT-ACCTTCGAGTTCGATTACATTCAGC
* * * ** * * * *
1421565 TCAAAAGAACATTAAATTTACAGCATAACTCAAGGCGAG-AGTGATTATCTATCAACAAATACCT
65 TCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAG-GGTTATCTATCAGCCAAGACCT
* * * * *
1421629 TTGAGTTCGATTCCAT-TC-AGCTCAAGGGCATGTCAAATTCACA-ACATAGCTTAAGTCGAGAA
129 TTGAGTTCGATT--ATATCTAGCTCAAAGGCATATCAAATTTACAGA-ATAGCTCAAGGCGAGAA
1421691 AAGCTACCTG
Statistics
Matches: 462, Mismatches: 62, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
340 5 0.01
341 152 0.33
342 302 0.65
343 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (341 bp):
AGCATAACTCAAGAAGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTACATTCAGCT
CAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAGCCAAGACCTTT
GAGTTCGATTATATCTAGCTCAAAGGCATATCAAATTTACAGAATAGCTCAAGGCGAGAAGGGTT
ATCTATCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCAAATTCACAACAT
AACTAAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACCCAGCTCAAA
GGCACATCAAATTTAC
Found at i:1421491 original size:256 final size:257
Alignment explanation
Indices: 1420818--1421725 Score: 1148
Period size: 256 Copynumber: 3.5 Consensus size: 257
1420808 AACTATTTGT
* * * *
1420818 AGCATAACTCAAGCCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAACT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * * * * *
1420883 CAAAGGCATATCCAATTTACAACATAAATCAAGGCGAGAAGGGTTATCTGTCAGC-CAAGACATT
66 CAAAGGCATATCAAATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAATACCTT
* * *
1420947 TGAGTTCGATTACA-TTAAGCTCAAAGACATATCAAATTTACAGCATAACTCAAGGCGAGAAGGG
131 CGAGTTCGATTACACTT-AGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGG
* * *
1421011 TTATCTATCAACCAAGACCTTCGAGTTCAATTACA-CTCAGCTCAAAGGCACATCGAATTTTC
195 TTATCTATCAACCAAGACCTTCGAGTTCGATTACATCTCAGCTCAAAGGCACATCAAATTTAC
* * **
1421073 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTGGAGTTCGATTACACCCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
** * * * * *
1421138 TCAAAGGCGCATCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAATACCT
65 TCAAAGGCATATCAAATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAATACCT
* * * *
1421203 TCGAGTTCGATTACACTCAGCTCAAAGGCATATCCAATTTACAGCACAACTCAAGGTGAGAAGGG
130 TCGAGTTCGATTACACTTAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGG
* * *
1421268 TTATCTATCAGCCAAGACCTTCGAGTTCGATTATATCT-AGCTCAAAGGCATATCAAATTTAC
195 TTATCTATCAACCAAGACCTTCGAGTTCGATTACATCTCAGCTCAAAGGCACATCAAATTTAC
* * * *
1421330 AGAATAGCTCAAGGCGAGAAGGGTTATCTGTCAAGAAAGACCTTCGAGTTCGATTATATTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
1421395 CAAAGGCATATCAAATTCACAACATAACTAAAGGCGAGAAGGGTTATCTGCCAACAAAATACCTT
66 CAAAGGCATATCAAATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAATACCTT
* * *
1421460 CGAGTTCGATTACACTTGGTTCAAAGGCATATCAAATTTACAGCATAACTCAAGAAGAGAAGGGT
131 CGAGTTCGATTACACTTAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGT
** * * *
1421525 TATCTATCAACCGTGACCTTCGAGTTCGATTACAT-TCAGCTCAAAAGAACATTAAATTTAC
196 TATCTATCAACCAAGACCTTCGAGTTCGATTACATCTCAGCTCAAAGGCACATCAAATTTAC
* * * * *
1421586 AGCATAACTCAAGGCGAG-AGTGATTATCTATCAACAAATACCTTTGAGTTCGATTCCATTCAGC
1 AGCATAACTCAAGGCGAGAAG-GGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* * * * * ** * * *
1421650 TCAAGGGCATGTCAAATTCACAACATAGCTTAAGTCGAGAAAAGCTACCTGTTAACAAAA-A-CT
65 TCAAAGGCATATCAAATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAATACCT
1421713 ATCGAGTTCGATT
130 -TCGAGTTCGATT
1421726 CCATTCATCT
Statistics
Matches: 562, Mismatches: 84, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
254 2 0.00
255 48 0.09
256 363 0.65
257 146 0.26
258 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (257 bp):
AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
CAAAGGCATATCAAATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAATACCTT
CGAGTTCGATTACACTTAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGT
TATCTATCAACCAAGACCTTCGAGTTCGATTACATCTCAGCTCAAAGGCACATCAAATTTAC
Found at i:1423139 original size:21 final size:20
Alignment explanation
Indices: 1423094--1423139 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
1423084 TTAATTTTAT
1423094 AATG-ACATTTATATATATA
1 AATGTACATTTATATATATA
1423113 ACATGTACATATTATAT-TATTA
1 A-ATGTACAT-TTATATATA-TA
1423135 AATGT
1 AATGT
1423140 TATTTTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 10 0.43
22 9 0.39
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (20 bp):
AATGTACATTTATATATATA
Found at i:1423519 original size:68 final size:68
Alignment explanation
Indices: 1423411--1423556 Score: 256
Period size: 68 Copynumber: 2.1 Consensus size: 68
1423401 CATTAAGTTA
* *
1423411 ATATATATTTATATATAAATGCTTGTTGTACAAATAGTGGCTTTTTATGTCTTGTATTCATGTGC
1 ATATATATATATATATAAATGCTTGTTGTACAAATAGTGGCTTTTTATGTCTTGTATTCATGTAC
1423476 TAT
66 TAT
* *
1423479 ATATATATATATATATAAATGCTTGTTGTATAAATGGTGGCTTTTTATGTCTTGTATTCATGTAC
1 ATATATATATATATATAAATGCTTGTTGTACAAATAGTGGCTTTTTATGTCTTGTATTCATGTAC
1423544 TAT
66 TAT
1423547 ATATATATAT
1 ATATATATAT
1423557 GTATGTGTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (68 bp):
ATATATATATATATATAAATGCTTGTTGTACAAATAGTGGCTTTTTATGTCTTGTATTCATGTAC
TAT
Found at i:1423832 original size:169 final size:169
Alignment explanation
Indices: 1423553--1423895 Score: 668
Period size: 169 Copynumber: 2.0 Consensus size: 169
1423543 CTATATATAT
*
1423553 ATATGTATGTGTTGGCATATAAATGGTTATTTTGCATCTTATGAACCCATGCATAATGAATAGTT
1 ATATGTATGTGTTGACATATAAATGGTTATTTTGCATCTTATGAACCCATGCATAATGAATAGTT
1423618 ATATATATGTATGCACCATGCATGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGAGTTTC
66 ATATATATGTATGCACCATGCATGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGAGTTTC
1423683 TGTCTTTTAAGTTCATCAATTAATTTAATGTGTAAAGTC
131 TGTCTTTTAAGTTCATCAATTAATTTAATGTGTAAAGTC
1423722 ATATGTATGTGTTGACATATAAATGGTTATTTTGCATCTTATGAACCCATGCATAATGAATAGTT
1 ATATGTATGTGTTGACATATAAATGGTTATTTTGCATCTTATGAACCCATGCATAATGAATAGTT
*
1423787 ATATATATGTATGCACCATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGAGTTTC
66 ATATATATGTATGCACCATGCATGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGAGTTTC
1423852 TGTCTTTTAAGTTCATCAATTAATTTAATGTGTAAAGTC
131 TGTCTTTTAAGTTCATCAATTAATTTAATGTGTAAAGTC
1423891 ATATG
1 ATATG
1423896 AATTTTATTT
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 172 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (169 bp):
ATATGTATGTGTTGACATATAAATGGTTATTTTGCATCTTATGAACCCATGCATAATGAATAGTT
ATATATATGTATGCACCATGCATGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGAGTTTC
TGTCTTTTAAGTTCATCAATTAATTTAATGTGTAAAGTC
Found at i:1428742 original size:10 final size:9
Alignment explanation
Indices: 1428710--1428778 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 9
1428700 GGCTGGAAAT
1428710 CGGTTTGAC
1 CGGTTTGAC
1428719 CGGTTTTCGAC
1 CGG-TTT-GAC
1428730 CGGTTCTGAC
1 CGGTT-TGAC
1428740 CGGTTTCGAC
1 CGGTTT-GAC
* *
1428750 CTGTTCGAAC
1 CGGTTTG-AC
*
1428760 CGGTTTGAT
1 CGGTTTGAC
*
1428769 CGGTCTGAC
1 CGGTTTGAC
1428778 C
1 C
1428779 CGACCCGACT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
9 14 0.29
10 27 0.56
11 7 0.15
ACGTcount: A:0.12, C:0.28, G:0.29, T:0.32
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:1428746 original size:20 final size:20
Alignment explanation
Indices: 1428710--1428778 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1428700 GGCTGGAAAT
1428710 CGGTT-TGACCGGTTTTCGAC
1 CGGTTCTGACCGG-TTTCGAC
1428730 CGGTTCTGACCGGTTTCGAC
1 CGGTTCTGACCGGTTTCGAC
* *
1428750 CTGTTC-GAACCGGTTT-GAT
1 CGGTTCTG-ACCGGTTTCGAC
1428769 CGG-TCTGACC
1 CGGTTCTGACC
1428779 CGACCCGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 5 0.12
19 6 0.14
20 25 0.58
21 7 0.16
ACGTcount: A:0.12, C:0.28, G:0.29, T:0.32
Consensus pattern (20 bp):
CGGTTCTGACCGGTTTCGAC
Found at i:1428819 original size:22 final size:22
Alignment explanation
Indices: 1428789--1428831 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1428779 CGACCCGACT
* *
1428789 GACCTGACCGGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1428811 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1428832 GTGACCGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.44, G:0.26, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1430590 original size:2 final size:2
Alignment explanation
Indices: 1430583--1430683 Score: 111
Period size: 2 Copynumber: 52.5 Consensus size: 2
1430573 ATATCTTTAT
* * * * *
1430583 TA TA TA TA TA TA TA TA TA TA TA TA TC T- TT TA T- TC CA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1430623 T- TA GA TA CA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1430663 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1430684 TTTTATTATT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
1 4 0.05
2 80 0.95
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1430754 original size:35 final size:34
Alignment explanation
Indices: 1430685--1430761 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 34
1430675 TATATATATT
1430685 TTTA-TTA-TTTTATTTTCCTTATATTTTATTTA
1 TTTATTTATTTTTATTTTCCTTATATTTTATTTA
*
1430717 TTTATTTATTTTTATTTTCCTCCTGT-TTTTATTTA
1 TTTATTTATTTTTATTTTCCT--TATATTTTATTTA
1430752 TTTATTTATT
1 TTTATTTATT
1430762 ATGTATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 4 0.10
33 3 0.08
34 12 0.30
35 19 0.47
36 2 0.05
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (34 bp):
TTTATTTATTTTTATTTTCCTTATATTTTATTTA
Found at i:1430773 original size:3 final size:3
Alignment explanation
Indices: 1430757--1430791 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1430747 ATTTATTTAT
1430757 TTA TTA TGTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
1430792 CCTTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 26 0.87
4 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1430925 original size:15 final size:15
Alignment explanation
Indices: 1430905--1430950 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1430895 TCATTTATTT
1430905 TATTTACTTTTTTTA
1 TATTTACTTTTTTTA
1430920 TATTTACTTTATTTT-
1 TATTTACTTT-TTTTA
*
1430935 TATTTACTTTCTTTA
1 TATTTACTTTTTTTA
1430950 T
1 T
1430951 TTTTTCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 3 0.11
15 21 0.75
16 4 0.14
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTACTTTTTTTA
Found at i:1430934 original size:19 final size:19
Alignment explanation
Indices: 1430898--1430955 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
1430888 CTTTGTTTCA
1430898 TTTAT-TTTA-TTTACTTTT
1 TTTATATTTACTTTA-TTTT
1430916 TTTATATTTACTTTATTTT
1 TTTATATTTACTTTATTTT
1430935 TATT-TACTTT-CTTTATTTT
1 T-TTATA-TTTACTTTATTTT
1430954 TT
1 TT
1430956 CCTTTATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
18 6 0.17
19 21 0.58
20 9 0.25
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATATTTACTTTATTTT
Found at i:1430968 original size:30 final size:30
Alignment explanation
Indices: 1430893--1430983 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
1430883 CTTATCTTTG
* * *
1430893 TTTCATTTATTTTATTTACTTTTTTTA-TA
1 TTTCCTTTATTTTATTTACTTTCTTTATTT
*
1430922 TTTACTTTATTTTTATTTACTTTCTTTATTT
1 TTTCCTTTA-TTTTATTTACTTTCTTTATTT
* * *
1430953 TTTCCTTTATCTTATTTTCTTTGTTTCATTT
1 TTTCCTTTATTTTATTTACTTTCTTT-ATTT
1430984 GTTTTTATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 7 0.14
30 31 0.61
31 13 0.25
ACGTcount: A:0.15, C:0.11, G:0.01, T:0.73
Consensus pattern (30 bp):
TTTCCTTTATTTTATTTACTTTCTTTATTT
Found at i:1431007 original size:83 final size:83
Alignment explanation
Indices: 1430887--1431041 Score: 206
Period size: 83 Copynumber: 1.9 Consensus size: 83
1430877 GTTTTCCTTA
* * *
1430887 TCTTTGTTTCATTTATTTTATTTACTTTTTTTATATTTACTTTATTTTTATTTACTTTCTTTAT-
1 TCTTTGTTTCATTTATTTTATTTACTTTATTTATATTTACCTTA-TTTTATTTACTTTCATTATC
1430951 TTTTTCCTTTATCTTATTT
65 TTTTTCCTTTATCTTATTT
* * * * *
1430970 TCTTTGTTTCATTTGTTTTTATTTCCTTTATTT-TATTTTCCTTATTTTATTTATTTTCATTGTC
1 TCTTTGTTTCATTT-ATTTTATTTACTTTATTTATATTTACCTTATTTTATTTACTTTCATTATC
1431034 TTTTTCCT
65 TTTTTCCT
1431042 CTAGCACGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 16 0.26
83 31 0.50
84 15 0.24
ACGTcount: A:0.14, C:0.12, G:0.03, T:0.72
Consensus pattern (83 bp):
TCTTTGTTTCATTTATTTTATTTACTTTATTTATATTTACCTTATTTTATTTACTTTCATTATCT
TTTTCCTTTATCTTATTT
Found at i:1435025 original size:2 final size:2
Alignment explanation
Indices: 1435020--1435046 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1435010 TATATATATA
1435020 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1435047 TGGCATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1438525 original size:90 final size:89
Alignment explanation
Indices: 1438367--1438654 Score: 441
Period size: 90 Copynumber: 3.2 Consensus size: 89
1438357 AGCAAGATGA
** * *
1438367 TAAGTCCTTCGTACCATCCATAAGACCTTCAGTACAGGATATTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
*
1438432 AAGCCTTCGGGGATTTCTTGATTTG
66 AAGCCTTCGGGG-TTTCTTGATTTT
* *
1438457 TAAGTCCTTCGGGCAATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAATT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
1438522 AAGCCTTCGGGGGTTTCTTGATTTT
66 AAGCCTTC-GGGGTTTCTTGATTTT
* **
1438547 TAAGTCATTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTTGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
1438612 AAGCCTTCAGGGGTTTCTTGATTTT
66 AAGCCTTC-GGGGTTTCTTGATTTT
* *
1438637 TAAATCCTTCGGGTCATC
1 TAAGTCCTTCGGGCCATC
1438655 AGTAAGTCTT
Statistics
Matches: 181, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 177 0.98
91 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (89 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
AAGCCTTCGGGGTTTCTTGATTTT
Found at i:1438689 original size:42 final size:42
Alignment explanation
Indices: 1438630--1438711 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
1438620 AGGGGTTTCT
*
1438630 TGATTTTTAAATCCTTCGGGTCATC-AGTAAGTCTTTCGAGCA
1 TGATTCTTAAATCCTTCGGGTCATCTA-TAAGTCTTTCGAGCA
1438672 TGATTCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAG
1 TGATTCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAG
1438712 AAAGATGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (42 bp):
TGATTCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCA
Found at i:1446235 original size:31 final size:28
Alignment explanation
Indices: 1446199--1446257 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1446189 TTATTGGAAA
*
1446199 ATTTTGTTAAAAAAATATTTAATGACATT
1 ATTTT-TTGAAAAAATATTTAATGACATT
* *
1446228 ATTTTTTGATAAAATATTTAATGATATT
1 ATTTTTTGAAAAAATATTTAATGACATT
1446256 AT
1 AT
1446258 ATGTGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (28 bp):
ATTTTTTGAAAAAATATTTAATGACATT
Found at i:1446512 original size:7 final size:7
Alignment explanation
Indices: 1446500--1446530 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1446490 AAATTATATT
1446500 AAATTTA
1 AAATTTA
1446507 AAATTTA
1 AAATTTA
1446514 AAATTTA
1 AAATTTA
1446521 AAATTTA
1 AAATTTA
1446528 AAA
1 AAA
1446531 AAAAATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATTTA
Found at i:1448123 original size:2 final size:2
Alignment explanation
Indices: 1448116--1448147 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1448106 CCTTATAACT
1448116 TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1448148 ATGTACGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1449054 original size:145 final size:145
Alignment explanation
Indices: 1448756--1449234 Score: 423
Period size: 145 Copynumber: 3.3 Consensus size: 145
1448746 TGTTAACATC
* * * * * * ** * * *
1448756 GCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATTCCGATCACCGGTGAGAGGCCAAATATC
1 GCGCAACTTTTCACCGTTCGGAATATTAATCGGAGATCCCGATCGCAGGAAAGAGACCAAAAACC
* ** * * * * * * * * * * *
1448821 GTCTGGATTTGTTTTCTCCGATTCACCACCGTCTACCGTGTGATCGTCATGAAATTTCAGTATGC
66 GT-TCGACGTATTTTCTTCGATCCACCGCCGTCCACCGTCTGATCATCCTGAATTTTAAGTATGT
*
1448886 TGTTCGTG-T-TTACATT
130 TGTTCGTGATGGT-C-TT
* * * * * * * *
1448902 ACACAACTTTTCACTGTT-TGAAGTATTGATCGGAGATCCCGATCGCCGGCAAA-AGGCTAAAAA
1 GCGCAACTTTTCACCGTTCGGAA-TATTAATCGGAGATCCCGATCGCAGG-AAAGAGACCAAAAA
** * *
1448965 CCGTTCGACGTATTTTC-TCAGATCTGCCGTCGTCCACCGTCTGATCATCCTGAATTTTCAGTAT
64 CCGTTCGACGTATTTTCTTC-GATCCACCGCCGTCCACCGTCTGATCATCCTGAATTTTAAGTAT
*
1449029 GTTGTTTGTGATGGTCTCT
128 GTTGTTCGTGATGGTCT-T
*
1449048 -CGCAACTTTTGACCGTTCGGAATATTAATCGGAGATCCCGATCGCAGGAAAGAGACCAAAAACC
1 GCGCAACTTTTCACCGTTCGGAATATTAATCGGAGATCCCGATCGCAGGAAAGAGACCAAAAACC
* * *
1449112 GTTCGGCTTATTTTCTTCGATCCACCGCCGTCCACCGTCTGATCGTCCTGAATTTTAAGTATGTT
66 GTTCGACGTATTTTCTTCGATCCACCGCCGTCCACCGTCTGATCATCCTGAATTTTAAGTATGTT
1449177 GTTCGTGATGGTCTT
131 GTTCGTGATGGTCTT
* * *
1449192 GCGCAACTTTTGACCGTTCGGAATGA-TGATCGGAGATTCCGAT
1 GCGCAACTTTTCACCGTTCGGAAT-ATTAATCGGAGATCCCGAT
1449235 AAACGACGAG
Statistics
Matches: 273, Mismatches: 49, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
144 5 0.02
145 209 0.77
146 57 0.21
147 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (145 bp):
GCGCAACTTTTCACCGTTCGGAATATTAATCGGAGATCCCGATCGCAGGAAAGAGACCAAAAACC
GTTCGACGTATTTTCTTCGATCCACCGCCGTCCACCGTCTGATCATCCTGAATTTTAAGTATGTT
GTTCGTGATGGTCTT
Found at i:1450049 original size:112 final size:111
Alignment explanation
Indices: 1449795--1450132 Score: 545
Period size: 112 Copynumber: 3.0 Consensus size: 111
1449785 TTCAGGGAAG
* * *
1449795 ATTGAATCTGGGAAGACTTGTTCCATTGTCACTCATGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCTGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
1449860 TGTTCCGCTTCTTCTGA-GGAATATCAGATCTGGGAAAGTTGATCC
66 TGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
*
1449905 ATTGAATCATGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
1 ATTGAATC-TGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
1449970 CTGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
65 CTGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
* *
1450017 ATTGAATCGTGGCAAGACTTGTTTCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGAT
1 ATTGAATC-TGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* * *
1450082 TTGTTCCGCTTCTTCTAAAGGGAATATCAGATCT-GGATGAGTTGATCC
65 CTGTTCCGCTTCTTCT-GAGGGAATATCAGATCTGGGA-AAGTTGATCC
1450130 ATT
1 ATT
1450133 CTGCTGTCAC
Statistics
Matches: 213, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
110 8 0.04
111 70 0.33
112 107 0.50
113 28 0.13
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (111 bp):
ATTGAATCTGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
TGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
Found at i:1450275 original size:134 final size:134
Alignment explanation
Indices: 1450017--1450508 Score: 781
Period size: 134 Copynumber: 3.7 Consensus size: 134
1450007 AAGTTGATCC
* * * * *
1450017 ATTGAATCGTGGCAAGACTTGTTTCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGAT
1 ATTGAATCATGG-TAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGAT
* *
1450082 TTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAG
65 CTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAG
*
1450147 GGAAA
130 GGAAG
*
1450152 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGAAAGAGAATGATC
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * * *
1450217 TGTTCCACATCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGTTGTCACTCAGT
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAGG
1450282 GAAG
131 GAAG
* * *
1450286 ATTGAATCATGCTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAGTCTTGAAA-AAAATGATC
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
*
1450350 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAGG
1450415 GAAG
131 GAAG
*
1450419 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATATTGAAAGAG-ATGAAT
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATG-AT
*
1450483 CTATTCCGCTTCTTCTGAAGGGAATA
65 CTGTTCCGCTTCTTCTGAAGGGAATA
1450509 CCTGTAACAC
Statistics
Matches: 328, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
133 127 0.39
134 190 0.58
135 11 0.03
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (134 bp):
ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAGG
GAAG
Found at i:1450507 original size:267 final size:269
Alignment explanation
Indices: 1450017--1450508 Score: 810
Period size: 267 Copynumber: 1.8 Consensus size: 269
1450007 AAGTTGATCC
* * * *
1450017 ATTGAATCGTGGCAAGACTTGTTTCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGAT
1 ATTGAATCATGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAAAATGAT
* *
1450082 TTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAG
66 CTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAG
*
1450147 GGAAAATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGAAAGAGAA
131 GGAAAATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGAGAATATCAAATATTGAAAGAGAA
*
1450212 TGATCTGTTCCACATCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGTTGTCAC
196 TGATCTATTCCACATCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGTTGTCAC
1450277 TCAGTGAAG
261 TCAGTGAAG
* * *
1450286 ATTGAATCAT-GCTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAGTCTTGAAA-AAAATGAT
1 ATTGAATCATGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAAAATGAT
*
1450349 CTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAG
66 CTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAG
* *
1450414 GGAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATATTGAAAGAG-A
131 GGAAAATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGAGAATATCAAATATTGAAAGAGAA
* *
1450478 TGAATCTATTCCGCTTCTTCTGAAGGGAATA
196 TG-ATCTATTCCACATCTTCTGAAGGGAATA
1450509 CCTGTAACAC
Statistics
Matches: 206, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
266 3 0.01
267 153 0.74
268 41 0.20
269 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (269 bp):
ATTGAATCATGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAAAATGAT
CTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAG
GGAAAATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGAGAATATCAAATATTGAAAGAGAA
TGATCTATTCCACATCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCTGTTGTCAC
TCAGTGAAG
Found at i:1451162 original size:30 final size:30
Alignment explanation
Indices: 1451126--1451198 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
1451116 CCCGAAGGAC
1451126 CTATCCAGAGGTCATAAAGATCCTCGCTAA
1 CTATCCAGAGGTCATAAAGATCCTCGCTAA
*
1451156 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGCTAA
* *
1451186 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1451199 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGCTAA
Found at i:1451215 original size:30 final size:30
Alignment explanation
Indices: 1451172--1451265 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
1451162 AGAGGTCATA
* * *
1451172 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
1451202 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
1451233 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
1451264 AA
1 AA
1451266 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:1451272 original size:31 final size:30
Alignment explanation
Indices: 1451181--1451276 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
1451171 AAAGATCCTC
* * *
1451181 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
1451211 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
1451242 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
1451273 GGTA
1 GGTA
1451277 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:1452283 original size:30 final size:30
Alignment explanation
Indices: 1452249--1452321 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
1452239 ACCGAAGGAC
1452249 CTATCCAGAGGTCATAAAGATCCTCGCTAA
1 CTATCCAGAGGTCATAAAGATCCTCGCTAA
*
1452279 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGCTAA
* *
1452309 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1452322 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGCTAA
Found at i:1452338 original size:30 final size:30
Alignment explanation
Indices: 1452295--1452388 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
1452285 AGAGGTCATA
* * *
1452295 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
1452325 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
1452356 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
1452387 AA
1 AA
1452389 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:1452395 original size:31 final size:30
Alignment explanation
Indices: 1452304--1452399 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
1452294 AAAGATCCTC
* * *
1452304 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
1452334 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
1452365 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
1452396 GGTA
1 GGTA
1452400 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:1453405 original size:30 final size:30
Alignment explanation
Indices: 1453371--1453443 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
1453361 ACCGAAGGAC
1453371 CTATCCAGAGGTCATAAAGATCCTCGCTAA
1 CTATCCAGAGGTCATAAAGATCCTCGCTAA
*
1453401 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGCTAA
* *
1453431 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1453444 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGCTAA
Found at i:1453460 original size:30 final size:30
Alignment explanation
Indices: 1453417--1453510 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
1453407 AGAGGTCATA
* * *
1453417 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
1453447 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
1453478 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
1453509 AA
1 AA
1453511 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:1453517 original size:31 final size:30
Alignment explanation
Indices: 1453426--1453521 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
1453416 AAAGATCCTC
* * *
1453426 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
1453456 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
1453487 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
1453518 GGTA
1 GGTA
1453522 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:1458112 original size:30 final size:30
Alignment explanation
Indices: 1458076--1458148 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
1458066 CCCGAAGGAC
1458076 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1458106 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
1458136 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1458149 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1458165 original size:30 final size:30
Alignment explanation
Indices: 1458122--1458215 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
1458112 AGAGGTCATA
* * *
1458122 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
1458152 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
1458183 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
1458214 AA
1 AA
1458216 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:1458222 original size:31 final size:30
Alignment explanation
Indices: 1458131--1458225 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 30
1458121 AAAGATCCTC
* * *
1458131 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
1458161 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
1458192 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
1458223 GGT
1 GGT
1458226 GGTTCTTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 45 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:1460477 original size:43 final size:43
Alignment explanation
Indices: 1460419--1460540 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
1460409 GCTTGTGTGT
* * * * **
1460419 ACGATTTCCTTCGTCGTGAAGTTGAAACCGTGGATGTGTGGGC
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGCATGGGC
* * *
1460462 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGCATGGGC
*
1460505 ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATG
1460541 GCGCATTCGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (43 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGCATGGGC
Found at i:1460889 original size:32 final size:32
Alignment explanation
Indices: 1460815--1460876 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1460805 TTGCATCAGG
* *
1460815 ATGTTGAATCCCCAAATATGCCCCAATATTCA
1 ATGTTGAATCTCCAAATATGCCCCAACATTCA
1460847 ATGTTGAATCTCCAAATATGCCCCAACATT
1 ATGTTGAATCTCCAAATATGCCCCAACATT
1460877 TGTTGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (32 bp):
ATGTTGAATCTCCAAATATGCCCCAACATTCA
Found at i:1461964 original size:19 final size:20
Alignment explanation
Indices: 1461926--1461973 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
1461916 GATTATCGTC
1461926 CTTTTTTTTTGCTCTTTGTTG
1 CTTTTTTTTTGCTC-TTGTTG
*
1461947 CTTTTTTTTTGCTC-TGTTT
1 CTTTTTTTTTGCTCTTGTTG
1461966 CTTTTTTT
1 CTTTTTTT
1461974 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.75
Consensus pattern (20 bp):
CTTTTTTTTTGCTCTTGTTG
Found at i:1461988 original size:17 final size:18
Alignment explanation
Indices: 1461963--1461996 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1461953 TTTTGCTCTG
*
1461963 TTTCTTTTTTTCTTTTTT
1 TTTCTTTTTCTCTTTTTT
1461981 TTTC-TTTTCTCTTTTT
1 TTTCTTTTTCTCTTTTT
1461997 GTTCTGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTCTTTTTCTCTTTTTT
Found at i:1465403 original size:55 final size:55
Alignment explanation
Indices: 1465341--1465482 Score: 198
Period size: 55 Copynumber: 2.6 Consensus size: 55
1465331 CAACTTCAAA
* * *
1465341 CTTCATTCATCGGATGTCTTTCTTCATGGATCGGTCTTCAATCA-GTTTCAGATTT
1 CTTCATTCATCGGATGTCATTCTTCATGAATCGGTCTTCAATCAGGTTT-AAATTT
* *
1465396 CTTCATTCATCGGATGTCCA-TCTTCATGAATCGTTTTTCAATCAGGTTTAAATTT
1 CTTCATTCATCGGATGT-CATTCTTCATGAATCGGTCTTCAATCAGGTTTAAATTT
*
1465451 CTTCATTCATCGGACGTCATTCTTCATGAATC
1 CTTCATTCATCGGATGTCATTCTTCATGAATC
1465483 ACTTGAATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
54 2 0.03
55 71 0.91
56 5 0.06
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (55 bp):
CTTCATTCATCGGATGTCATTCTTCATGAATCGGTCTTCAATCAGGTTTAAATTT
Found at i:1468401 original size:145 final size:145
Alignment explanation
Indices: 1468065--1468546 Score: 508
Period size: 145 Copynumber: 3.3 Consensus size: 145
1468055 TTACTGCGCT
* * * * *
1468065 GCCGTGCCACCGTCCGATTGTCCTGAAATTTCAGTATGCTGTTTGTGTTAACATCGCGCAACTTT
1 GCCGT-CCACCGTCTGATCGTCCTGAATTTTCAGTATGCTGTTCGTGTTTACATCGCGCAACTTT
* * * * * * * *
1468130 TGACTGTTCAGAATATTGATCGGAGATTCCGATCACCGGCGAGAGGCCAAATATCGTCTGGATTT
65 TGACTGTTCAGAATATTAATCGGAGATCCCGATCGCCGGCAAGAGGCCAAAAACCGT-TCGACTT
*
1468195 GTTTTCTCCGAT-TCACC
129 ATTTTCTCCGATCT-ACC
* * * * ** *
1468212 ACCGTCTACCGTGTGATCGTCATGAAATTTT-AGTATGCTG-TCGTGTTTACATTACACAACTTT
1 GCCGTCCACCGTCTGATCGTCCTG-AATTTTCAGTATGCTGTTCGTGTTTACATCGCGCAACTTT
* * * * *
1468275 TCACTGTT-TGAAGTATTAATCGGAGATCCCGATCGCCGGCAAAAGGCTAAAAACCGTTCAACTT
65 TGACTGTTCAGAA-TATTAATCGGAGATCCCGATCGCCGGCAAGAGGCCAAAAACCGTTCGACTT
*
1468339 ATTTTCTCCGATCTGCC
129 ATTTTCTCCGATCTACC
* * *
1468356 GTCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGT-C-TCGCGCAACTT
1 GCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGCTGTTCGTG-T-TTACATCGCGCAACTT
* * * * * *
1468419 TTGACCGTTCAGAATGTTAATCAGAGATCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGTCTT
64 TTGACTGTTCAGAATATTAATCGGAGATCCCGATCGCCGGCAAGAGGCCAAAAACCGTTCGACTT
*
1468484 ATTTTCTCCGATCCACC
129 ATTTTCTCCGATCTACC
* *
1468501 GCCGTCCACCGTCTGATCGTCCTGAATTTTTAGTATGTTGTTCGTG
1 GCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGCTGTTCGTG
1468547 ATGGTCTTGC
Statistics
Matches: 275, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
143 6 0.02
144 47 0.17
145 184 0.67
146 28 0.10
147 10 0.04
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (145 bp):
GCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGCTGTTCGTGTTTACATCGCGCAACTTTT
GACTGTTCAGAATATTAATCGGAGATCCCGATCGCCGGCAAGAGGCCAAAAACCGTTCGACTTAT
TTTCTCCGATCTACC
Found at i:1468591 original size:290 final size:288
Alignment explanation
Indices: 1468063--1468598 Score: 618
Period size: 290 Copynumber: 1.9 Consensus size: 288
1468053 TGTTACTGCG
* * *
1468063 CTGCCGTGCCACCGTCCGATTGTCCTGAAATTTCAGTATGCTGTTTGTGTTAACATCGCGCAACT
1 CTGCCGTGCCACCGTCCGATCGTCCTGAAATTTCAGTATGCTGTTCGTGTGAACATCGCGCAACT
* * * * * * * * * *
1468128 TTTGACTGTTCAGAATATTGATCGGAGATTCCGATCACCGGCGAGAGGCCAAATATCGTCTGGAT
66 TTTGACCGTTCAGAATATTAATCAGAGATCCCGATCACAGGCAAGAGACCAAAAACCGTCTCGAT
* * * *
1468193 TTGTTTTCTCCGATTCACCACCGTCTACCGTGTGATCGTCATGAAATTTTAGTATGCTGTCGTGT
131 TTATTTTCTCCGATCCACCACCGTCCACCGTCTGATCGTCATGAAATTTTAGTATGCTGTCGTGT
* * * *
1468258 TTACATTACACAACTTTTCACTGTTTGAAGTATTAATCGGAGATCCCGATCGCCGGCAAAAGGCT
196 GTACATTACACAACTTTTAACCGTTGGAAGTATTAATCGGAGATCCCGATCGCCGGCAAAAGGCT
1468323 AAAAACCGTTCAACTTATTTTCTCCGAT
261 AAAAACCGTTCAACTTATTTTCTCCGAT
* * * **
1468351 CTGCCGTCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTC-TCGCGCA
1 CTGCCGT-G-CCACCGTCCGATCGTCCTGAAATTTCAGTATGCTGTTCGTG-TGAACATCGCGCA
* *
1468415 ACTTTTGACCGTTCAGAATGTTAATCAGAGATCCCGATCGCAGGCAAGAGACCAAAAACCGT-TC
63 ACTTTTGACCGTTCAGAATATTAATCAGAGATCCCGATCACAGGCAAGAGACCAAAAACCGTCTC
* * * *
1468479 G-TCTTATTTTCTCCGATCCACCGCCGTCCACCGTCTGATCGTCCTGAATTTTTAGTATGTTGTT
128 GAT-TTATTTTCTCCGATCCACCACCGTCCACCGTCTGATCGTCATGAAATTTTAGTATGCTG-T
* * * *
1468543 CGTGATGGT-C-TTGCGCAACTTTTAACCGTTCGGAA-TGA-TGATCGGAGATTCCGATC
191 CGTG-T-GTACATTACACAACTTTTAACCGTT-GGAAGT-ATTAATCGGAGATCCCGATC
1468599 AACGACGAGA
Statistics
Matches: 203, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
288 8 0.04
289 54 0.27
290 132 0.65
291 8 0.04
292 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (288 bp):
CTGCCGTGCCACCGTCCGATCGTCCTGAAATTTCAGTATGCTGTTCGTGTGAACATCGCGCAACT
TTTGACCGTTCAGAATATTAATCAGAGATCCCGATCACAGGCAAGAGACCAAAAACCGTCTCGAT
TTATTTTCTCCGATCCACCACCGTCCACCGTCTGATCGTCATGAAATTTTAGTATGCTGTCGTGT
GTACATTACACAACTTTTAACCGTTGGAAGTATTAATCGGAGATCCCGATCGCCGGCAAAAGGCT
AAAAACCGTTCAACTTATTTTCTCCGAT
Found at i:1470345 original size:240 final size:240
Alignment explanation
Indices: 1469922--1470402 Score: 867
Period size: 240 Copynumber: 2.0 Consensus size: 240
1469912 GAAATACCAG
1469922 TAGTTGTCCCCAAAGCATGATTGAGAGAACTATACCATTAATTCCGTGGTAAATCAACATTGCCT
1 TAGTTGTCCCCAAAGCATGATTGAGAGAACTATACCATTAATTCCGTGGTAAATCAACATTGCCT
1469987 TAGTTGTGAAATCAGAATGCAATCAAACAATCCATTTATTGGACTTGATTAAACTACGCGATTAA
66 TAGTTGTGAAATCAGAATGCAATCAAACAATCCATTTATTGGACTTGATTAAACTACGCGATTAA
*
1470052 TTAAGGTTTCCTCTATCCTAAAGTATCTAATTATGTATTTTAAAGAACCTAGAGGTCTAAACCTA
131 TTAAGGTTTCCTCTATCCTAAAGTATCCAATTATGTATTTTAAAGAACCTAGAGGTCTAAACCTA
1470117 AAAATATAGACTCTAATATTAAACCTATATAATTTTATCCAATTA
196 AAAATATAGACTCTAATATTAAACCTATATAATTTTATCCAATTA
* *
1470162 TAGTTGTCCCCAAAGCATGATT-ACGGGAACTATACCATTAATTTCGTGGTAAATCAACATTGCC
1 TAGTTGTCCCCAAAGCATGATTGA-GAGAACTATACCATTAATTCCGTGGTAAATCAACATTGCC
*
1470226 TTAGTTGTGAAAT-TGCAATGCAATCAAACAATCCATTTATTGGACTTGATTAAACTACGCGATT
65 TTAGTTGTGAAATCAG-AATGCAATCAAACAATCCATTTATTGGACTTGATTAAACTACGCGATT
*
1470290 AATTAATGTTTCCTCTATCCTAAAGTATCCAATTATGTATTTTAAAGAACCTAGAGGTCTAAACC
129 AATTAAGGTTTCCTCTATCCTAAAGTATCCAATTATGTATTTTAAAGAACCTAGAGGTCTAAACC
* *
1470355 TAAAAATATAGGCTCTAATATTAATCCTATATAATTTTATCCAATTA
194 TAAAAATATAGACTCTAATATTAAACCTATATAATTTTATCCAATTA
1470402 T
1 T
1470403 TGAATCGAAT
Statistics
Matches: 232, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
239 2 0.01
240 230 0.99
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (240 bp):
TAGTTGTCCCCAAAGCATGATTGAGAGAACTATACCATTAATTCCGTGGTAAATCAACATTGCCT
TAGTTGTGAAATCAGAATGCAATCAAACAATCCATTTATTGGACTTGATTAAACTACGCGATTAA
TTAAGGTTTCCTCTATCCTAAAGTATCCAATTATGTATTTTAAAGAACCTAGAGGTCTAAACCTA
AAAATATAGACTCTAATATTAAACCTATATAATTTTATCCAATTA
Found at i:1472942 original size:42 final size:42
Alignment explanation
Indices: 1472913--1473026 Score: 183
Period size: 42 Copynumber: 2.7 Consensus size: 42
1472903 CGAGCAAAGG
*
1472913 TGATGATGATCCAACTCCTTATGTGATGGATGAGTGAAATGT
1 TGATGATGATCCAACTCCTTATGTGATGGATGAGTGAAATGA
* *
1472955 TGATGTTCATCCAACTCCTTATGTGATGGATGAGTGAAATGA
1 TGATGATGATCCAACTCCTTATGTGATGGATGAGTGAAATGA
* *
1472997 TGATGCTGATCCAACTCCTTATATGATGGA
1 TGATGATGATCCAACTCCTTATGTGATGGA
1473027 AGAGCCGAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATGATGATCCAACTCCTTATGTGATGGATGAGTGAAATGA
Found at i:1473189 original size:118 final size:118
Alignment explanation
Indices: 1473003--1473266 Score: 307
Period size: 118 Copynumber: 2.3 Consensus size: 118
1472993 ATGATGATGC
* * * *
1473003 TGATCCAACTCCTTATATGATGGAA--GAGCCGAGATTGAACAAGTTCTTCTCATTATGAACTTC
1 TGATCCAACTCCTTCTATGATGGAATCGAGCCAAGATTGAACAAGTTATCCTCATTATGAACTTC
* * * *
1473066 GTCTCCCTTATCGGGCGAACTCTTCTCATTATGAACCCTTCCATTCAAAATGT
66 GTCTCCCTCATCAGGCGAACTATTCTCATTACGAACCCTTCCATTCAAAATGT
* * * *
1473119 TGATCCACCTCCTTCTATGATGGAATCGAGCTAAGGTTGAATAAGTTATCCTCATTATGAACTTC
1 TGATCCAACTCCTTCTATGATGGAATCGAGCCAAGATTGAACAAGTTATCCTCATTATGAACTTC
* * ** * **
1473184 TTCTCCCTCATCAGGTGAGTTATTCTCATTACGAACCCTTCTATTGGAAATGT
66 GTCTCCCTCATCAGGCGAACTATTCTCATTACGAACCCTTCCATTCAAAATGT
* * * *
1473237 TGATACATCTCTTTCTGTGATGGAATCGAG
1 TGATCCAACTCCTTCTATGATGGAATCGAG
1473267 TGATATGTTG
Statistics
Matches: 123, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
116 23 0.19
118 100 0.81
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (118 bp):
TGATCCAACTCCTTCTATGATGGAATCGAGCCAAGATTGAACAAGTTATCCTCATTATGAACTTC
GTCTCCCTCATCAGGCGAACTATTCTCATTACGAACCCTTCCATTCAAAATGT
Found at i:1475026 original size:53 final size:53
Alignment explanation
Indices: 1474717--1475257 Score: 603
Period size: 53 Copynumber: 10.1 Consensus size: 53
1474707 TTACAGTTAT
*** * * *
1474717 CATCAAGAAACCCCAAAAAATAAGGCTTAGATTCTTTAAAAATTCATTTGAAGA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
** * * * *
1474771 CATCAAGAAAGCCCTAAAAAATCAAGCTTAGCTCCTTTCCAAATTCATTTGTAAA
1 CATCAAGAAA-CCCTTGAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
** * *
1474826 CATCAAGAAACCCCTAAAAAATTAGGCTTAGCTCCTTTCAAAATTCATTTGAAAA
1 CATCAAGAAA-CCCTTGAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
* * * *
1474881 CATCAAGAAGCCCTTTAAAATCAGGCTTAGCTCCTTTAAACATTCATTTAAAAA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAA-ATTCATTTGAAAA
* * *
1474935 CAT-AAAAAACCC-TGAAAATCAGGGTTAGC-TCTTATAAAAGTTCTTTTGAAAA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTT-TAAAA-TTCATTTGAAAA
* *
1474987 CATCAAGAAACCCTTGAAATTCAGGCTTAG-TTCTTTAAAAGTTCTTTTGAAAA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAA-TTCATTTGAAAA
* *
1475040 CATCAAGAAACCCTTGAAAATCAGGCTTAACTTCTTTCAAAATTCATTTGAAGA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
*
1475094 TATCAAGAAACCCTTG-AAATCAGGCTTAGCTTCTTTAAAAGTTCATTTGAAAA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAA-TTCATTTGAAAA
* *
1475147 CATCAAGGAACCCCTGAAAATCAGGCTTAGCTTCTTTACAAATCTCATTTG--AA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTA-AAAT-TCATTTGAAAA
* *
1475200 CATCAAGAAA-CCTTGAAAATCAGGCTTAGCTTCTTTCAAATCTCATTTAAAAA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAT-TCATTTGAAAA
*
1475253 TATCA
1 CATCA
1475258 TGTTTGGGTA
Statistics
Matches: 428, Mismatches: 44, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
51 15 0.04
52 61 0.14
53 124 0.29
54 120 0.28
55 108 0.25
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (53 bp):
CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAA
Found at i:1481827 original size:66 final size:65
Alignment explanation
Indices: 1481683--1481834 Score: 232
Period size: 65 Copynumber: 2.3 Consensus size: 65
1481673 AAGAAAGATG
*
1481683 GTGACCGAAATGTAAAAACAAGCTTAACATAGGGGAAATATTACGTGAAAAGACCTAAAAAATTA
1 GTGACCGAAATGTAAAAACAAGCTTAACATAGGGGAAATATTACGTGAAAAGACCAAAAAAATTA
* * * *
1481748 GCGACCGAAATGTAAAAATAAGCTTAACATAGGGGGACTATTACGTGAAAAGACCCAAAAAAATT
1 GTGACCGAAATGTAAAAACAAGCTTAACATAGGGGAAATATTACGTGAAAAGA-CCAAAAAAATT
1481813 A
65 A
* *
1481814 GTGACCAAAATGTAACAACAA
1 GTGACCGAAATGTAAAAACAA
1481835 TCCAAAGTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 49 0.64
66 28 0.36
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (65 bp):
GTGACCGAAATGTAAAAACAAGCTTAACATAGGGGAAATATTACGTGAAAAGACCAAAAAAATTA
Found at i:1481851 original size:66 final size:65
Alignment explanation
Indices: 1481685--1481851 Score: 174
Period size: 65 Copynumber: 2.6 Consensus size: 65
1481675 GAAAGATGGT
* ** * *
1481685 GACCGAAATGTAAAAACAAGCTTAACATAG-GGGAAATATTACGTGAAAAGACCTAAAAAATTAG
1 GACCAAAATGTAAAAACAAGCCAAACATAGAGGG-ACTATTACGTGAAAAGACCAAAAAAATTAG
1481749 C
65 C
* * ** *
1481750 GACCGAAATGTAAAAATAAGCTTAACATAGGGGGACTATTACGTGAAAAGACCCAAAAAAATTAG
1 GACCAAAATGTAAAAACAAGCCAAACATAGAGGGACTATTACGTGAAAAGA-CCAAAAAAATTAG
*
1481815 T
65 C
* * **
1481816 GACCAAAATGTAACAACAATCCAAAGTTAGAGGGAC
1 GACCAAAATGTAAAAACAAGCCAAACATAGAGGGAC
1481852 CAAAGATGGA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 45 0.52
66 42 0.48
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (65 bp):
GACCAAAATGTAAAAACAAGCCAAACATAGAGGGACTATTACGTGAAAAGACCAAAAAAATTAGC
Done.