Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001205.1 Hibiscus syriacus cultivar Beakdansim tig00002384_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: 122776
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:5910 original size:15 final size:16
Alignment explanation
Indices: 5865--5903 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
5855 AATATCTTTA
*
5865 AATATTTAAA-AATAAT
1 AATATTTAAATAAT-GT
5881 AATATTTAAATAATGT
1 AATATTTAAATAATGT
5897 AATATTT
1 AATATTT
5904 GATAATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AATATTTAAATAATGT
Found at i:8281 original size:2 final size:2
Alignment explanation
Indices: 8274--8300 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8264 TGAGGAGTCC
8274 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8301 GTAGCATGCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9027 original size:17 final size:18
Alignment explanation
Indices: 9002--9040 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
8992 TCATTGGAGA
*
9002 CTAATATTAATAAATA-G
1 CTAAAATTAATAAATATG
9019 CTAAAATTAATAAATATG
1 CTAAAATTAATAAATATG
9037 CTAA
1 CTAA
9041 TATGCTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (18 bp):
CTAAAATTAATAAATATG
Found at i:10299 original size:40 final size:40
Alignment explanation
Indices: 10241--10317 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
10231 GCGTAGAATT
* * *
10241 TGTCCCGCAGGACTACTATATCTCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTATATCCCGAAGGACCACTGTATA
* *
10281 TGTCCCGAATGACCACTATGTCCCGAAGGACCACTGT
1 TGTCCCGAAGGACCACTATATCCCGAAGGACCACTGT
10318 GTCCCGAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
TGTCCCGAAGGACCACTATATCCCGAAGGACCACTGTATA
Found at i:10302 original size:18 final size:18
Alignment explanation
Indices: 10241--10330 Score: 90
Period size: 18 Copynumber: 4.8 Consensus size: 18
10231 GCGTAGAATT
* *
10241 TGTCCCGCAGGACTACTA
1 TGTCCCGAAGGACCACTA
* *
10259 TATCTCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
*
10281 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
*
10299 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
10317 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
10331 GCGTAAACCC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
18 44 0.75
22 15 0.25
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:10679 original size:21 final size:22
Alignment explanation
Indices: 10653--10709 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
10643 AGGGTGTCAA
10653 AGTGTATCCATGCACCCT-TGC
1 AGTGTATCCATGCACCCTCTGC
10674 AGTGTATCCATGCA-CCTCTGC
1 AGTGTATCCATGCACCCTCTGC
*
10695 AGTGCATCCATGCAC
1 AGTGTATCCATGCAC
10710 TCCATTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (22 bp):
AGTGTATCCATGCACCCTCTGC
Found at i:10752 original size:20 final size:20
Alignment explanation
Indices: 10729--10782 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
10719 AATGCACTTA
*
10729 GTGCATTGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
10749 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
*
10769 GTGCATCCATGCAT
1 GTGCATCGATGCAT
10783 GAAGGCTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:10755 original size:12 final size:12
Alignment explanation
Indices: 10738--10776 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
10728 AGTGCATTGA
10738 TGCATCCTGATG
1 TGCATCCTGATG
10750 TGCAT-C-GA--
1 TGCATCCTGATG
10758 TGCATCCTGATG
1 TGCATCCTGATG
10770 TGCATCC
1 TGCATCC
10777 ATGCATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 5 0.22
9 1 0.04
10 4 0.17
11 1 0.04
12 12 0.52
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (12 bp):
TGCATCCTGATG
Found at i:10924 original size:21 final size:21
Alignment explanation
Indices: 10895--10955 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
10885 TTTGAGTAGA
10895 AAAATCATCCCCAAACGGCTCC
1 AAAA-CATCCCCAAACGGCTCC
* *
10917 AAAACATCCCTAAACGGCTTC
1 AAAACATCCCCAAACGGCTCC
10938 AAAACATCCCC-AACGGCT
1 AAAACATCCCCAAACGGCT
10956 ATATACAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 7 0.19
21 25 0.69
22 4 0.11
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAACATCCCCAAACGGCTCC
Found at i:12127 original size:19 final size:20
Alignment explanation
Indices: 12103--12150 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
12093 AATGATTTTC
*
12103 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
12122 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
12142 TTTTGAAAA
1 TTTTGAAAA
12151 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:12812 original size:14 final size:14
Alignment explanation
Indices: 12793--12820 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12783 TTTTACAAAT
12793 TTTAAATTTTTGAC
1 TTTAAATTTTTGAC
12807 TTTAAATTTTTGAC
1 TTTAAATTTTTGAC
12821 CTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTAAATTTTTGAC
Found at i:12825 original size:13 final size:14
Alignment explanation
Indices: 12795--12828 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12785 TTACAAATTT
*
12795 TAAATTTTTGACTT
1 TAAATTTTTGACTC
12809 TAAATTTTTGAC-C
1 TAAATTTTTGACTC
12822 TAAATTT
1 TAAATTT
12829 AAATGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (14 bp):
TAAATTTTTGACTC
Found at i:13302 original size:21 final size:21
Alignment explanation
Indices: 13276--13315 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13266 AAACAATTGG
*
13276 TAACAATTGATATCATTTTGT
1 TAACAATTGACATCATTTTGT
*
13297 TAACAATTGACATCTTTTT
1 TAACAATTGACATCATTTT
13316 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (21 bp):
TAACAATTGACATCATTTTGT
Found at i:13563 original size:21 final size:21
Alignment explanation
Indices: 13537--13638 Score: 136
Period size: 20 Copynumber: 4.9 Consensus size: 21
13527 AGGGTGTCAA
*
13537 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCATGC
* *
13558 AGTGCATCCATACACCCCTGC
1 AGTGCATCCATGCACCCATGC
*
13579 AGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACCCATGC
*
13599 AGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACCCATGC
13619 AGTGCATCCATGCACTCCAT
1 AGTGCATCCATGCAC-CCAT
13639 TTCGAATGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
20 38 0.51
21 32 0.43
22 4 0.05
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCATGC
Found at i:13601 original size:20 final size:20
Alignment explanation
Indices: 13537--13746 Score: 123
Period size: 20 Copynumber: 10.8 Consensus size: 20
13527 AGGGTGTCAA
* *
13537 AGTGCATCCATGCACCCCTGC
1 AGTGCATCGATGCA-CCATGC
* * *
13558 AGTGCATCCATACACCCCTGC
1 AGTGCATCGATGCA-CCATGC
13579 AGTGCATCGATGCACCATGC
1 AGTGCATCGATGCACCATGC
13599 AGTGCATCGATGCACCATGC
1 AGTGCATCGATGCACCATGC
* *
13619 AGTGCATCCATGCA-C-TCC
1 AGTGCATCGATGCACCATGC
* *
13637 A-T--TTCGAATGCA-C-T-T
1 AGTGCATCG-ATGCACCATGC
* * *
13652 AGTGCATCGACGCATCATGT
1 AGTGCATCGATGCACCATGC
* * *
13672 TGTGCATCGATGTATCATGC
1 AGTGCATCGATGCACCATGC
* * *
13692 TGTACATCGATGCATCATG-
1 AGTGCATCGATGCACCATGC
* *
13711 ATGTGCATCGATGCATCATGT
1 A-GTGCATCGATGCACCATGC
* *
13732 TGTGCATCTATGCAC
1 AGTGCATCGATGCAC
13747 GAAGGCTGCA
Statistics
Matches: 158, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
15 3 0.02
16 8 0.05
17 5 0.03
18 7 0.04
19 2 0.01
20 101 0.64
21 32 0.20
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (20 bp):
AGTGCATCGATGCACCATGC
Found at i:13896 original size:20 final size:22
Alignment explanation
Indices: 13858--13897 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
13848 TTTGAGTAGA
13858 AAAATCATCCCCAAACGACTCC
1 AAAATCATCCCCAAACGACTCC
13880 AAAA-CATCCCC-AACGACT
1 AAAATCATCCCCAAACGACT
13898 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.42, C:0.40, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGACTCC
Found at i:18906 original size:20 final size:20
Alignment explanation
Indices: 18881--18920 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18871 CTATACCAAA
18881 TGTTATACATTTGGAGAATG
1 TGTTATACATTTGGAGAATG
18901 TGTTATACATTTGGAGAATG
1 TGTTATACATTTGGAGAATG
18921 ACTCAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (20 bp):
TGTTATACATTTGGAGAATG
Found at i:22063 original size:39 final size:43
Alignment explanation
Indices: 22009--22092 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 43
21999 GACTTAACCC
*
22009 TGAATTGTCCCA-TTTTTCTGATTAGT-G-G-AAAAAATCAAA
1 TGAATTGTCCCATTTTTTCTGATTAATGGAGAAAAAAATCAAA
22048 TGAATTGTCCCATTTTTTCTGATTAATGGAGAAAAAAATCAAA
1 TGAATTGTCCCATTTTTTCTGATTAATGGAGAAAAAAATCAAA
22091 TG
1 TG
22093 TGTGGATGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 12 0.30
40 13 0.32
41 1 0.03
42 1 0.03
43 13 0.32
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (43 bp):
TGAATTGTCCCATTTTTTCTGATTAATGGAGAAAAAAATCAAA
Found at i:28318 original size:20 final size:21
Alignment explanation
Indices: 28288--28326 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
28278 ATTACAGGTA
28288 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
*
28309 CAAA-ATGACAGAACCGGT
1 CAAATATGACAAAACCGGT
28327 AAAACGCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.13
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:28655 original size:183 final size:182
Alignment explanation
Indices: 28255--28916 Score: 792
Period size: 183 Copynumber: 3.6 Consensus size: 182
28245 ATACAAATGA
* * * * * * * ** *
28255 AAAATGGATCGCTCCATAGCAATATTACAGGTACAAATATGACAAAACCGGTCCCAAAATGACAG
1 AAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAACCGGTCTAAAAATGACAA
* * * *
28320 AACCGGTAAAACGCTACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGAA-ACTTT
66 AATCGG-AAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAACACTTT
* * * * **
28384 CTGAATTTAAAAGAGAAGAAGTTATAGCGTCTATAAAGTATCGATACTTTAAAA
130 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTT-ATG
** * *
28438 AAAAAATATCGATCCACAACAATATTAA-AGGTAAAAATATAATAAAACCGGTCTAAAAAATGAC
1 AAAATGTATCGATCCAAAACAATA-TAACAGGTAAAAATATGATAAAACCGGTCT-AAAAATGAC
*** *
28502 AAAATCGGAAAAAGTTATAAGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGAACACTT
64 AAAATCGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAACACTT
*
28567 TCTGAATTTAAAAGAAAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
129 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* ** *
28621 AAAATGTATCAATCC-TTACTAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGAC
1 AAAATGTATCGATCCAAAAC-AATATAACAGGTAAAAATATGATAAAACCGGTCT-AAAAATGAC
* * *
28685 AAAACCGGAAAAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCG-ACACTT
64 AAAATCGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAACACTT
* *** *
28749 TCTTAATTTAAAAGAGAAGAAGTTATATTTCTTAAAAAAGTGTCGACACTTTATG
129 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAAGTGTCGACACTTTATG
* * *
28804 AAAATGTATCGATCCAAAACAATATAACATGTAAAAATATGATAAAATCGGTCTCAAAATGACAA
1 AAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAACCGGTCTAAAAATGACAA
* * * *
28869 AATCGGTAAATAGATACCGGATATGTTGAAAGTGTCGATACTTTAATA
66 AATCGG-AAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATA
28917 AGTACGCGTA
Statistics
Matches: 410, Mismatches: 61, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
182 53 0.13
183 289 0.70
184 68 0.17
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAACCGGTCTAAAAATGACAA
AATCGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAACACTTTC
TGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
Found at i:29327 original size:18 final size:19
Alignment explanation
Indices: 29304--29348 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
29294 TAGTTAATAT
29304 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
*
29322 TTATAGATAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
29341 TTTTAGGT
1 TTATAGGT
29349 TGTATAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:29629 original size:18 final size:18
Alignment explanation
Indices: 29594--29632 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29584 TTGAAATGGT
29594 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
29612 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
29630 AAT
1 AAT
29633 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:31358 original size:11 final size:11
Alignment explanation
Indices: 31344--31369 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31334 AAAAAAAGAT
31344 GGAGGAAATGA
1 GGAGGAAATGA
31355 GGAGGAAATGA
1 GGAGGAAATGA
31366 GGAG
1 GGAG
31370 AAAGGATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (11 bp):
GGAGGAAATGA
Found at i:32854 original size:19 final size:19
Alignment explanation
Indices: 32828--32872 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
32818 AAATGCATGG
32828 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
32846 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
32865 ATAATTTT
1 TTAATTTT
32873 ATATGTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:33560 original size:199 final size:199
Alignment explanation
Indices: 33220--34319 Score: 1945
Period size: 199 Copynumber: 5.5 Consensus size: 199
33210 AGGTAAACTT
*
33220 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
33285 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAACG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
33350 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
33415 TAAA
196 TAAA
33419 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * *
33484 TAGGTAAATTA-GCAATATAATCGGTCTAAATATATCAGTTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
33548 GTATCGACACAAATAGAACAAGTGTCGATAC-TTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
33612 CTAAA
195 CTAAA
*
33617 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
33682 TAGGTAAATTATTCATGTAAATGGTCTAAATATACCGGTTTTTTAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
33747 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATATATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
33812 TAAA
196 TAAA
33816 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * *
33881 TAGGTAAATTATTCATGTAAACGGTCTAAATATATCGATTTTCGAGAAAACAAGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
33946 TATTGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
34011 TAAA
196 TAAA
34015 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
34080 TACGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
34145 TATCGACATAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
34210 TAAA
196 TAAA
*
34214 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATTGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
34279 TAGGTAAATTA-GCAATATAATCGGTCTAAATATACCGGTTT
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTT
34320 AAATTGAAAA
Statistics
Matches: 858, Mismatches: 39, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
198 190 0.22
199 668 0.78
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAA
Found at i:33956 original size:397 final size:398
Alignment explanation
Indices: 33220--34312 Score: 1994
Period size: 397 Copynumber: 2.7 Consensus size: 398
33210 AGGTAAACTT
*
33220 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
33285 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAACG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
33350 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
33415 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* *
33480 GTAATAGGTAAATTAGCAATATAATCGGTCTAAATATATCAGTTTTTGAGAAAACAGGTGTACAA
261 GTAATAGGTAAATTAGCAATATAATCGGTCTAAATATATCAGTTTTCGAGAAAACAAGTGTACAA
33545 AAAGTATCGACACAAATAGAACAAGTGTCGATAC-TTTTGTCCAGAATGTATTTCAAAAACAAGT
326 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGT
33609 GCCCTAAA
391 GCCCTAAA
*
33617 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
33682 TAGGTAAATTATTCATGTAAATGGTCTAAATATACCGGTTTTTTAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
33747 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATATATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
33812 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* * *
33877 GTAATAGGTAAATTATTC-ATGTAAACGGTCTAAATATATC-GATTTTCGAGAAAACAAGTGTAC
261 GTAATAGGTAAATTA-GCAATATAATCGGTCTAAATATATCAG-TTTTCGAGAAAACAAGTGTAC
*
33940 AAAAAGTATTGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAA
324 AAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAA
34005 GTGCCCTAAA
389 GTGCCCTAAA
34015 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
34080 TACGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
34145 TATCGACATAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
*
34210 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATTGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
34275 GTAATAGGTAAATTAGCAATATAATCGGTCTAAATATA
261 GTAATAGGTAAATTAGCAATATAATCGGTCTAAATATA
34313 CCGGTTTAAA
Statistics
Matches: 668, Mismatches: 24, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
396 1 0.00
397 343 0.51
398 324 0.49
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (398 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
GTAATAGGTAAATTAGCAATATAATCGGTCTAAATATATCAGTTTTCGAGAAAACAAGTGTACAA
AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGT
GCCCTAAA
Found at i:35892 original size:12 final size:12
Alignment explanation
Indices: 35860--35905 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
35850 TAAGCGGTCA
*
35860 ATGAAGATAACG
1 ATGAAGATGACG
35872 ATGAAGATGACG
1 ATGAAGATGACG
*
35884 ATGAAGATGATG
1 ATGAAGATGACG
*
35896 ATGATGATGA
1 ATGAAGATGA
35906 TCCAAACAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.43, C:0.04, G:0.30, T:0.22
Consensus pattern (12 bp):
ATGAAGATGACG
Found at i:37041 original size:11 final size:11
Alignment explanation
Indices: 37025--37056 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
37015 TTTAACATGG
37025 CATTTCATTTT
1 CATTTCATTTT
37036 CATTTCATTTT
1 CATTTCATTTT
37047 CATTTCATTT
1 CATTTCATTT
37057 ATAATTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (11 bp):
CATTTCATTTT
Found at i:37950 original size:199 final size:199
Alignment explanation
Indices: 37610--38635 Score: 1772
Period size: 199 Copynumber: 5.2 Consensus size: 199
37600 CCCTAAAAAG
*
37610 TGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
1 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
37675 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
66 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
37740 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
131 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
37805 CAAA
196 CAAA
37809 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
1 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
*
37874 TTTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
66 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
*
37939 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATAAATTTGTAA
131 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
38004 CAAA
196 CAAA
38008 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
1 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
38073 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
66 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
38138 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
131 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
38203 CAAA
196 CAAA
* * *
38207 TGTCGATCCCAAAAACATAGAAAACTATAATTATAATGTAATAGGTAAATTATTCATGTAAACGG
1 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
* *
38272 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTATAAAAAGTATCGACACAAATAAAACAAGTGT
66 TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
38337 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
131 CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
*
38402 CAAG
196 CAAA
* * * *
38406 TGTCGATCCCAAAAACATCAAAAATCATAATTATAATGTAATAGGTAAATTA-ACAT-TACAACC
1 TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTA-AA-T
* * *
38469 GGTCTAAATGTACCGGTTTTTGAGAAAACAGGTGTACAAACAA-TATCGACACAAATGGAACAAT
64 GGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAGAACAAG
* * * *
38533 TGTCGATACTTTTTGTCCAGAATGTATTTCAGAACCAAGTGCAC-AACAAAGTTTCGATACATTT
128 TGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAA-AAAGTGTCGATACATTT
* *
38597 ATAACAAT
192 GTAACAAA
* *
38605 TTTCGATCCCAAAAACATCGAAAAACATAAT
1 TGTCGATCCCAAAAACATCGAAAACCATAAT
38636 AATTATAACC
Statistics
Matches: 793, Mismatches: 30, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
197 2 0.00
198 7 0.01
199 782 0.99
200 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
TGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAATGG
TCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGT
CGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAA
CAAA
Found at i:41766 original size:182 final size:181
Alignment explanation
Indices: 41459--41905 Score: 691
Period size: 182 Copynumber: 2.5 Consensus size: 181
41449 GTTGATAGTT
* * *
41459 TCGATACTTTATAAAAATATATCGATCCATAACAATAAAACAGATCAAAAA-ATGACAAAACCGG
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAATATGACAAAATC-G
** ** * *
41523 TCTATAAATGACAAAATAGGTAAAACCCTACCGGATATGTTGATAGTGTCGATACTTTATTATAG
64 TCTCGAAATGACAAAACCGATAAAACCCTACCGGATATGTTGATAGTGTCGATACTTTATTATAA
* * *
41588 GTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAATAAAGTG
129 GTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTG
41641 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCAGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATC-GT
*
41706 CTCGAAATGACAAAACCGATAAAGA-GCTACCGGATATGTTGATAGTGTCGATACTTTATTATAA
65 CTCGAAATGACAAAACCGATAAA-ACCCTACCGGATATGTTGATAGTGTCGATACTTTATTATAA
41770 GTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTG
129 GTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTG
* * *
41823 TTGATACTTTATAAAAATGTATCGATCCATAACAATATGACAGGTAAAAATATGACAAAATCGAT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG-T
41888 CTCGAAATGACAAAACCG
65 CTCGAAATGACAAAACCG
41906 GTAGTAAAAA
Statistics
Matches: 245, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
181 6 0.02
182 238 0.97
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (181 bp):
TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGTC
TCGAAATGACAAAACCGATAAAACCCTACCGGATATGTTGATAGTGTCGATACTTTATTATAAGT
ATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTG
Found at i:42557 original size:23 final size:23
Alignment explanation
Indices: 42528--42575 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
42518 AAATAAGTCA
* *
42528 ATATAAGCTCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
42551 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATATATT
42574 AT
1 AT
42576 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:42971 original size:24 final size:22
Alignment explanation
Indices: 42927--42982 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
42917 AAATGAGCTT
42927 ATAAACGAATTTGTAAATGAATC
1 ATAAACGAATTTGTAAATGAA-C
***
42950 GATAAACGAATTTGTTCGTGAAC
1 -ATAAACGAATTTGTAAATGAAC
42973 ATAAACGAAT
1 ATAAACGAAT
42983 CGATAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.34
23 1 0.03
24 18 0.62
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (22 bp):
ATAAACGAATTTGTAAATGAAC
Found at i:46610 original size:21 final size:22
Alignment explanation
Indices: 46584--46631 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
46574 TTAACTATCG
46584 TATATAGGTTATAAAAC-AACA
1 TATATAGGTTATAAAACAAACA
46605 TATATAGGTTATAAAACAAACA
1 TATATAGGTTATAAAACAAACA
46627 TATAT
1 TATAT
46632 GTGTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (22 bp):
TATATAGGTTATAAAACAAACA
Found at i:46706 original size:14 final size:14
Alignment explanation
Indices: 46689--46716 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46679 TACGACACTG
46689 TATATAATATTTAA
1 TATATAATATTTAA
46703 TATATAATATTTAA
1 TATATAATATTTAA
46717 AAAGTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATAATATTTAA
Found at i:47048 original size:14 final size:15
Alignment explanation
Indices: 47029--47062 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
47019 TACATAAACA
47029 GAAAATTAAAT-ACT
1 GAAAATTAAATGACT
47043 GAAAATTAAATGACT
1 GAAAATTAAATGACT
47058 -AAAAT
1 GAAAAT
47063 GCAAGTGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (15 bp):
GAAAATTAAATGACT
Found at i:48262 original size:3 final size:3
Alignment explanation
Indices: 48210--48294 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
48200 TAAGAGCCTG
* *
48210 TAA TAA -AA TAA AAA TAA -AA -AA TAA -AA TAGA TAAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA
* * * * *
48253 TAG TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48295 AAGATACGGA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
2 8 0.12
3 54 0.81
4 4 0.06
5 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:58996 original size:21 final size:20
Alignment explanation
Indices: 58910--59067 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
58900 AAATGACCAA
**
58910 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
58929 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
58949 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
58969 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
58990 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
59011 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
59031 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
59052 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
59068 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:59099 original size:20 final size:20
Alignment explanation
Indices: 59034--59263 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
59024 CGATTTTCCA
** *
59034 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
59054 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
* *
59074 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
59094 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
59114 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
59134 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
59154 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
59174 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
59194 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
59214 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
59234 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
59254 AAATCACAAC
1 AAATCGCAAC
59264 ACTGAAATTT
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:59972 original size:24 final size:24
Alignment explanation
Indices: 59945--59991 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59935 GAAATTGGTC
59945 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
59969 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
59992 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:62527 original size:19 final size:19
Alignment explanation
Indices: 62487--62584 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
62477 GATTCTCTCG
62487 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
62507 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
62526 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
62540 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
62559 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
62578 TTGCGAT
1 TTGCGAT
62585 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:62581 original size:52 final size:53
Alignment explanation
Indices: 62468--62584 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
62458 GAAATGAAAA
62468 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
62521 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
62573 TCGCATTGCGAT
1 TCGCATTGCGAT
62585 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:62695 original size:33 final size:32
Alignment explanation
Indices: 62643--62804 Score: 150
Period size: 33 Copynumber: 4.8 Consensus size: 32
62633 CCATTACATT
62643 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGA-AA
* *
62677 TCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
62709 T-GAAAAT-CGCAAA-GAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCG-AAATGA-A-AATCGCAA--CG--A-G-AAA
62748 TCGCAATGCGAAATGAAAATCGCAACGAGATAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGA-AA
*
62781 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
62805 TTGCGATTCT
Statistics
Matches: 107, Mismatches: 7, Indels: 29
0.75 0.05 0.20
Matches are distributed among these distances:
31 5 0.05
32 11 0.10
33 53 0.50
34 10 0.09
35 1 0.01
36 2 0.02
38 9 0.08
39 11 0.10
40 5 0.05
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (32 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:62699 original size:19 final size:19
Alignment explanation
Indices: 62643--62810 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
62633 CCATTACATT
62643 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
62663 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
62677 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
62696 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
* *
62715 TCGCAA----AGA-GAGAA
1 TCGCAATGCGAAATGAAAA
62729 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
62748 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
62767 TCGCAA--CG--A-GATAA
1 TCGCAATGCGAAATGAAAA
*
62781 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
62800 TCGCATTGCGA
1 TCGCAATGCGA
62811 TTCTCCCATT
Statistics
Matches: 123, Mismatches: 10, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
14 30 0.24
15 4 0.03
16 4 0.03
17 3 0.02
18 5 0.04
19 71 0.58
20 6 0.05
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:62726 original size:52 final size:52
Alignment explanation
Indices: 62643--62810 Score: 291
Period size: 52 Copynumber: 3.2 Consensus size: 52
62633 CCATTACATT
62643 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
62696 TCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
* *
62748 TCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
62800 TCGCATTGCGA
1 TCGCAATGCGA
62811 TTCTCCCATT
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 101 0.92
53 9 0.08
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:62859 original size:19 final size:19
Alignment explanation
Indices: 62817--62916 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
62807 GCGATTCTCC
62817 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
62837 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
62856 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
62872 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
62889 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
62908 CATTGCGAT
1 CATTGCGAT
62917 AGTCAATTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:62913 original size:52 final size:53
Alignment explanation
Indices: 62800--62916 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
62790 GAAATTAAAA
62800 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
62853 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
62905 TCGCATTGCGAT
1 TCGCATTGCGAT
62917 AGTCAATTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:63026 original size:33 final size:33
Alignment explanation
Indices: 62974--63136 Score: 170
Period size: 33 Copynumber: 4.8 Consensus size: 33
62964 CCATTACATT
62974 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
63008 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
63040 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
63079 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
63112 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
63137 TGCGAAATGA
Statistics
Matches: 107, Mismatches: 11, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 56 0.52
34 10 0.09
35 1 0.01
36 2 0.02
38 10 0.09
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:63053 original size:52 final size:52
Alignment explanation
Indices: 62974--63193 Score: 413
Period size: 52 Copynumber: 4.2 Consensus size: 52
62964 CCATTACATT
62974 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
63027 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
63079 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
63131 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
63183 TCGCATTGCGA
1 TCGCAATGCGA
63194 TTCTCCCATT
Statistics
Matches: 165, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 156 0.95
53 9 0.05
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:63075 original size:331 final size:332
Alignment explanation
Indices: 62433--63141 Score: 1348
Period size: 331 Copynumber: 2.1 Consensus size: 332
62423 CGGAAATTAC
* * *
62433 AATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTC
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCATTGCGATTCTCCCATTGCGATTTTC
62498 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
66 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
62563 GATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAA
131 GATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAA
62628 ATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
196 ATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
62693 AAATCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG
261 AAATCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG
62758 AAATGAA
326 AAATGAA
* *
62765 AATCGCAACGAGATAATCGCAATGCGAAATTAAAATCGCATTGCGATTCTCCCATTGCGATTTTC
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCATTGCGATTCTCCCATTGCGATTTTC
62830 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
66 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
62895 GATTTTCATTTCGCATTGCGATAGTCAA-TTTGCCTTCAACATAATGCAGATTGAAATCAACAAA
131 GATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAA
62959 ATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
196 ATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
63024 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG
261 AAATCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG
63089 AAATGAA
326 AAATGAA
*
63096 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCATTGCGA
63142 AATGAAAATC
Statistics
Matches: 368, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
331 215 0.58
332 153 0.42
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (332 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCATTGCGATTCTCCCATTGCGATTTTC
ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
GATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAA
ATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
AAATCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:63166 original size:33 final size:33
Alignment explanation
Indices: 63025--63187 Score: 170
Period size: 33 Copynumber: 4.8 Consensus size: 33
63015 GCGAAATGAA
63025 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
63058 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
63090 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
63129 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
63162 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
63188 TTGCGATTCT
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 65 0.61
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.09
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:63224 original size:331 final size:332
Alignment explanation
Indices: 62521--63247 Score: 1174
Period size: 331 Copynumber: 2.2 Consensus size: 332
62511 GATTTTCATT
62521 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATA
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATA
62586 GTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAAATCAACCATTACATTTCGCAATG
66 GTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAAATCAACCATTACATTTCGCAATG
62651 CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
131 CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
*
62716 CGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAA
196 CGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * **** * **** ** * *
62781 TCGCAATGCGAAATTAAAATCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGAT
261 TCGCAATGCGAAATGAAAATCGCAATGCGAATCGAAAATCGCGAACGACAAATCCGCAATGCGAA
* * **
62846 TTTCATT
326 ATTAAAA
62853 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATA
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATA
62918 GTCAA-TTTGCCTTCAACATAATGCAGATTGAAATCAACAAAATCAACCATTACATTTCGCAATG
66 GTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAAATCAACCATTACATTTCGCAATG
62982 CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
131 CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
*
63047 CGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAA
196 CGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
63112 TCGCAATGCGAAATGAAAATCGCAATGCGAAAT-GAAAATCGC-AACGAGAGAAT-CGCAATGCG
261 TCGCAATGCGAAATGAAAATCGCAATGCG-AATCGAAAATCGCGAACGACA-AATCCGCAATGCG
63174 AAATTAAAA
324 AAATTAAAA
* *
63183 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGAT
63248 TCTCTCGTTG
Statistics
Matches: 367, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
330 46 0.13
331 249 0.68
332 72 0.20
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (332 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATA
GTCAATTTTGCCTTCAACATAATGCAGATTGAAATCAACAAAATCAACCATTACATTTCGCAATG
CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
CGCAAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAA
TCGCAATGCGAAATGAAAATCGCAATGCGAATCGAAAATCGCGAACGACAAATCCGCAATGCGAA
ATTAAAA
Found at i:63242 original size:19 final size:19
Alignment explanation
Indices: 63200--63299 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
63190 GCGATTCTCC
63200 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
63220 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
63239 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
63255 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
63272 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
63291 CATTGCGAT
1 CATTGCGAT
63300 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:63296 original size:52 final size:53
Alignment explanation
Indices: 63183--63299 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
63173 GAAATTAAAA
63183 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
63236 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
63288 TCGCATTGCGAT
1 TCGCATTGCGAT
63300 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:63425 original size:14 final size:14
Alignment explanation
Indices: 63406--63442 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
63396 CATCAATTAC
63406 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
63420 ACAAATCATCTTTT
1 ACAAATCAACTTTT
63434 ACAAATCAA
1 ACAAATCAA
63443 TTAACAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:65441 original size:14 final size:14
Alignment explanation
Indices: 65422--65478 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
65412 GCGAAATGAA
*
65422 AATCGCAACGACAG
1 AATCGCAACGAAAG
65436 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
65453 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
65469 AATCGCAACG
1 AATCGCAACG
65479 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:65449 original size:33 final size:33
Alignment explanation
Indices: 65403--65495 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
65393 GCGAAACCAA
*
65403 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
65436 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
65469 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
65496 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:65460 original size:19 final size:19
Alignment explanation
Indices: 65366--65500 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
65356 TAGTTTACTT
* *
65366 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
65386 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
65405 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
65424 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
65438 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
65457 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
65471 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
65490 TCGCAATGCGA
1 TCGCAACGCGA
65501 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:65518 original size:19 final size:19
Alignment explanation
Indices: 65496--65572 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
65486 AAAATCGCAA
65496 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
65515 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
65529 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
65548 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
65568 TGCGA
1 TGCGA
65573 AAGTAAACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 20 0.42
20 13 0.27
ACGTcount: A:0.09, C:0.16, G:0.30, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:65756 original size:93 final size:93
Alignment explanation
Indices: 65616--65991 Score: 699
Period size: 91 Copynumber: 4.1 Consensus size: 93
65606 TTGAATGGAT
65616 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
65680 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
65708 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
65773 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
65801 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
65864 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
65892 AAATTTACTTTCAACC-AAA-ACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
65955 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
65983 AAATTTACT
1 AAATTTACT
65992 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
89 24 0.09
90 3 0.01
91 115 0.41
92 23 0.08
93 113 0.41
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:67710 original size:14 final size:14
Alignment explanation
Indices: 67691--67780 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
67681 TTGAAATGAA
67691 AATCGCAACGAGAG
1 AATCGCAACGAGAG
67705 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
67722 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
67738 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
67757 AATCGCAACGAGAG
1 AATCGCAACGAGAG
67771 AATCGCAACG
1 AATCGCAACG
67781 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:67728 original size:33 final size:33
Alignment explanation
Indices: 67683--67797 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
67673 TCTTTTGGTT
67683 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
67716 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
67749 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
67782 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
67798 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:67729 original size:19 final size:18
Alignment explanation
Indices: 67690--67802 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
67680 GTTGAAATGA
67690 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
67705 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
67722 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
67738 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
67755 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
67771 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
67788 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
67803 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:67833 original size:14 final size:14
Alignment explanation
Indices: 67814--67867 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
67804 TTTGGTTTCG
67814 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
67828 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
67847 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
67861 CGTTGCG
1 CGTTGCG
67868 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:67846 original size:33 final size:33
Alignment explanation
Indices: 67798--67878 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
67788 AAAATCGCAA
**
67798 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
67831 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
67864 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
67879 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:67914 original size:41 final size:41
Alignment explanation
Indices: 67854--67931 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
67844 TCGCGTTGCG
* *
67854 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
67895 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
67932 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:67930 original size:21 final size:21
Alignment explanation
Indices: 67855--67930 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
67845 CGCGTTGCGA
*
67855 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
67876 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
67896 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
67917 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
67931 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:68057 original size:33 final size:33
Alignment explanation
Indices: 68010--68080 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
68000 AATACTAACT
* *
68010 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
68043 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
68076 TGAAA
1 TGAAA
68081 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:68314 original size:22 final size:22
Alignment explanation
Indices: 68262--68316 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
68252 TGGTTGTGAG
**
68262 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
68284 AGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
68306 GGATTTCTTCG
1 GGATTTCTTCG
68317 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:68487 original size:20 final size:20
Alignment explanation
Indices: 68462--68655 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
68452 CTTTAAATAT
68462 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
68482 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
68504 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
68523 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
68543 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
68563 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
68583 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
68603 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
68623 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
68643 CGCGTTGCGATTT
1 CGCGTTGCGATTT
68656 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:68649 original size:60 final size:60
Alignment explanation
Indices: 68462--68655 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
68452 CTTTAAATAT
**
68462 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
68523 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
68583 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
68643 CGCGTTGCGATTT
1 CGCGTTGCGATTT
68656 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:68656 original size:20 final size:20
Alignment explanation
Indices: 68603--68697 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
68593 TTTACGGATA
* *
68603 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
68623 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
68643 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
** *
68664 CGCAATGCGATATTCATATT
1 CGCGTTGCGATTTTCATATT
68684 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
68698 GGAAAATCGC
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.02
20 44 0.75
21 14 0.24
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:68672 original size:21 final size:21
Alignment explanation
Indices: 68642--68765 Score: 99
Period size: 21 Copynumber: 6.0 Consensus size: 21
68632 ATTTTCATAT
*
68642 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * * *
68663 TCGCAATGCGATATT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
68683 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
68704 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
68725 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
68746 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
68766 CTGATTTGCG
Statistics
Matches: 75, Mismatches: 25, Indels: 6
0.71 0.24 0.06
Matches are distributed among these distances:
20 15 0.20
21 58 0.77
22 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:68682 original size:41 final size:41
Alignment explanation
Indices: 68628--68714 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
68618 GTGTTCGCGT
*
68628 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATATTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
68669 TGCGATATTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATATTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
68710 TGCGA
1 TGCGA
68715 ATTTGTACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
TGCGATATTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
Found at i:72143 original size:12 final size:12
Alignment explanation
Indices: 72111--72150 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
72101 TTCAAAGAAA
72111 TTAAAA-TTA-T
1 TTAAAATTTATT
*
72121 TT-AAATCTATT
1 TTAAAATTTATT
72132 TTAAAATTTATT
1 TTAAAATTTATT
72144 TTAAAAT
1 TTAAAAT
72151 ATGGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 3 0.12
10 4 0.16
11 3 0.12
12 15 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAAATTTATT
Found at i:72162 original size:22 final size:22
Alignment explanation
Indices: 72137--72461 Score: 438
Period size: 22 Copynumber: 14.7 Consensus size: 22
72127 CTATTTTAAA
*
72137 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGAATTG
*
72159 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGAATTG
* *
72181 ATTTATTTTTAAATATAAATTG
1 ATTTATTTTAAAATATGAATTG
72203 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGAATTG
*
72225 ATTTATTTTAAAATATAAATTG
1 ATTTATTTTAAAATATGAATTG
72247 ATTTATTTTAAAATATTG-ATTG
1 ATTTATTTTAAAATA-TGAATTG
* *
72269 ATTTATTTTAAATTATGTATTG
1 ATTTATTTTAAAATATGAATTG
* *
72291 CTTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGAATTG
***
72313 ATTTATTTTAAAATATGAAAAAA
1 ATTTATTTTAAAATATG-AATTG
* *
72336 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGAATTG
*
72358 ATTTATTTTAAAATATGTATTG
1 ATTTATTTTAAAATATGAATTG
***
72380 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGAATTG
72402 ATTTATTTTAAAATAT-AGATTG
1 ATTTATTTTAAAATATGA-ATTG
*
72424 ATTTATTTTAAAATATAAATTG
1 ATTTATTTTAAAATATGAATTG
72446 ATTTATTTTAAAATAT
1 ATTTATTTTAAAATAT
72462 TTATTATTGT
Statistics
Matches: 268, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
21 3 0.01
22 246 0.92
23 19 0.07
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATGAATTG
Found at i:72520 original size:31 final size:31
Alignment explanation
Indices: 72482--72540 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
72472 AGTTGTATGG
*
72482 ATTATTTAAATTTCATTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTATAAAACTAAA
*
72513 ATTATTTAAATTTCAGTATTGTAAAACT
1 ATTATTTAAATTTCAGTATTATAAAACT
72541 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTATAAAACTAAA
Found at i:78162 original size:2 final size:2
Alignment explanation
Indices: 78150--78187 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
78140 TTCTCTATCC
78150 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
78188 TCTTTTCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89107 original size:19 final size:19
Alignment explanation
Indices: 89083--89121 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
89073 GAGATGTGAG
*
89083 GGTTGTAATAGGCAATGTA
1 GGTTGTAATAGACAATGTA
89102 GGTTGTAATAGACAATGTA
1 GGTTGTAATAGACAATGTA
89121 G
1 G
89122 CATAGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (19 bp):
GGTTGTAATAGACAATGTA
Found at i:98634 original size:21 final size:21
Alignment explanation
Indices: 98610--98649 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
98600 AAAAGTTTAT
* *
98610 TAAGGATAAAAACAAAAACAA
1 TAAGAATAAAAAAAAAAACAA
98631 TAAGAATAAAAAAAAAAAC
1 TAAGAATAAAAAAAAAAAC
98650 CCTTCTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.10
Consensus pattern (21 bp):
TAAGAATAAAAAAAAAAACAA
Found at i:105543 original size:38 final size:37
Alignment explanation
Indices: 105492--105563 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
105482 TTTTTTTTTA
105492 TAATAACATGATATTACCTTATGATGACATGTCATTAG
1 TAATAACATGATATTACCTTATG-TGACATGTCATTAG
* *
105530 TAATAATATGATATTATCTTATGTGACATGTCAT
1 TAATAACATGATATTACCTTATGTGACATGTCAT
105564 CAGTTCCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (37 bp):
TAATAACATGATATTACCTTATGTGACATGTCATTAG
Found at i:110121 original size:27 final size:27
Alignment explanation
Indices: 110088--110139 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
110078 TTATATTTTT
* *
110088 TAAAAACTC-AAAATTTTGAAAAACTTG
1 TAAAAACCCTAAAACTTT-AAAAACTTG
110115 TAAAAACCCTAAAACTTTAAAAACT
1 TAAAAACCCTAAAACTTTAAAAACT
110140 CTAATTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (27 bp):
TAAAAACCCTAAAACTTTAAAAACTTG
Found at i:110137 original size:17 final size:18
Alignment explanation
Indices: 110107--110143 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
110097 AAAATTTTGA
110107 AAAACTTGTAAAAACCCT
1 AAAACTTGTAAAAACCCT
*
110125 AAAACTT-TAAAAACTCT
1 AAAACTTGTAAAAACCCT
110142 AA
1 AA
110144 TTTCAACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAACTTGTAAAAACCCT
Found at i:117975 original size:22 final size:22
Alignment explanation
Indices: 117947--118013 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
117937 ACATTTTAAG
117947 GGGGGCTAGGCCTAGGATTGGC
1 GGGGGCTAGGCCTAGGATTGGC
117969 GGGGGCTAGGCCTAGGATTGGC
1 GGGGGCTAGGCCTAGGATTGGC
117991 GGGGGCTAGGCCTAGGATTGGC
1 GGGGGCTAGGCCTAGGATTGGC
118013 G
1 G
118014 TGTGCTGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.13, C:0.18, G:0.51, T:0.18
Consensus pattern (22 bp):
GGGGGCTAGGCCTAGGATTGGC
Found at i:120680 original size:17 final size:18
Alignment explanation
Indices: 120648--120681 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
120638 TATCGTGAAC
*
120648 GTATTGGATTTTTTACAT
1 GTATTGGATATTTTACAT
120666 GTATTGGA-ATTTTACA
1 GTATTGGATATTTTACA
120682 GTTGAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (18 bp):
GTATTGGATATTTTACAT
Found at i:121445 original size:35 final size:36
Alignment explanation
Indices: 121404--121477 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
121394 ATTCATGTTC
*
121404 AAAATTCCAAAACACTTCAATTACATTCTAAA-CCT
1 AAAATTCCAAAACACTTCAATTACATACTAAACCCT
* *
121439 AAAATTCCAAAATACTTTAATTACATACTAAACCCT
1 AAAATTCCAAAACACTTCAATTACATACTAAACCCT
121475 AAA
1 AAA
121478 TTAAAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 29 0.83
36 6 0.17
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (36 bp):
AAAATTCCAAAACACTTCAATTACATACTAAACCCT
Found at i:121513 original size:34 final size:34
Alignment explanation
Indices: 121474--121548 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
121464 TACTAAACCC
121474 TAAATTAAAGTATTTTAAAATTTAGGGTTTAAAA
1 TAAATTAAAGTATTTTAAAATTTAGGGTTTAAAA
* * * * *
121508 TAAATTGAATTATTTTGAAATTTGGGGTTTAGAA
1 TAAATTAAAGTATTTTAAAATTTAGGGTTTAAAA
121542 TGAAATT
1 T-AAATT
121549 GAGGATGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 30 0.86
35 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (34 bp):
TAAATTAAAGTATTTTAAAATTTAGGGTTTAAAA
Done.