Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009355.1 Hibiscus syriacus cultivar Beakdansim tig00113159_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: 99507
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:2991 original size:21 final size:21
Alignment explanation
Indices: 2967--3009 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2957 AAAGAAAACT
*
2967 TTTTGAA-TAGTTTTTGAGTTG
1 TTTTGAAGT-GTTTTTGAATTG
*
2988 TTTTTAAGTGTTTTTGAATTG
1 TTTTGAAGTGTTTTTGAATTG
3009 T
1 T
3010 GTTTTAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (21 bp):
TTTTGAAGTGTTTTTGAATTG
Found at i:16150 original size:20 final size:20
Alignment explanation
Indices: 16125--16217 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
16115 TTTTCCCAAT
16125 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
16145 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
16165 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
16186 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
16207 TCGCAATGCGA
1 TCGCAATGCGA
16218 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:16167 original size:41 final size:41
Alignment explanation
Indices: 16122--16217 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
16112 CGATTTTCCC
*
16122 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
16163 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
16204 AAATCGCAATGCGA
1 AATTCGCAATGCGA
16218 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:16230 original size:41 final size:41
Alignment explanation
Indices: 16144--16278 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
16134 GAATAAGTAA
* * * *
16144 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
16185 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
16226 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
16267 TTCGCAACGCGA
1 ATCGCAACGCGA
16279 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:16231 original size:20 final size:20
Alignment explanation
Indices: 16206--16300 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
16196 AATTGAGAAA
*
16206 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
16226 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
16247 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
16267 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
16287 TTCGCAACGCGATA
1 ATCGCAACGCGATA
16301 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:16512 original size:22 final size:22
Alignment explanation
Indices: 16484--16526 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16474 CACTCTCTCA
16484 CCATCTCCGACGAAATCCGTCC
1 CCATCTCCGACGAAATCCGTCC
*
16506 CCATCTCCGGCGAAATCCGTC
1 CCATCTCCGACGAAATCCGTC
16527 TATCTAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCC
Found at i:18142 original size:18 final size:18
Alignment explanation
Indices: 18121--18165 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
18111 TCCACTTCGG
*
18121 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
18139 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
18157 GAGCCATCA
1 GAGCCATCA
18166 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:18687 original size:19 final size:20
Alignment explanation
Indices: 18644--18699 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
18634 TGCAACACGA
18644 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
18664 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
18683 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
18700 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:18707 original size:14 final size:14
Alignment explanation
Indices: 18688--18745 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
18678 ATGCGAAATG
18688 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
18702 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
18718 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
18734 AAAATCGCAACG
1 AAAATCGCAACG
18746 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:18730 original size:32 final size:33
Alignment explanation
Indices: 18672--18762 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
18662 GGAAATGGCT
*
18672 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
18705 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
18737 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
18763 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:18756 original size:19 final size:19
Alignment explanation
Indices: 18652--18767 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
18642 GAAAATGACT
***
18652 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
18672 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
18691 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
18705 ATCGCAACGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
18723 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
18737 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
18756 ATCGCAATGCGA
1 ATCGCAACGCGA
18768 TTTGTGTTTC
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
14 20 0.26
15 1 0.01
16 6 0.08
17 2 0.03
18 11 0.14
19 27 0.36
20 9 0.12
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:18798 original size:14 final size:15
Alignment explanation
Indices: 18779--18855 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 15
18769 TTGTGTTTCG
18779 CGTTGCGATTTTGT-
1 CGTTGCGATTTTGTC
*
18793 CGTTGCGATTTCATTTC
1 CGTTGCGATTT--TGTC
*
18810 GCGTTGCGATTTTCATTTC
1 -CGTTGCGA-TTT--TGTC
18829 GCGTTGCGATTTTGT-
1 -CGTTGCGATTTTGTC
18844 CGTTGCGATTTT
1 CGTTGCGATTTT
18856 CATTTCGCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 23 0.41
16 4 0.07
18 11 0.20
19 18 0.32
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.48
Consensus pattern (15 bp):
CGTTGCGATTTTGTC
Found at i:18816 original size:18 final size:18
Alignment explanation
Indices: 18774--18909 Score: 112
Period size: 18 Copynumber: 7.9 Consensus size: 18
18764 GCGATTTGTG
18774 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
18790 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
18806 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
18825 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
18841 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
* **
18858 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGAT-TTCA
*
18877 TTTC-CGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTCA
18895 TTTCGC-TTGCGATTT
1 TTTCGCGTTGCGATTT
18910 TAAGTTTCGT
Statistics
Matches: 98, Mismatches: 10, Indels: 23
0.75 0.08 0.18
Matches are distributed among these distances:
14 19 0.19
15 3 0.03
16 6 0.06
17 3 0.03
18 35 0.36
19 32 0.33
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.45
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:18839 original size:51 final size:52
Alignment explanation
Indices: 18774--18889 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 52
18764 GCGATTTGTG
* ***
18774 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCATTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
18825 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
18877 TTTC-CGTTGCGAT
1 TTTCGCGTTGCGAT
18890 AGTCATTTCG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 36 0.60
52 24 0.40
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (52 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
Found at i:20768 original size:14 final size:14
Alignment explanation
Indices: 20749--20784 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20739 ATTGTTTAAT
20749 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
20763 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
20777 TGATTTGT
1 TGATTTGT
20785 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:20923 original size:19 final size:19
Alignment explanation
Indices: 20901--20968 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
20891 ATCGCAACGA
*
20901 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
20920 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
20939 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
20953 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
20969 TTTCATTTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 29 0.64
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:21011 original size:20 final size:20
Alignment explanation
Indices: 20986--21042 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
20976 TCGCATTGCG
*
20986 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
21006 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
21026 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
21043 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:21439 original size:14 final size:14
Alignment explanation
Indices: 21407--21440 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21397 GATTGTTTAA
21407 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
21421 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
21435 TTGATT
1 TTGATT
21441 GTTTAATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:21929 original size:581 final size:590
Alignment explanation
Indices: 21006--22981 Score: 3742
Period size: 581 Copynumber: 3.4 Consensus size: 590
20996 TGCGATAACC
21006 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
21071 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
21136 AAGTGCACACAT-AAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
21200 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
21265 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
21330 -GGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
21394 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGA-TTGTTTAATTGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
21458 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGA-TTTCAATCTGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
21522 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
521 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
21587 TTGCG
586 TTGCG
21592 ATTTTCGCGTTGCGATAACCA-TTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
21656 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTG-AAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
*
21720 AAGTGCACACAT-AAA-ACACATAATGCAAGTTTTGTTAACATATAT-C-CTTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
21781 ATGTTTGGTTAAGTACTTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
21846 -TGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
21910 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTA-TT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
21974 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
22039 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAAT-TGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGC-AA
22103 AACAGACTATCGCAACGCGAAATGGCTATCGCAACGAG-AAATCGCAATGCGATTTTCGTTTCGC
520 AACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGC
22167 ATTGCG
585 ATTGCG
22173 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTC-AATGAATGTCTAATAAGTGATGAC
1 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
22237 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
22302 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
22367 ATGTTTGGTTAAGTACCTAGAA-TCAATAATTTGATGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
22431 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
22496 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTA-T-TTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
22559 TTTGATTGTTTAATTGATTTGT-AAAGATGATTTGTAAATGTTGATTTGTTTAA-TGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
22622 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
*
22687 ACAGACTATCGCAACGCGAAATGTCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
521 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
22752 TTGCG
586 TTGCG
*
22757 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
22822 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
22887 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCC-TTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
22951 ATATTTGGTTAAGTACCTAGAATTCAATAAT
196 ATGTTTGGTTAAGTACCTAGAATTCAATAAT
22982 AATTGTTAAA
Statistics
Matches: 1366, Mismatches: 8, Indels: 33
0.97 0.01 0.02
Matches are distributed among these distances:
580 111 0.08
581 343 0.25
582 87 0.06
583 126 0.09
584 206 0.15
585 314 0.23
586 179 0.13
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (590 bp):
ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
TTGCG
Found at i:22007 original size:14 final size:14
Alignment explanation
Indices: 21988--22023 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
21978 ATTGTTTAAT
21988 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
22002 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
22016 TGATTTGT
1 TGATTTGT
22024 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:22589 original size:13 final size:14
Alignment explanation
Indices: 22573--22607 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
22563 ATTGTTTAAT
22573 TGATTTGTAAA-GA
1 TGATTTGTAAATGA
*
22586 TGATTTGTAAATGT
1 TGATTTGTAAATGA
22600 TGATTTGT
1 TGATTTGT
22608 TTAATGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
TGATTTGTAAATGA
Found at i:23898 original size:24 final size:24
Alignment explanation
Indices: 23842--23900 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
23832 AGTAAGTATT
* *
23842 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
23866 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
23890 CGAATTTTGAT
1 CGAAATTTGAT
23901 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:26393 original size:19 final size:19
Alignment explanation
Indices: 26371--26468 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
26361 GGAAATTACT
26371 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
26390 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
26404 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
26423 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
26437 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
26456 ATCGCAACGCGAA
1 ATCGCAATGCGAA
26469 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:26413 original size:33 final size:33
Alignment explanation
Indices: 26371--26464 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
26361 GGAAATTACT
26371 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
26404 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
26437 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
26465 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:26494 original size:18 final size:18
Alignment explanation
Indices: 26468--26505 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26458 CGCAACGCGA
*
26468 ATTTAATTTCGCGTTGCG
1 ATTTAATTTCGCATTGCG
*
26486 ATTTCATTTCGCATTGCG
1 ATTTAATTTCGCATTGCG
26504 AT
1 AT
26506 AGTACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (18 bp):
ATTTAATTTCGCATTGCG
Found at i:26631 original size:14 final size:14
Alignment explanation
Indices: 26612--26648 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
26602 CATCAATTAA
26612 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
26626 ACAAATCACCTTTT
1 ACAAATCAACTTTT
26640 ACAAATCAA
1 ACAAATCAA
26649 TTAAACAATC
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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:28064 original size:21 final size:21
Alignment explanation
Indices: 27998--28064 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
27988 GTGAATCGGG
*
27998 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
28018 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
28040 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
28061 CTCT
1 CTCT
28065 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:28083 original size:42 final size:41
Alignment explanation
Indices: 27998--28120 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
27988 GTGAATCGGG
* * * * *
27998 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
28040 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
28082 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
28121 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:30147 original size:20 final size:19
Alignment explanation
Indices: 30102--30261 Score: 115
Period size: 19 Copynumber: 8.8 Consensus size: 19
30092 TCATTTGGTT
30102 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
30121 GATAATGAGAATTGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
30142 GAAATGACTATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
30161 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
30175 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
30194 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
30208 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
30227 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
30246 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
30262 TGCGATTTTG
Statistics
Matches: 112, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
14 18 0.16
16 4 0.04
17 4 0.04
19 58 0.52
20 26 0.23
21 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:30184 original size:33 final size:33
Alignment explanation
Indices: 30127--30261 Score: 144
Period size: 33 Copynumber: 3.9 Consensus size: 33
30117 ACGAGATAAT
* *
30127 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
30161 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
30194 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA--CG--A
* **
30231 TGAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGACTATCGCAA
30262 TGCGATTTTG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 44 0.49
34 13 0.15
35 2 0.02
37 1 0.01
38 29 0.33
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:30219 original size:19 final size:19
Alignment explanation
Indices: 30197--30266 Score: 131
Period size: 19 Copynumber: 3.7 Consensus size: 19
30187 GCGACGAGAG
30197 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
30216 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
30235 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
30254 AATCGCAATGCGA
1 AATCGCAACGCGA
30267 TTTTGGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:30858 original size:20 final size:20
Alignment explanation
Indices: 30833--30880 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
30823 AAGTAAATCG
*
30833 CGTTGCGAAAGTCAGTATCT
1 CGTTGCGAAAGTAAGTATCT
30853 CGTTGCGAAAGTAAGTATCT
1 CGTTGCGAAAGTAAGTATCT
30873 CGTTGCGA
1 CGTTGCGA
30881 TTTTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (20 bp):
CGTTGCGAAAGTAAGTATCT
Found at i:30899 original size:21 final size:21
Alignment explanation
Indices: 30866--30945 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
30856 TGCGAAAGTA
* * *
30866 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
30887 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
30907 AGTATCGCATTGCGATTTTCTC
1 AGTATCGCATTGCGATTTT-TC
* *
30929 AAT-TCGCGTTGCGATTT
1 AGTATCGCATTGCGATTT
30946 ACTTATTCGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.35
21 26 0.57
22 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:30914 original size:20 final size:20
Alignment explanation
Indices: 30829--30922 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
30819 CGCTAAGTAA
*
30829 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
30849 ATCTCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
30869 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
30890 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
30910 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
30923 TTTCTCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:30941 original size:41 final size:41
Alignment explanation
Indices: 30853--30984 Score: 124
Period size: 41 Copynumber: 3.2 Consensus size: 41
30843 GTCAGTATCT
* * * * *
30853 CGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATTATCG
1 CGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT-TCG
* *
30894 CATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAATTCG
1 CGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAATTCG
* ** * *
30935 CGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAATTCG
1 CGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCTCAATTCG
30976 CGTTGCGAT
1 CGTTGCGAT
30985 TTACTTATTC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 69 0.92
42 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAATTCG
Found at i:30955 original size:20 final size:20
Alignment explanation
Indices: 30911--31003 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
30901 ATAGTCAGTA
*
30911 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
30932 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
30952 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
30973 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
30993 TCGCATTGCGA
1 TCGCATTGCGA
31004 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:30985 original size:41 final size:41
Alignment explanation
Indices: 30911--31006 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
30901 ATAGTCAGTA
* *
30911 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
30952 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
30993 TCGCATTGCGAATT
1 TCGCATTGCGAATT
31007 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:44790 original size:4 final size:4
Alignment explanation
Indices: 44781--44805 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
44771 CTTCTATTAT
44781 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
44806 GTAATTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:49558 original size:29 final size:29
Alignment explanation
Indices: 49510--49597 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
49500 TAACTCTCGC
*
49510 TTAACTAAATTGATGTAAGCAATGACATCA
1 TTAATTAAA-TGATGTAAGCAATGACATCA
* *
49540 TTACTTAAATGATGTAAGCAATGACATCT
1 TTAATTAAATGATGTAAGCAATGACATCA
*
49569 TTAATTAAATGATGTAAGTAATGACATCA
1 TTAATTAAATGATGTAAGCAATGACATCA
49598 ATTTAGTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 45 0.87
30 7 0.13
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TTAATTAAATGATGTAAGCAATGACATCA
Found at i:54318 original size:29 final size:29
Alignment explanation
Indices: 54275--54357 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
54265 CTCACCTAAC
*
54275 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
54305 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
54334 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
54358 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:55165 original size:21 final size:21
Alignment explanation
Indices: 55139--55185 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
55129 GATTCGCAAC
55139 GCGAACTTCGACTATCACAAT
1 GCGAACTTCGACTATCACAAT
* *
55160 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCACAAT
55181 GCGAA
1 GCGAA
55186 TATGTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
GCGAACTTCGACTATCACAAT
Found at i:55223 original size:62 final size:62
Alignment explanation
Indices: 55146--55287 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 62
55136 AACGCGAACT
*
55146 TCGACTATCACAATGCGAACTTGGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAG
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAG
* * * * *
55208 TCGATTATCGCAATGCAAACTTGGACTATTGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGATTTACATATTCGCAATGCGATAG
*
55270 TCGACTATCGCATTGCGA
1 TCGACTATCGCAATGCGA
55288 TTTACATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 2 0.03
60 2 0.03
61 3 0.04
62 61 0.90
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (62 bp):
TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGATTTACATATTCGCAATGCGATAG
Found at i:55260 original size:41 final size:41
Alignment explanation
Indices: 55231--55332 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
55221 TGCAAACTTG
* * *
55231 GACTATTGCATTGCGATTTACATATTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCAATGCGAAAGTC
* *
55272 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCC
1 GACTATCGCATTGCGATTTACATATTCGCAATGCGAAAGT-C
* *
55314 AAGT-TCGCATTGCGATTTA
1 GACTATCGCATTGCGATTTA
55333 TTCCAAATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 54 0.95
42 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
GACTATCGCATTGCGATTTACATATTCGCAATGCGAAAGTC
Found at i:55263 original size:20 final size:20
Alignment explanation
Indices: 55234--55332 Score: 98
Period size: 21 Copynumber: 4.9 Consensus size: 20
55224 AAACTTGGAC
55234 TATT-GCATTGCGATTTACA
1 TATTCGCATTGCGATTTACA
*
55253 TATTCGCATTGCGATAGT-CGA
1 TATTCGCATTGCGAT-TTAC-A
55274 CTA-TCGCATTGCGATTTACA
1 -TATTCGCATTGCGATTTACA
* *
55294 TATTCGCATTGCGATAGTCCA
1 TATTCGCATTGCGAT-TTACA
55315 -AGTTCGCATTGCGATTTA
1 TA-TTCGCATTGCGATTTA
55333 TTCCAAATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
19 6 0.09
20 27 0.41
21 31 0.47
22 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (20 bp):
TATTCGCATTGCGATTTACA
Found at i:55945 original size:5 final size:5
Alignment explanation
Indices: 55937--55977 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
55927 CCATCTCGTC
55937 TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG
55978 TGATCGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:55966 original size:6 final size:6
Alignment explanation
Indices: 55940--55999 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
55930 TCTCGTCTCG
*
55940 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GATCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* *
55985 GATCGT GATCGT GGT
1 GGTCGT GGTCGT GGT
56000 AATACGTGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
5 15 0.29
6 37 0.71
ACGTcount: A:0.05, C:0.17, G:0.48, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:56188 original size:42 final size:42
Alignment explanation
Indices: 56134--56659 Score: 849
Period size: 42 Copynumber: 12.6 Consensus size: 42
56124 AACTTCGACT
* * *
56134 ATCGCAA--CGAACTTGGAATATCGCAACAAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* *
56174 ATCACAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* *
56216 ATCGCAATGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* * *
56258 ATCGCAACGCGAACTTCGACTATCGCAATGAACTTAGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* *
56300 ATCGCAACGCGAACTTGGACTATCACAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
*
56342 ATCGCAACGCGAACTTTGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
56384 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
*
56426 ATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
*
56468 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
**
56510 ATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* *
56552 ATCGCAACGCGAACTTTGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* *
56594 ATCGCAACGCGAACTTCGACTTTCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
56636 ATCGCAACGCGAACTTGGACTATC
1 ATCGCAACGCGAACTTGGACTATC
56660 ACAATGCGAA
Statistics
Matches: 447, Mismatches: 37, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
40 6 0.01
42 441 0.99
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
Found at i:57593 original size:16 final size:16
Alignment explanation
Indices: 57572--57632 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
57562 TAATAAATAA
57572 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
57588 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
57604 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
57620 ACGAATATAAACG
1 ACGAACATAAACG
57633 TTGGAGACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.57, C:0.21, G:0.11, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:58741 original size:24 final size:24
Alignment explanation
Indices: 58706--58780 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
58696 GATTGGGTTA
* *
58706 AACATAAATGAATGAACATAAACG
1 AACATAACTGAACGAACATAAACG
58730 AACATAACTGAACGAACATAAACG
1 AACATAACTGAACGAACATAAACG
* *
58754 AACATAACCGAACGAACATAACCG
1 AACATAACTGAACGAACATAAACG
58778 AAC
1 AAC
58781 GTTCACGAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAACTGAACGAACATAAACG
Found at i:58743 original size:14 final size:14
Alignment explanation
Indices: 58726--58781 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
58716 AATGAACATA
*
58726 AACGAACATAACTG
1 AACGAACATAACCG
58740 AACGAACAT-A---
1 AACGAACATAACCG
58750 AACGAACATAACCG
1 AACGAACATAACCG
58764 AACGAACATAACCG
1 AACGAACATAACCG
58778 AACG
1 AACG
58782 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:58780 original size:10 final size:10
Alignment explanation
Indices: 58719--58766 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
58709 ATAAATGAAT
58719 GAACATAAAC
1 GAACATAAAC
58729 GAACATAACTGAAC
1 GAACAT-A---AAC
58743 GAACATAAAC
1 GAACATAAAC
*
58753 GAACATAACC
1 GAACATAAAC
58763 GAAC
1 GAAC
58767 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:59476 original size:33 final size:33
Alignment explanation
Indices: 59392--59456 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
59382 TTTATTATAA
*
59392 ATAATA-TATAA-A-AATATATTAATGTTATTT
1 ATAATATTATAATACAATATATTAATATTATTT
*
59422 ATAATATTATAATACAATATATTTATATTATTT
1 ATAATATTATAATACAATATATTAATATTATTT
59455 AT
1 AT
59457 TATTTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 6 0.20
31 5 0.17
32 1 0.03
33 18 0.60
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (33 bp):
ATAATATTATAATACAATATATTAATATTATTT
Found at i:59488 original size:38 final size:38
Alignment explanation
Indices: 59446--59522 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
59436 CAATATATTT
* * *
59446 ATATT-ATTTATTATTTTGAAATA-TAATATATATTCTAA
1 ATATTAATTTA-T-TTTTAAAATATTAATAAATAATCTAA
59484 ATATTAATTTATTTTTAAAATATTAATAAATAATCTAA
1 ATATTAATTTATTTTTAAAATATTAATAAATAATCTAA
59522 A
1 A
59523 CTATATGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 9 0.26
38 20 0.59
39 5 0.15
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
ATATTAATTTATTTTTAAAATATTAATAAATAATCTAA
Found at i:59491 original size:19 final size:19
Alignment explanation
Indices: 59464--59522 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
59454 TATTATTTTG
59464 AAATA-TAATATATATTCT
1 AAATATTAATATATATTCT
* *
59482 AAATATTAATTTAT-TTTT
1 AAATATTAATATATATTCT
* *
59500 AAAATATTAATAAATAATCT
1 -AAATATTAATATATATTCT
59520 AAA
1 AAA
59523 CTATATGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 8 0.25
19 22 0.69
20 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATTAATATATATTCT
Found at i:60649 original size:23 final size:23
Alignment explanation
Indices: 60623--60667 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
60613 CACCACAGCT
*
60623 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
60646 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
60668 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:60950 original size:149 final size:152
Alignment explanation
Indices: 60635--60955 Score: 551
Period size: 149 Copynumber: 2.1 Consensus size: 152
60625 TATAATTGCA
*
60635 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
*
60699 TTCCTTAAGAATCATATACATATACATATACTAGGGATCAATTATGTGTCTTTCAAGACTTCACA
65 TTCCTTAAG-A--ATATACATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACA
60764 CATGTTCCAAAGAATATACATATGTC
127 CATGTTCCAAAGAATATACATATGTC
60790 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
*
60855 TCCTTAAG-A-AT-CATATACATATACTAGGGATCAAGTATGTGTCTTTTAAGACTTCACACATG
66 TCCTTAAGAATATACATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATG
60917 TTCCAAAGAATATACATATGTC
131 TTCCAAAGAATATACATATGTC
60939 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
60956 CCCTCGACTC
Statistics
Matches: 162, Mismatches: 3, Indels: 8
0.94 0.02 0.05
Matches are distributed among these distances:
149 88 0.54
150 2 0.01
151 1 0.01
154 1 0.01
155 70 0.43
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (152 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATATACATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATG
TTCCAAAGAATATACATATGTC
Found at i:62686 original size:21 final size:21
Alignment explanation
Indices: 62662--62706 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
62652 TGTTGTTCGT
* *
62662 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
62683 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
62704 TTG
1 TTG
62707 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:64187 original size:188 final size:186
Alignment explanation
Indices: 63829--64221 Score: 612
Period size: 188 Copynumber: 2.1 Consensus size: 186
63819 TTTTCTAATT
* * * * *
63829 TATATAA-AAATTAAATGTTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAAAAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAAAAATATATAAT
*
63893 TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAATTTATT
66 TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
*
63958 AGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCAATATATTATTA
131 AGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCAATATATTA-TA
*
64015 TATATAATATATTTAATATTTTTTAATTAAAAAAATAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAAAAATATATAA
* *
64080 TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
65 TTATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
* * *
64145 T-GAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGATCCTATATGTTATA
130 TAG-ATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCAATATATTATA
*
64202 TATA-AATATATTTAAAATTT
1 TATATAATATATTTAATATTT
64222 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
186 22 0.12
187 30 0.16
188 138 0.73
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAAAAATATATAAT
TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
AGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCAATATATTATA
Found at i:66142 original size:30 final size:29
Alignment explanation
Indices: 66098--66154 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
66088 TTATCAGATT
*
66098 TTCGAAAAAAAAAATAACCGAAAATATTA
1 TTCGAAAAAAAAAATAACCAAAAATATTA
*
66127 TTCGAAAGTAAAAAATAACCAAAAATAT
1 TTCGAAA-AAAAAAATAACCAAAAATAT
66155 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.21
Consensus pattern (29 bp):
TTCGAAAAAAAAAATAACCAAAAATATTA
Found at i:70243 original size:13 final size:13
Alignment explanation
Indices: 70225--70268 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
70215 ACGATTTATA
70225 AAATAAATAAAGT
1 AAATAAATAAAGT
70238 AAATAAATAAAGT
1 AAATAAATAAAGT
*
70251 CAACATAAA-AAATT
1 -AA-ATAAATAAAGT
70265 AAAT
1 AAAT
70269 TTTGGATACC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.07
13 15 0.54
14 6 0.21
15 5 0.18
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (13 bp):
AAATAAATAAAGT
Found at i:72581 original size:16 final size:16
Alignment explanation
Indices: 72562--72622 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
72552 CACGTTGATC
*
72562 TCGTTGCTTGTTAAAT
1 TCGTTGCTCGTTAAAT
*
72578 TCGTTACTCGTT-AAT
1 TCGTTGCTCGTTAAAT
* *
72593 CTTGTTGCTCATTAAAT
1 -TCGTTGCTCGTTAAAT
*
72610 TCGATGCTCGTTA
1 TCGTTGCTCGTTA
72623 CTTGTTAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 3 0.09
16 29 0.83
17 3 0.09
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (16 bp):
TCGTTGCTCGTTAAAT
Found at i:72583 original size:32 final size:32
Alignment explanation
Indices: 72532--72612 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
72522 TAAAAAACTT
* ** *
72532 GTTGTTCATTAAACACGTTACACGTTGATCTC
1 GTTGCTCATTAAATTCGTTACACGTTAATCTC
** * *
72564 GTTGCTTGTTAAATTCGTTACTCGTTAATCTT
1 GTTGCTCATTAAATTCGTTACACGTTAATCTC
72596 GTTGCTCATTAAATTCG
1 GTTGCTCATTAAATTCG
72613 ATGCTCGTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (32 bp):
GTTGCTCATTAAATTCGTTACACGTTAATCTC
Found at i:72620 original size:32 final size:32
Alignment explanation
Indices: 72554--72622 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
72544 ACACGTTACA
* ** *
72554 CGTTGATCTCGTTGCTTGTTAAATTCGTTACT
1 CGTTAATCTCGTTGCTCATTAAATTCGATACT
* *
72586 CGTTAATCTTGTTGCTCATTAAATTCGATGCT
1 CGTTAATCTCGTTGCTCATTAAATTCGATACT
72618 CGTTA
1 CGTTA
72623 CTTGTTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (32 bp):
CGTTAATCTCGTTGCTCATTAAATTCGATACT
Found at i:73846 original size:25 final size:24
Alignment explanation
Indices: 73804--73852 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
73794 AATTATTATA
*
73804 TTAAATAAATATCATAAAATAAATT
1 TTAAATAAAAATCATAAAA-AAATT
**
73829 TTAAATAAAAATTTTAAAAAAATT
1 TTAAATAAAAATCATAAAAAAATT
73853 ATTTAGTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TTAAATAAAAATCATAAAAAAATT
Found at i:77227 original size:138 final size:137
Alignment explanation
Indices: 77014--77515 Score: 781
Period size: 138 Copynumber: 3.6 Consensus size: 137
77004 TGTCCATACC
*
77014 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGTGCCTTCCATTATTTTGTCAGCA-AATATGTTATC
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAG-ATAATATGTTATC
* *
77078 ATTGCCCTATTATGTCACTCATGTCTCCCGGAGAAATATTCATGTCAGTACCTATTATTTTTTAT
65 ATTGCCCTATTATGTCACTCATGTC-CCCGGAGAACTATTCATGTCAGTACCTATTATTTCTTAT
77143 GAGACTTGG
129 GAGACTTGG
* * *
77152 TAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCATTCCATTATTTTTTCAGATAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCA
*
77217 TTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
66 TTGCCCTATTATGTCACTCATGTCCCC-GGAGAACTATTCATGTCAGTACCTATTATTTCTTATG
*
77282 GGACTTGG
130 AGACTTGG
* * * * *
77290 CAAACTAGTGAAAGCGCGTTCCTAGGGGTGCGCCTTCCATTATTTTGTCATATAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCA
* *
77355 TTGCCCTATTATGTCACTCATGTCCCCCGAAGAACTATTTATGTCAGTACCTATTATTTCTTATG
66 TTGCCCTATTATGTCACTCATGT-CCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTTATG
77420 AGACTTGG
130 AGACTTGG
* * * *
77428 CAAAGTGGTGAAAGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCA
*
77493 TTGCCCTATTATGTTACTCATGT
66 TTGCCCTATTATGTCACTCATGT
77516 GAAATTTGAT
Statistics
Matches: 331, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
137 4 0.01
138 323 0.98
139 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (137 bp):
CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTTATGA
GACTTGG
Found at i:77636 original size:63 final size:63
Alignment explanation
Indices: 77557--77680 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
77547 GTTATGTGAA
* * *
77557 GTTTGAATAAATTGGATAAAGTGTTATGAATAAATTGAATAAATGTGAAGTCATCAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAAAAAATGTGAAGTCATAAGTTGGTT
* * *
77620 GTTTGAATATATTGGATAAAATGTTATGGATAAATTGAAAAAATGTGAAGTGATAAGTTGG
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAAAAAATGTGAAGTCATAAGTTGG
77681 CTGACATTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAAAAAATGTGAAGTCATAAGTTGGTT
Found at i:77911 original size:34 final size:34
Alignment explanation
Indices: 77872--77944 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
77862 TTAAGTTGAA
*
77872 TTTAATGTTAAATTTTGAATACCATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
* *
77906 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
*
77940 ATTAA
1 TTTAA
77945 AAACATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACCATAATTTGTAT
Found at i:78493 original size:21 final size:20
Alignment explanation
Indices: 78469--78518 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
78459 CGGGATACGC
*
78469 ATGTAACCTGGTGGGCTAGGA
1 ATGTAACCT-GAGGGCTAGGA
78490 ATGTAACCCTGAGGGCTAGGA
1 ATGTAA-CCTGAGGGCTAGGA
78511 ATGTAACC
1 ATGTAACC
78519 CTGTGGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (20 bp):
ATGTAACCTGAGGGCTAGGA
Found at i:78519 original size:21 final size:21
Alignment explanation
Indices: 78481--78521 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
78471 GTAACCTGGT
78481 GGGCTAGGAATGTAACCCTGA
1 GGGCTAGGAATGTAACCCTGA
78502 GGGCTAGGAATGTAACCCTG
1 GGGCTAGGAATGTAACCCTG
78522 TGGAGATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.20
Consensus pattern (21 bp):
GGGCTAGGAATGTAACCCTGA
Found at i:78548 original size:42 final size:42
Alignment explanation
Indices: 78500--78590 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
78490 ATGTAACCCT
* *
78500 GAGGGCTAGGAATGTAACCCTGTGGAGATGGCATATAAACTG
1 GAGGGCTAGGAATATAACCCTGAGGAGATGGCATATAAACTG
* * * * * * *
78542 GTGGGCTTGGCATATACCCCTGAGGATATGGCATCTGAACTG
1 GAGGGCTAGGAATATAACCCTGAGGAGATGGCATATAAACTG
78584 GAGGGCT
1 GAGGGCT
78591 GGGCATCATC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (42 bp):
GAGGGCTAGGAATATAACCCTGAGGAGATGGCATATAAACTG
Found at i:78596 original size:42 final size:42
Alignment explanation
Indices: 78517--78596 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
78507 AGGAATGTAA
* * *
78517 CCCTGTGGAGATGGCATATAAACTGGTGGGCTTGGCATATAC
1 CCCTGAGGAGATGGCATATAAACTGGAGGGCTGGGCATATAC
* * *
78559 CCCTGAGGATATGGCATCTGAACTGGAGGGCTGGGCAT
1 CCCTGAGGAGATGGCATATAAACTGGAGGGCTGGGCAT
78597 CATCATCGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.24
Consensus pattern (42 bp):
CCCTGAGGAGATGGCATATAAACTGGAGGGCTGGGCATATAC
Found at i:80108 original size:28 final size:30
Alignment explanation
Indices: 80044--80110 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
80034 TCAGTTTTCT
80044 AAATAATATGCATTATAAAAATTTATAATTA
1 AAATAATATGCATTAT-AAAATTTATAATTA
* *
80075 ATATAA-ATTCATTAT-AAATTTA-AATTAA
1 AAATAATATGCATTATAAAATTTATAATT-A
80103 AAATAATA
1 AAATAATA
80111 ATAAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.13
28 13 0.42
29 1 0.03
30 8 0.26
31 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
AAATAATATGCATTATAAAATTTATAATTA
Found at i:80257 original size:15 final size:15
Alignment explanation
Indices: 80239--80305 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
80229 TAATTAGCAC
80239 AAAAATAATTAAATA
1 AAAAATAATTAAATA
80254 AAAAAT--TTAAATA
1 AAAAATAATTAAATA
*
80267 AAAAATAATTATATA
1 AAAAATAATTAAATA
* * *
80282 AATATTAATTTAATA
1 AAAAATAATTAAATA
80297 AAAAATAAT
1 AAAAATAAT
80306 ATTTATATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.30
15 30 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATAATTAAATA
Found at i:80269 original size:12 final size:13
Alignment explanation
Indices: 80247--80272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80237 ACAAAAATAA
80247 TTAAATAAAAAAT
1 TTAAATAAAAAAT
80260 TTAAATAAAAAAT
1 TTAAATAAAAAAT
80273 AATTATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAATAAAAAAT
Found at i:80275 original size:28 final size:29
Alignment explanation
Indices: 80239--80305 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
80229 TAATTAGCAC
80239 AAAAATAATTAAATAAA-A-AATTTAAATA
1 AAAAATAATTAAATAAATATAATTT-AATA
*
80267 AAAAATAATTATATAAATATTAATTTAATA
1 AAAAATAATTAAATAAATA-TAATTTAATA
80297 AAAAATAAT
1 AAAAATAAT
80306 ATTTATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 16 0.46
29 1 0.03
30 13 0.37
31 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAAATAATTAAATAAATATAATTTAATA
Found at i:82206 original size:184 final size:186
Alignment explanation
Indices: 81967--82348 Score: 585
Period size: 185 Copynumber: 2.1 Consensus size: 186
81957 AACCGAAATT
*
81967 AAATTTTAAATATATTATTATATATAACATATGAGCTAAGCCCAAATAATTTAAAA-CACAATTA
1 AAATTTT-AATATATTATTATATATAACATATGAGCTAAGCCCAAACAATTTAAAATC-CAATTA
* *
82031 ATAATTTAATATCCAATAA-GTTTAAATATAAATCAATATCAATTAATTAAAAAATTTATAT-AA
64 ATAATTTAAGATCCAATAACGTTTAAACATAAATCAATATCAATTAATT-AAAAATTTATATAAA
* *
82094 TTTTTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTTTGAATTAAA
128 TTTTTTATTTTATAATTATATATTATTTAAATTAAATATAAACTATTTTTTT-AATTAAA
* * * *
82154 AAATTTTAA-ATA-TATTATATATAACGTATGGGCTCAGCCCAAACCATTTAAAATCCAATTAAT
1 AAATTTTAATATATTATTATATATAACATATGAGCTAAGCCCAAACAATTTAAAATCCAATTAAT
* *
82217 AATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAATTTATATAAATTT
66 AATTTAAGATCCAATAACGTTTAAACATAAATCAATATCAATTAATTAAAAATTTATATAAATTT
82282 TTTATTTTATAATTATATATTATTTAAATTAAATATAAACTATTTTTTTAATTAAA
131 TTTATTTTATAATTATATATTATTTAAATTAAATATAAACTATTTTTTTAATTAAA
82338 AAATATTTAAT
1 AAAT-TTTAAT
82349 TTTTATATAA
Statistics
Matches: 179, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
184 83 0.46
185 87 0.49
186 2 0.01
187 7 0.04
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (186 bp):
AAATTTTAATATATTATTATATATAACATATGAGCTAAGCCCAAACAATTTAAAATCCAATTAAT
AATTTAAGATCCAATAACGTTTAAACATAAATCAATATCAATTAATTAAAAATTTATATAAATTT
TTTATTTTATAATTATATATTATTTAAATTAAATATAAACTATTTTTTTAATTAAA
Found at i:82389 original size:28 final size:25
Alignment explanation
Indices: 82329--82397 Score: 59
Period size: 28 Copynumber: 2.5 Consensus size: 25
82319 AACTATTTTT
82329 TTAATTAAAAAATATTTAATTTTTATA
1 TTAATT-AAAAAT-TTTAATTTTTATA
*
82356 TAAATTAGAAAATTTTAAAATTTTT-TA
1 TTAATTA-AAAATTTT--AATTTTTATA
82383 GTTAATTCAAAAATT
1 -TTAATT-AAAAATT
82398 AACCGAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 4 0.11
27 12 0.34
28 18 0.51
29 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (25 bp):
TTAATTAAAAATTTTAATTTTTATA
Found at i:82811 original size:21 final size:21
Alignment explanation
Indices: 82787--82826 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
82777 TGCGATATTC
82787 ATTTACTTTTCAGATAAATTT
1 ATTTACTTTTCAGATAAATTT
* **
82808 ATTTATTTTTTGGATAAAT
1 ATTTACTTTTCAGATAAAT
82827 AACACAATAG
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:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTACTTTTCAGATAAATTT
Found at i:83200 original size:41 final size:41
Alignment explanation
Indices: 83148--83250 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
83138 TTTTAATATT
*
83148 TTATTGATCACATATTTAAATAAATATATTCTCTCAATT-ATA
1 TTATTCATCACATATTTAAATAAATATATTCT-T-AATTAATA
*
83190 -TATTCATCACATATTTAAATAAATATATTCTTATTTAATA
1 TTATTCATCACATATTTAAATAAATATATTCTTAATTAATA
83230 TTTTATTCATCACATATTTAA
1 --TTATTCATCACATATTTAA
83251 TATTTTATAC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
39 3 0.05
40 4 0.07
41 30 0.55
43 18 0.33
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.48
Consensus pattern (41 bp):
TTATTCATCACATATTTAAATAAATATATTCTTAATTAATA
Found at i:83630 original size:22 final size:21
Alignment explanation
Indices: 83605--83647 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
83595 AGTTTAAATT
*
83605 AATATAATTGATTAAAATAAAA
1 AATATAATTGAAT-AAATAAAA
83627 AATATAATTGAATAAATAAAA
1 AATATAATTGAATAAATAAAA
83648 TAAGAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AATATAATTGAATAAATAAAA
Found at i:86583 original size:7 final size:7
Alignment explanation
Indices: 86571--86612 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
86561 GGGTAGAAAG
86571 TTGCAGC
1 TTGCAGC
86578 TTGCAGC
1 TTGCAGC
86585 TTGCAGC
1 TTGCAGC
86592 TTGCAGC
1 TTGCAGC
86599 TTGCAGC
1 TTGCAGC
86606 TTGCAGC
1 TTGCAGC
86613 AGGTAGTCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
TTGCAGC
Found at i:87237 original size:18 final size:19
Alignment explanation
Indices: 87202--87238 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
87192 CACGAAATGT
87202 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
87222 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
87239 GGATTACCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:87463 original size:37 final size:37
Alignment explanation
Indices: 87390--87464 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
87380 GTTGGAAAAT
* *
87390 ATTTATATATTTTTTTAAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTTAAAAAAATTGAAAATCATAAA
* *
87427 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTTTTAAAAAAATTGAAAATCATAAA
87464 A
1 A
87465 GGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTTTTAAAAAAATTGAAAATCATAAA
Found at i:88555 original size:21 final size:21
Alignment explanation
Indices: 88517--88557 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
88507 AATGTTATTC
*
88517 TAAAAATTTTAGTGATTTAAT
1 TAAAAATTTTAGTAATTTAAT
88538 TAAAATATTTTA-TAATTTAA
1 TAAAA-ATTTTAGTAATTTAA
88558 AGTCCGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TAAAAATTTTAGTAATTTAAT
Found at i:89698 original size:29 final size:29
Alignment explanation
Indices: 89665--89749 Score: 136
Period size: 29 Copynumber: 2.9 Consensus size: 29
89655 TCCCAACACA
*
89665 TAGGTCGACATGCCTTCCGGGCGACCTTG
1 TAGGTCGCCATGCCTTCCGGGCGACCTTG
*
89694 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCTTCCGGGCGACCTTG
89723 TAGGTCGCCATGCACTT-CGGGCGACCT
1 TAGGTCGCCATGC-CTTCCGGGCGACCT
89750 ACCCTCGCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 50 0.96
30 2 0.04
ACGTcount: A:0.13, C:0.34, G:0.31, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCGGGCGACCTTG
Found at i:89779 original size:23 final size:23
Alignment explanation
Indices: 89753--89816 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
89743 GCGACCTACC
89753 CTCGCTCGGCTT-CCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGCATAG
*
89776 CTCGCTCGGTTGCCCTCGTATAG
1 CTCGCTCGGTTGCCCTCGCATAG
* * *
89799 CTCGTTCGGATGGCCTCG
1 CTCGCTCGGTTGCCCTCG
89817 GATGCTCTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.08, C:0.38, G:0.27, T:0.28
Consensus pattern (23 bp):
CTCGCTCGGTTGCCCTCGCATAG
Found at i:89819 original size:10 final size:10
Alignment explanation
Indices: 89804--89860 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
89794 TATAGCTCGT
89804 TCGGATGGCC
1 TCGGATGGCC
89814 TCGGAT-GCTC
1 TCGGATGGC-C
*
89824 TGGGATGGCC
1 TCGGATGGCC
89834 TCGGAT-GCTC
1 TCGGATGGC-C
89844 TCGGATGGCC
1 TCGGATGGCC
*
89854 TAGGATG
1 TCGGATG
89861 CCCAGCGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 4 0.10
10 32 0.80
11 4 0.10
ACGTcount: A:0.12, C:0.25, G:0.39, T:0.25
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:89831 original size:20 final size:20
Alignment explanation
Indices: 89804--89861 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
89794 TATAGCTCGT
89804 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
89824 TGGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
89844 TCGGATGGCCTAGGATGC
1 TCGGATGGCCTCGGATGC
89862 CCAGCGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.24
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:90768 original size:2 final size:2
Alignment explanation
Indices: 90761--90795 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
90751 ATTTTATACG
90761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90796 GTTTGCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90870 original size:35 final size:33
Alignment explanation
Indices: 90823--90938 Score: 115
Period size: 35 Copynumber: 3.3 Consensus size: 33
90813 GAAAATACAT
90823 ATATAATATATAGTCTTTAAAAAAACATTTTTAAAA
1 ATAT-ATATATAGT-TTTAAAAAAA-ATTTTTAAAA
* * *
90859 ATATATATATAGTTTTTAAAACAATTTTTTGAAAT
1 ATATATATATAG-TTTTAAAAAAAATTTTT-AAAA
* * *
90894 ATATATTATATAGTTTTGAAAAATAGTTTTTTAAA
1 ATATA-TATATAGTTTT-AAAAAAAATTTTTAAAA
90929 ATATATATAT
1 ATATATATAT
90939 TATATAGTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
34 10 0.15
35 36 0.53
36 22 0.32
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (33 bp):
ATATATATATAGTTTTAAAAAAAATTTTTAAAA
Found at i:90925 original size:38 final size:38
Alignment explanation
Indices: 90850--91224 Score: 478
Period size: 38 Copynumber: 9.9 Consensus size: 38
90840 TAAAAAAACA
* * *
90850 TTTTT-AAAA-ATATA-TATATAGTTTTTAAAA-CAAT
1 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
* *
90884 TTTTT-GAAATATATATTATATAGTTTTGAAAAATAGT
1 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
90921 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAGT
1 TTTTTAAAA-ATATATATTATATAGTTTTGAAAATTAGT
*
90960 TTTTAAAAAATATATATTATATAGTTTTGAAAATTAGT
1 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
**
90998 TTTAAAAAAATATATATTATATAGTTTTGAAAATTAG-
1 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
*
91035 TTTTTAAAATATATATATTATATAATTTTGAAAATTAG-
1 TTTTTAAAA-ATATATATTATATAGTTTTGAAAATTAGT
91073 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG-
1 TTTTTAAAA-ATATATATTATATAGTTTTGAAAATTAGT
* * *
91111 TTTTTAAAAATTATATATTACATAATTTTGAAAATTATT
1 TTTTTAAAAA-TATATATTATATAGTTTTGAAAATTAGT
* * *
91150 TTTTTCAAAACTATATATTATATGGTTTTGAAAATTATT
1 TTTTT-AAAAATATATATTATATAGTTTTGAAAATTAGT
*
91189 TTCTTTAAAAACATATATATTATATAGTTTTAAAAA
1 TT-TTT-AAAA-ATATATATTATATAGTTTTGAAAA
91225 AATATTTTTC
Statistics
Matches: 307, Mismatches: 23, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
34 8 0.03
35 5 0.02
36 15 0.05
37 15 0.05
38 164 0.53
39 68 0.22
40 11 0.04
41 21 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (38 bp):
TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
Found at i:91248 original size:18 final size:19
Alignment explanation
Indices: 91227--91267 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
91217 TTTAAAAAAA
91227 TATTTTTCTTTATTT-ATT
1 TATTTTTCTTTATTTCATT
91245 TATTTTTCTTTATTTCATT
1 TATTTTTCTTTATTTCATT
91264 TATT
1 TATT
91268 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTCTTTATTTCATT
Found at i:92626 original size:23 final size:23
Alignment explanation
Indices: 92597--92654 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
92587 AGCTCGACTC
92597 GAGCTCGATTGAAGCTCAATTTT
1 GAGCTCGATTGAAGCTCAATTTT
*
92620 GAGCTCGATTCAAGCTCAATTTT
1 GAGCTCGATTGAAGCTCAATTTT
92643 GAGCTCGATTGA
1 GAGCTCGATTGA
92655 CCCAGTCCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCAATTTT
Found at i:93918 original size:20 final size:20
Alignment explanation
Indices: 93865--93920 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
93855 AATCAGATTA
93865 AGGTTT-AGATTTTAGGGGTT
1 AGGTTTAAG-TTTTAGGGGTT
93885 AGGGTTTAAG-TTTAGGGGTT
1 A-GGTTTAAGTTTTAGGGGTT
93905 AGGTTTAAGTTTTAGG
1 AGGTTTAAGTTTTAGG
93921 TTTTATGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.24
20 18 0.55
21 5 0.15
22 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (20 bp):
AGGTTTAAGTTTTAGGGGTT
Found at i:93967 original size:21 final size:20
Alignment explanation
Indices: 93866--93973 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 20
93856 ATCAGATTAA
*
93866 GGTTTAGATTTTAGGGGTTAG
1 GGTTTAGA-TTTAGGGTTTAG
*
93887 GGTTTA-AGTTTAGGGGTTA-
1 GGTTTAGA-TTTAGGGTTTAG
* * *
93906 GGTTTAAGTTTTAGGTTTTAT
1 GGTTT-AGATTTAGGGTTTAG
* * * *
93927 GGATTATGATTTAAGATTTAA
1 GGTTTA-GATTTAGGGTTTAG
93948 GGTTTAGGATTTAGGGTTTAG
1 GGTTTA-GATTTAGGGTTTAG
93969 GGTTT
1 GGTTT
93974 TTAATAATTA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.07
20 23 0.33
21 41 0.59
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (20 bp):
GGTTTAGATTTAGGGTTTAG
Found at i:93970 original size:7 final size:7
Alignment explanation
Indices: 93875--93973 Score: 58
Period size: 7 Copynumber: 14.4 Consensus size: 7
93865 AGGTTTAGAT
93875 TTTAGGG
1 TTTAGGG
*
93882 GTTAGGG
1 TTTAGGG
*
93889 TTTA-AG
1 TTTAGGG
93895 TTTAGGG
1 TTTAGGG
*
93902 GTTA-GG
1 TTTAGGG
* *
93908 TTTAAGT
1 TTTAGGG
*
93915 TTTAGGT
1 TTTAGGG
*
93922 TTTATGG
1 TTTAGGG
* * *
93929 ATTATGA
1 TTTAGGG
* *
93936 TTTAAGA
1 TTTAGGG
*
93943 TTTAAGG
1 TTTAGGG
*
93950 TTTAGGA
1 TTTAGGG
93957 TTTAGGG
1 TTTAGGG
93964 TTTAGGG
1 TTTAGGG
93971 TTT
1 TTT
93974 TTAATAATTA
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
6 10 0.14
7 62 0.86
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:94181 original size:24 final size:24
Alignment explanation
Indices: 94154--94219 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
94144 ATAAATGAAT
*
94154 GAACATAAACAAACGAACATAAAC
1 GAACATAAACGAACGAACATAAAC
* *
94178 GAACATAACCGAACGAACATAACC
1 GAACATAAACGAACGAACATAAAC
* *
94202 GAACGTAAATGAACGAAC
1 GAACATAAACGAACGAAC
94220 GAGACCTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.55, C:0.23, G:0.14, T:0.09
Consensus pattern (24 bp):
GAACATAAACGAACGAACATAAAC
Found at i:94192 original size:14 final size:14
Alignment explanation
Indices: 94175--94206 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
94165 AACGAACATA
94175 AACGAACATAACCG
1 AACGAACATAACCG
94189 AACGAACATAACCG
1 AACGAACATAACCG
94203 AACG
1 AACG
94207 TAAATGAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:94252 original size:21 final size:21
Alignment explanation
Indices: 94226--94267 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
94216 GAACGAGACC
94226 TATGTTCAT-GTTCGTTCATTT
1 TATGTTC-TCGTTCGTTCATTT
94247 TATGTTCTCGTTCGTTCATTT
1 TATGTTCTCGTTCGTTCATTT
94268 AAACGAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.57
Consensus pattern (21 bp):
TATGTTCTCGTTCGTTCATTT
Done.