Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005533.1 Kokia drynarioides strain JFW-HI SEQ_119624, 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: 80538
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Warning! 47 characters in sequence are not A, C, G, or T
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--25 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
26 TTGGTAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4688 original size:30 final size:30
Alignment explanation
Indices: 4617--4759 Score: 137
Period size: 30 Copynumber: 4.7 Consensus size: 30
4607 AATCAATTGA
*
4617 TAAAGTTTTTCTAAAATTATATTTTGAT-CT
1 TAAACTTTTT-TAAAATTATATTTTGATCCT
* *
4647 CAAATTTTTTTAAAATTATATTTTGATCCT
1 TAAACTTTTTTAAAATTATATTTTGATCCT
* * *
4677 TAAACTTTTTTAAAATTACATTTT-AACCC
1 TAAACTTTTTTAAAATTATATTTTGATCCT
** *
4706 TAAACTTTTCAAAAAAAATATATTTTGATCCT
1 TAAACTTTT--TTAAAATTATATTTTGATCCT
* * *
4738 CAAACTTTCTAAAAATTATATT
1 TAAACTTTTTTAAAATTATATT
4760 CTAACCCCTA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
29 29 0.32
30 42 0.46
31 11 0.12
32 10 0.11
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAACTTTTTTAAAATTATATTTTGATCCT
Found at i:4834 original size:30 final size:30
Alignment explanation
Indices: 4658--4961 Score: 162
Period size: 30 Copynumber: 10.1 Consensus size: 30
4648 AAATTTTTTT
* * * * *
4658 AAAATTATATTTTGATCCTTAAACTTTTTT
1 AAAATTACATTTTAACCCTTAAACTTCTTC
4688 AAAATTACATTTTAACCC-TAAACTT-TTC
1 AAAATTACATTTTAACCCTTAAACTTCTTC
* * * * * *
4716 AAAAAAAATATATTTTGATCCTCAAACTT-TCTA
1 ---AAAATTACATTTTAACCCTTAAACTTCT-TC
* * * * *
4749 AAAATTATATTCTAACCCCTAAAGTT-TCC
1 AAAATTACATTTTAACCCTTAAACTTCTTC
*
4778 AGAAAATTACATTTTGACCC--AAACTTCTTC
1 --AAAATTACATTTTAACCCTTAAACTTCTTC
* *
4808 AAAATCACATTTTAACCCTTAAACTTCTCC
1 AAAATTACATTTTAACCCTTAAACTTCTTC
* * * *
4838 AAAATTATACTTTGACACC-TAAA-TTTTTC
1 AAAATTACATTTTAAC-CCTTAAACTTCTTC
* * *
4867 AAAAATTATATTTTAACCCTCACACTT-TTCC
1 -AAAATTACATTTTAACCCTTAAACTTCTT-C
* *
4898 AAAATTGA-ATTTTTACCCCTAAACTT-TTCC
1 AAAATT-ACATTTTAACCCTTAAACTTCTT-C
* *
4928 AAAATTTCATTTTAACCCTTAAACTTCTCC
1 AAAATTACATTTTAACCCTTAAACTTCTTC
4958 AAAA
1 AAAA
4962 ATCACGTTTT
Statistics
Matches: 211, Mismatches: 45, Indels: 36
0.72 0.15 0.12
Matches are distributed among these distances:
28 18 0.09
29 18 0.09
30 131 0.62
31 36 0.17
32 7 0.03
33 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTTAAACTTCTTC
Found at i:4883 original size:60 final size:59
Alignment explanation
Indices: 4658--4961 Score: 237
Period size: 60 Copynumber: 5.1 Consensus size: 59
4648 AAATTTTTTT
* * * * *
4658 AAAATTATATTTTGATCCTTAAACTTTTT-TAAAATTACATTTTAACCC-TAAACTTTTCAAA
1 AAAATTATATTTTGA-CCCTAAA-TTTTTCAAAAATTATATTTTAACCCTTAAACTTCTC--C
* * * * * *
4719 AAAAATATATTTTGATCCTCAAA-CTTTCTAAAAATTATATTCTAACCCCTAAAGTT-TCC
1 AAAATTATATTTTGACCCT-AAATTTTTC-AAAAATTATATTTTAACCCTTAAACTTCTCC
* * * *
4778 AGAAAATTACATTTTGACCC-AAACTTCTTC-AAAATCACATTTTAACCCTTAAACTTCTCC
1 --AAAATTATATTTTGACCCTAAA-TTTTTCAAAAATTATATTTTAACCCTTAAACTTCTCC
* * * *
4838 AAAATTATACTTTGACACCTAAATTTTTCAAAAATTATATTTTAACCCTCACACTTTTCC
1 AAAATTATATTTTGAC-CCTAAATTTTTCAAAAATTATATTTTAACCCTTAAACTTCTCC
* * *
4898 AAAATTGA-ATTTTTACCCCTAAACTTTTCCAAAATT-TCATTTTAACCCTTAAACTTCTCC
1 AAAATT-ATATTTTGA-CCCTAAATTTTTCAAAAATTAT-ATTTTAACCCTTAAACTTCTCC
4958 AAAA
1 AAAA
4962 ATCACGTTTT
Statistics
Matches: 194, Mismatches: 34, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
58 14 0.07
59 35 0.18
60 84 0.43
61 55 0.28
62 6 0.03
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (59 bp):
AAAATTATATTTTGACCCTAAATTTTTCAAAAATTATATTTTAACCCTTAAACTTCTCC
Found at i:4897 original size:120 final size:116
Alignment explanation
Indices: 4658--4963 Score: 298
Period size: 120 Copynumber: 2.5 Consensus size: 116
4648 AAATTTTTTT
** * * *
4658 AAAATTATATTTTGATCCTTAAACTTTTTTAAAATTACATTTTAACCC-TAAACTTTTCAAAAAA
1 AAAATTA-ATTTTGA-CCCCAAAC-TTTTCAAAATTACATTTTAACCCTTAAACTTCTC--CAAA
* *
4722 AATATATTTTGATCCTCAAACTTTCTAAAAATTATATTCTAACCCCTAAAGTTTCC
61 AATATACTTTGAACCTCAAACTTTCTAAAAATTATATTCTAACCCCTAAAGTTTCC
*
4778 AGAAAATTACATTTTGA-CCCAAACTTCTTCAAAATCACATTTTAACCCTTAAACTTCTCCAAAA
1 --AAAATTA-ATTTTGACCCCAAACTT-TTCAAAATTACATTTTAACCCTTAAACTTCTCCAAAA
* * * **
4842 TTATACTTTGACACCT-AAA-TTTTTCAAAAATTATATTTTAA-CCCTCACACTTTTCC
62 ATATACTTTGA-ACCTCAAACTTTCT-AAAAATTATATTCTAACCCCT-A-AAGTTTCC
* *
4898 AAAATTGAATTTTTACCCCTAAACTTTTCCAAAATTTCATTTTAACCCTTAAACTTCTCCAAAAA
1 AAAATT-AATTTTGACCCC-AAACTTTT-CAAAATTACATTTTAACCCTTAAACTTCTCCAAAAA
4963 T
63 T
4964 CACGTTTTCG
Statistics
Matches: 156, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
118 20 0.13
119 40 0.26
120 73 0.47
121 9 0.06
122 14 0.09
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (116 bp):
AAAATTAATTTTGACCCCAAACTTTTCAAAATTACATTTTAACCCTTAAACTTCTCCAAAAATAT
ACTTTGAACCTCAAACTTTCTAAAAATTATATTCTAACCCCTAAAGTTTCC
Found at i:5022 original size:120 final size:119
Alignment explanation
Indices: 4658--5061 Score: 294
Period size: 120 Copynumber: 3.4 Consensus size: 119
4648 AAATTTTTTT
* * * * * * * *
4658 AAAATTATATTTTGATCCTTAAACTTTTTTAAAATTACATTTTAACCC-TAAACTTTTCAAAAAA
1 AAAATTA-ATTTTAACCCCTAAACTTCTTCAAAATCACATTTTAACCCTTAAACTTCTC---CAA
* * * * * * *
4722 AATATATTTTGA-TCCTCAAACTTTCTAAAAATTATATTCTAACC-CCTA-AAGTTTCCA
62 AATATACTTTGACACCT-AAATTTTCCAAAAATTATATTTTAACCATC-ACAATTTTCCA
*
4779 GAAAATTACATTTTGA-CCC-AAACTTCTTCAAAATCACATTTTAACCCTTAAACTTCTCCAAAA
1 -AAAATTA-ATTTTAACCCCTAAACTTCTTCAAAATCACATTTTAACCCTTAAACTTCTCCAAAA
* * *
4842 TTATACTTTGACACCTAAATTTTTCAAAAATTATATTTTAACCCTCACACTTTTCC-
64 -TATACTTTGACACCTAAATTTTCCAAAAATTATATTTTAACCATCACAATTTTCCA
* **
4898 AAAATTGAATTTTTACCCCTAAACTT-TTCCAAAATTTCATTTTAACCCTTAAACTTCTCCAAAA
1 AAAATT-AATTTTAACCCCTAAACTTCTT-CAAAATCACATTTTAACCCTTAAACTTCTCCAAAA
* * * * *
4962 -ATCACGTTT-TCGACCTCGAATTTTCCAAAAGTTCTATTTTAA-TATCA-AATTTTCCA
64 TAT-AC-TTTGAC-ACCT-AAATTTTCCAAAAATTATATTTTAACCATCACAATTTTCCA
* *
5018 AAAATTTCAATTTTAACCCCTAAA-TTCCTCAAAAATTACATTTT
1 AAAA-TT-AATTTTAACCCCTAAACTTCTTC-AAAATCACATTTT
5062 CATTCTGAAT
Statistics
Matches: 234, Mismatches: 31, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
118 18 0.08
119 49 0.21
120 91 0.39
121 62 0.26
122 14 0.06
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (119 bp):
AAAATTAATTTTAACCCCTAAACTTCTTCAAAATCACATTTTAACCCTTAAACTTCTCCAAAATA
TACTTTGACACCTAAATTTTCCAAAAATTATATTTTAACCATCACAATTTTCCA
Found at i:6920 original size:2 final size:2
Alignment explanation
Indices: 6913--6950 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6903 AAATTTTTAA
* *
6913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6951 TGTTCTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:8816 original size:14 final size:15
Alignment explanation
Indices: 8792--8820 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8782 TTATATAAAC
8792 TATATTTTAAATATT
1 TATATTTTAAATATT
8807 TATA-TTTAAATATT
1 TATATTTTAAATATT
8821 AGCACAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTTTAAATATT
Found at i:9433 original size:18 final size:17
Alignment explanation
Indices: 9410--9443 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9400 ATTGAAACAT
9410 TTTAAAATTTATAATTAA
1 TTTAAAATTTA-AATTAA
9428 TTTAAAATTTAAATTA
1 TTTAAAATTTAAATTA
9444 TAATTTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAATTTAAATTAA
Found at i:10230 original size:22 final size:23
Alignment explanation
Indices: 10199--10244 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
10189 ATGACATGAA
* *
10199 TATTTTTAAAAT-AATATTTATT
1 TATTTATAAAATAAATAATTATT
10221 TATTTATAAAATAAATAATTATT
1 TATTTATAAAATAAATAATTATT
10244 T
1 T
10245 TAATAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTATAAAATAAATAATTATT
Found at i:10636 original size:8 final size:8
Alignment explanation
Indices: 10620--10649 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10610 GAAAATAAAA
10620 ATTTTATC
1 ATTTTATC
*
10628 ATTTCATC
1 ATTTTATC
10636 ATTTTATC
1 ATTTTATC
10644 ATTTTA
1 ATTTTA
10650 GAGGAGCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTATC
Found at i:18610 original size:30 final size:30
Alignment explanation
Indices: 18575--18643 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
18565 ATGGTAGCTC
* *
18575 GTGTGGCTCACACGGTCGTGTGCCCAGCCT
1 GTGTGGCTCACACGGCCGTGTGCCCAACCT
*
18605 GTGTGGCTCACATGGCCGTGTGCCCAACCT
1 GTGTGGCTCACACGGCCGTGTGCCCAACCT
18635 GTGTGGCTC
1 GTGTGGCTC
18644 TTAAAATCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.10, C:0.32, G:0.33, T:0.25
Consensus pattern (30 bp):
GTGTGGCTCACACGGCCGTGTGCCCAACCT
Found at i:19134 original size:13 final size:13
Alignment explanation
Indices: 19116--19143 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19106 ATAAAAGCAT
19116 TACTTATTAGGTA
1 TACTTATTAGGTA
19129 TACTTATTAGGTA
1 TACTTATTAGGTA
19142 TA
1 TA
19144 TATAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (13 bp):
TACTTATTAGGTA
Found at i:21663 original size:19 final size:18
Alignment explanation
Indices: 21639--21695 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
21629 AAAAAAAAAC
21639 GTTATACCAAATTTTTAT
1 GTTATACCAAATTTTTAT
* *
21657 GGTTATATCAAAATTTCTAAT
1 -GTTATA-CCAAATTT-TTAT
*
21678 GCTATACCAATATTTTTA
1 GTTATACCAA-ATTTTTA
21696 GCGATATACC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 11 0.37
20 16 0.53
21 3 0.10
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (18 bp):
GTTATACCAAATTTTTAT
Found at i:21692 original size:20 final size:20
Alignment explanation
Indices: 21669--21711 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21659 TTATATCAAA
* *
21669 ATTTCTAATGCTATACCAAT
1 ATTTCTAACGATATACCAAT
* *
21689 ATTTTTAGCGATATACCAAT
1 ATTTCTAACGATATACCAAT
21709 ATT
1 ATT
21712 AAAATTTCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTCTAACGATATACCAAT
Found at i:21744 original size:26 final size:26
Alignment explanation
Indices: 21681--21759 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
21671 TTCTAATGCT
* *
21681 ATACCAATATTTTTAGCGATATACCA
1 ATACCAATATTTTTAACAATATACCA
** * * *
21707 ATATTAAAATTTCTAACAACATACCA
1 ATACCAATATTTTTAACAATATACCA
*
21733 ATACCAATATTTTTAACAGTATACCA
1 ATACCAATATTTTTAACAATATACCA
21759 A
1 A
21760 AATTTTTATC
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (26 bp):
ATACCAATATTTTTAACAATATACCA
Found at i:27809 original size:59 final size:58
Alignment explanation
Indices: 27739--28045 Score: 309
Period size: 59 Copynumber: 5.2 Consensus size: 58
27729 ACTCGGGAGC
* ** ** *
27739 AAAATGATAATTTTGGGAAAGTTCGTTGTAAAAAATGGAATTTTTAGACA-TTCGAGGGT
1 AAAATGGTAATTTT-GGAAAAATCGGGGTAAAAAATGGAATTTTTGGA-AGTTCGAGGGT
* * *
27798 AAAATAGTAATTTTCGGAAAAATCAGGGTAAAAAATGGAATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTT-GGAAAAATCGGGGTAAAAAATGGAATTTTTGGAAGTTCGAGGGT
* *
27857 -AAATGGTAACTTTTGGAAAAATCGGGGCAAAAAATTGAATTTTTGGAAGTTC-AGGGGT
1 AAAATGGTAA-TTTTGGAAAAATCGGGGTAAAAAATGGAATTTTTGGAAGTTCGA-GGGT
* * * * **
27915 AAAATGGTAATTTTTGGAGAAATCGGAGTTAAAAATGGATTTTTTGGAAGTTTAAGGGT
1 AAAATGGTAA-TTTTGGAAAAATCGGGGTAAAAAATGGAATTTTTGGAAGTTCGAGGGT
* * * **
27974 AAAATGGTAATTTTGGAAAGATCGAGGTCAAAAATGGAATTTTTAAAAAGTTCG-GGGT
1 AAAATGGTAATTTTGGAAAAATCGGGGTAAAAAATGGAATTTTT-GGAAGTTCGAGGGT
28032 AAAAAT-GTAATTTT
1 -AAAATGGTAATTTT
28046 CAAAAAGTTC
Statistics
Matches: 208, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
58 88 0.42
59 119 0.57
60 1 0.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTGGAAAAATCGGGGTAAAAAATGGAATTTTTGGAAGTTCGAGGGT
Found at i:27918 original size:117 final size:117
Alignment explanation
Indices: 27768--28046 Score: 336
Period size: 117 Copynumber: 2.4 Consensus size: 117
27758 AGTTCGTTGT
27768 AAAAAATGGAATTTTTAGACA-TTCGAGGGTAAAATAGTAATTTTCGGAAAAATCAGG-GTAAAA
1 AAAAAATGGAATTTTTAGA-AGTTCG-GGGTAAAATAGTAATTTTCGGAAAAATC-GGAGTAAAA
**
27831 AATGGAATTTTTGGAAGTTCGGGGGT-AAATGGTAACTTTTGGAAAAATCG-GGGC
63 AATGGAATTTTTGGAAGTTCAAGGGTAAAATGGTAA-TTTTGGAAAAATCGAGGGC
* * * * * *
27885 AAAAAATTGAATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAGAAATCGGAGTTAAAAA
1 AAAAAATGGAATTTTTAGAAGTTC-GGGGTAAAATAGTAATTTTCGGAAAAATCGGAGTAAAAAA
* * * *
27950 TGGATTTTTTGGAAGTTTAAGGGTAAAATGGTAATTTTGGAAAGATCGAGGTC
65 TGGAATTTTTGGAAGTTCAAGGGTAAAATGGTAATTTTGGAAAAATCGAGGGC
*
28003 -AAAAATGGAATTTTTAAAAAGTTCGGGGTAAAA-ATGTAATTTTC
1 AAAAAATGGAATTTTT-AGAAGTTCGGGGTAAAATA-GTAATTTTC
28047 AAAAAGTTCG
Statistics
Matches: 138, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
116 3 0.02
117 116 0.84
118 19 0.14
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (117 bp):
AAAAAATGGAATTTTTAGAAGTTCGGGGTAAAATAGTAATTTTCGGAAAAATCGGAGTAAAAAAT
GGAATTTTTGGAAGTTCAAGGGTAAAATGGTAATTTTGGAAAAATCGAGGGC
Found at i:28065 original size:117 final size:114
Alignment explanation
Indices: 27739--28079 Score: 309
Period size: 117 Copynumber: 2.9 Consensus size: 114
27729 ACTCGGGAGC
* * * * *
27739 AAAATGATAATTTTGGGAAAGTTCGTTGTAAAAAATGGAATTTTTAGACA-TTCGAGGGTAAAAT
1 AAAATGGTAATTTT-GGAAAGATCG-GGTCAAAAATGGAATTTTTAGAAAGTTCG-GGGTAAAAT
**
27803 AGTAATTTTCGGAAAAATC-AGGGTAAAAAATGGAATTTTTGGAAGTTCGGGGGT
63 AGTAATTTTC--AAAAATCGAGGGT-AAAAATGGAATTTTTGGAAGTTCAAGGGT
* * * *
27857 -AAATGGTAACTTTTGGAAAAATCGGGGCAAAAAATTGAATTTTT-GGAAGTTCAGGGGTAAAAT
1 AAAATGGTAA-TTTTGGAAAGATCGGGTC-AAAAATGGAATTTTTAGAAAGTTC-GGGGTAAAAT
* * * * * *
27920 GGTAATTTTTGGAGAAATCG-GAGTTAAAAATGGATTTTTTGGAAGTTTAAGGGT
63 AGTAA-TTTT-CAAAAATCGAG-GGTAAAAATGGAATTTTTGGAAGTTCAAGGGT
*
27974 AAAATGGTAATTTTGGAAAGATCGAGGTCAAAAATGGAATTTTTAAAAAGTTCGGGGTAAAA-AT
1 AAAATGGTAATTTTGGAAAGATCG-GGTCAAAAATGGAATTTTTAGAAAGTTCGGGGTAAAATA-
*
28038 GTAATTTTCAAAAAGTTCGAGGGT-AAAATGATAATTTTTGGA
64 GTAATTTTCAAAAA--TCGAGGGTAAAAATG-GAATTTTTGGA
28080 GAAATTAGGG
Statistics
Matches: 179, Mismatches: 28, Indels: 33
0.75 0.12 0.14
Matches are distributed among these distances:
115 4 0.02
116 13 0.07
117 132 0.74
118 30 0.17
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (114 bp):
AAAATGGTAATTTTGGAAAGATCGGGTCAAAAATGGAATTTTTAGAAAGTTCGGGGTAAAATAGT
AATTTTCAAAAATCGAGGGTAAAAATGGAATTTTTGGAAGTTCAAGGGT
Found at i:28074 original size:59 final size:58
Alignment explanation
Indices: 28004--28203 Score: 190
Period size: 59 Copynumber: 3.4 Consensus size: 58
27994 ATCGAGGTCA
* * *
28004 AAAATGGAATTTTTAAAAAGTTCGGGGT-AAAAATGTAATTTTCAAAAAGTTCGAGGGT
1 AAAATGTAATTTTTAGAAAGTTCGGGGTCAAAAATGAAATTTT-AAAAAGTTCGAGGGT
* * * * *
28062 AAAATGATAATTTTTGGAGAAA-TT-AGGGTCAAAAATGGAATTTTTAGAAGTTTGAGGGT
1 AAAATG-TAATTTTT--AGAAAGTTCGGGGTCAAAAATGAAATTTTAAAAAGTTCGAGGGT
* * * **
28121 AAAATGGTAATTTTTGGAAAGATCGTGGTCAAAAATGAAATTTTTGGAAAGTTCGAGGGCT
1 AAAAT-GTAATTTTTAGAAAGTTCGGGGTCAAAAATGAAA-TTTTAAAAAGTTCGAGGG-T
*
28182 AAAATGTAATTTTTAGACAGTT
1 AAAATGTAATTTTTAGAAAGTT
28204 TATGGACCTT
Statistics
Matches: 114, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
57 4 0.04
58 7 0.06
59 49 0.43
60 44 0.39
61 10 0.09
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.33
Consensus pattern (58 bp):
AAAATGTAATTTTTAGAAAGTTCGGGGTCAAAAATGAAATTTTAAAAAGTTCGAGGGT
Found at i:28163 original size:89 final size:88
Alignment explanation
Indices: 27969--28204 Score: 227
Period size: 89 Copynumber: 2.7 Consensus size: 88
27959 TGGAAGTTTA
* * *
27969 AGGGTAAAATGGTAA-TTTTGGAAAGA-TC-GAGGTCAAAAATGGAATTTTTAAAAAGTTCGGGG
1 AGGGTAAAATGATAATTTTTGGAAA-ATTCAG-GGTCAAAAATGGAATTTTT-AGAAGTTTGGGG
*
28031 TAAAAATGTAATTTTCAAAAAGTTCG
63 TAAAAATGTAATTTTCAAAAAGATCG
28057 AGGGTAAAATGATAATTTTTGGAGAAATT-AGGGTCAAAAATGGAATTTTTAGAAGTTTGAGGGT
1 AGGGTAAAATGATAATTTTTGGA-AAATTCAGGGTCAAAAATGGAATTTTTAGAAGTTTG-GGGT
***
28121 -AAAATGGTAATTTTTGGAAAGATCG
64 AAAAAT-GTAATTTTCAAAAAGATCG
* * * *
28146 -TGGTCAAAAATGA-AATTTTTGGAAAGTTCGAGGG-CTAAAATGTAATTTTTAGACAGTTT
1 AGGGT--AAAATGATAATTTTTGGAAAATTC-AGGGTCAAAAATGGAATTTTTAGA-AGTTT
28205 ATGGACCTTA
Statistics
Matches: 126, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
88 33 0.26
89 73 0.58
90 20 0.16
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (88 bp):
AGGGTAAAATGATAATTTTTGGAAAATTCAGGGTCAAAAATGGAATTTTTAGAAGTTTGGGGTAA
AAATGTAATTTTCAAAAAGATCG
Found at i:28186 original size:30 final size:29
Alignment explanation
Indices: 27739--28195 Score: 223
Period size: 30 Copynumber: 15.5 Consensus size: 29
27729 ACTCGGGAGC
* **
27739 AAAATGATAATTTTGGGAAAGTTCG-TTGT
1 AAAATG-TAATTTTTGGAAAGTTCGAGGGT
* * *
27768 AAAAAATGGAATTTTTAGACA-TTCGAGGGT
1 --AAAATGTAATTTTTGGAAAGTTCGAGGGT
* **
27798 AAAATAGTAATTTTCGGAAAAATC-AGGGT
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGGT
* *
27827 AAAAAATGGAATTTTTGG-AAGTTCGGGGGT
1 --AAAATGTAATTTTTGGAAAGTTCGAGGGT
* ** *
27857 -AAATGGTAACTTTTGGAAAAATCG-GGGCAA
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGG--T
27887 AAAAT-TGAATTTTTGG-AAGTTC-AGGGGT
1 AAAATGT-AATTTTTGGAAAGTTCGA-GGGT
* *
27915 AAAATGGTAATTTTTGGAGAA-ATCG-GAGTT
1 AAAAT-GTAATTTTTGGA-AAGTTCGAG-GGT
* * **
27945 AAAAATGGATTTTTTGG-AAGTTTAAGGGT
1 -AAAATGTAATTTTTGGAAAGTTCGAGGGT
*
27974 AAAATGGTAA-TTTTGGAAAGATCGA-GGT
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGGT
* **
28002 CAAAAATGGAATTTTTAAAAAGTTCG-GGGT
1 --AAAATGTAATTTTTGGAAAGTTCGAGGGT
***
28032 AAAAATGTAATTTTCAAAAAGTTCGAGGGT
1 -AAAATGTAATTTTTGGAAAGTTCGAGGGT
*
28062 AAAATGATAATTTTTGGAGAAATT--AGGGT
1 AAAATG-TAATTTTTGGA-AAGTTCGAGGGT
* * *
28091 CAAAAATGGAATTTTTAG-AAGTTTGAGGGT
1 --AAAATGTAATTTTTGGAAAGTTCGAGGGT
* *
28121 AAAATGGTAATTTTTGGAAAGATCG-TGGT
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGGT
*
28150 CAAAAATGAAATTTTTGGAAAGTTCGAGGGCT
1 --AAAATGTAATTTTTGGAAAGTTCGAGGG-T
28182 AAAATGTAATTTTT
1 AAAATGTAATTTTT
28196 AGACAGTTTA
Statistics
Matches: 324, Mismatches: 60, Indels: 85
0.69 0.13 0.18
Matches are distributed among these distances:
27 4 0.01
28 47 0.15
29 102 0.31
30 131 0.40
31 39 0.12
32 1 0.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAAGTTCGAGGGT
Found at i:29228 original size:13 final size:13
Alignment explanation
Indices: 29196--29238 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
29186 TTGACTCCTT
29196 TTATTTATT--TA
1 TTATTTATTAATA
29207 TTA-TTATTAATA
1 TTATTTATTAATA
29219 TTATTTATTAATA
1 TTATTTATTAATA
*
29232 TTTTTTA
1 TTATTTA
29239 AATATCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 5 0.18
11 3 0.11
12 5 0.18
13 15 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTATTAATA
Found at i:29273 original size:33 final size:33
Alignment explanation
Indices: 29196--29275 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
29186 TTGACTCCTT
* *
29196 TTATTTATTTATTATTATTAATATTATTTATTA
1 TTATTTATTAAATATTATTAATATTATTTATTA
* * *
29229 ATATTTTTTAAATATCTATT-ATA-TATTTATTGC
1 TTATTTATTAAATAT-TATTAATATTATTTATT-A
29262 TTATTTATTAAATA
1 TTATTTATTAAATA
29276 CCACAGAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 8 0.21
33 26 0.68
34 4 0.11
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (33 bp):
TTATTTATTAAATATTATTAATATTATTTATTA
Found at i:29953 original size:17 final size:17
Alignment explanation
Indices: 29926--30012 Score: 95
Period size: 17 Copynumber: 5.0 Consensus size: 17
29916 AATTTTTTAA
*
29926 TTAATTTAAATTTAAA-
1 TTAAATTAAATTTAAAC
29942 TTCAAATTAAATTTAAAC
1 TT-AAATTAAATTTAAAC
*
29960 TTAATTTAAATTTAAAC
1 TTAAATTAAATTTAAAC
**
29977 TTAAAAAAAAAGTTTAAAC
1 TT-AAATTAAA-TTTAAAC
*
29996 TTAAACTAAATTTAAAC
1 TTAAATTAAATTTAAAC
30013 CCAAAATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
16 2 0.03
17 36 0.60
18 13 0.22
19 9 0.15
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (17 bp):
TTAAATTAAATTTAAAC
Found at i:29965 original size:11 final size:11
Alignment explanation
Indices: 29926--29974 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
29916 AATTTTTTAA
29926 TTAATTTAAAT
1 TTAATTTAAAT
*
29937 TTAAATTCAAAT
1 TT-AATTTAAAT
* *
29949 TAAATTTAAAC
1 TTAATTTAAAT
29960 TTAATTTAAAT
1 TTAATTTAAAT
29971 TTAA
1 TTAA
29975 ACTTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:30001 original size:6 final size:6
Alignment explanation
Indices: 29928--29981 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
29918 TTTTTTAATT
* *
29928 AATTTA AATTTA AATTCA AA-TTA AATTTA AACTT- AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
29974 AACTTA AA
1 AATTTA AA
29982 AAAAAAGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:30022 original size:17 final size:17
Alignment explanation
Indices: 29932--30024 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
29922 TTAATTAATT
* *
29932 TAAATTTAAATTCAAAT
1 TAAATTTAAACTCAAAA
* **
29949 TAAATTTAAACTTAATT
1 TAAATTTAAACTCAAAA
*
29966 TAAATTTAAACTTAAAAA
1 TAAATTTAAAC-TCAAAA
* * *
29984 AAAAGTTTAAACTTAAAC
1 TAAA-TTTAAACTCAAAA
*
30002 TAAATTTAAACCCAAAA
1 TAAATTTAAACTCAAAA
30019 TAAATT
1 TAAATT
30025 AAAATTTAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
17 41 0.67
18 13 0.21
19 7 0.11
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (17 bp):
TAAATTTAAACTCAAAA
Found at i:33775 original size:97 final size:97
Alignment explanation
Indices: 33607--33793 Score: 254
Period size: 97 Copynumber: 1.9 Consensus size: 97
33597 GAAAAGGATG
* *
33607 TTCGATTATCTCGATTTGAAAAAAAGTTGCACCTAGTAAGTTTAGGCACAAATTTTCAGAATCAG
1 TTCGATTATCTCGATTTGAAAAAAAGTTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCAG
*
33672 AGAT-AAAGAAACATTGCCTCGATTTAAGGGTA
66 AAATAAAAG-AACATTGCCTCGATTTAAGGGTA
* * * *
33704 TTCGATTATTTCGATTTGAGGAAAAA-TTGCACTTAGTAAGTTAAGGTACAAATTTTCAAAACTC
1 TTCGATTATCTCGATTTGA-AAAAAAGTTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAA-TC
*
33768 -GAAATAAAAGAATATTGCCTCGATTT
64 AGAAATAAAAGAACATTGCCTCGATTT
33794 TAAAGTTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
97 68 0.86
98 11 0.14
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.32
Consensus pattern (97 bp):
TTCGATTATCTCGATTTGAAAAAAAGTTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCAG
AAATAAAAGAACATTGCCTCGATTTAAGGGTA
Found at i:34128 original size:30 final size:29
Alignment explanation
Indices: 34078--34349 Score: 161
Period size: 29 Copynumber: 9.3 Consensus size: 29
34068 AAACATCCGA
*
34078 GGGT-AAAATGGTACTTTTTGGAAGAATCG
1 GGGTAAAAATGG-AATTTTTGGAAGAATCG
** *
34107 GGGTCAAAAAT-GAGATTTTTGGAAGTTTGG
1 GGGT-AAAAATGGA-ATTTTTGGAAGAATCG
*
34137 GGGT--AAATGGTAATTTTTGGAAAAATCG
1 GGGTAAAAATGG-AATTTTTGGAAGAATCG
* *
34165 AGGTTAAAAATGGAATTTTTGGAAG-TTCGG
1 -GGGTAAAAATGGAATTTTTGGAAGAATC-G
* * *
34195 GGGT-AAAATGGTAATTTTTAGAAAAATTG
1 GGGTAAAAATGG-AATTTTTGGAAGAATCG
* * *
34224 AGGTAAAAAATGGAA-TTTTGGAA-AGTTCAA
1 GGGT-AAAAATGGAATTTTTGGAAGA-ATC-G
* *
34254 GGGT-AAAATGTAATTTTTGGAAAAATCG
1 GGGTAAAAATGGAATTTTTGGAAGAATCG
* *
34282 TGGTTAAAAATGGAA-TTTTGGAA-AGTTCGG
1 -GGGTAAAAATGGAATTTTTGGAAGA-ATC-G
* * **
34312 GGGTAAAAATGTAATTTTTGGAAAAATTA
1 GGGTAAAAATGGAATTTTTGGAAGAATCG
34341 GGGTAAAAA
1 GGGTAAAAA
34350 ATGAAACTTT
Statistics
Matches: 187, Mismatches: 33, Indels: 46
0.70 0.12 0.17
Matches are distributed among these distances:
27 4 0.02
28 30 0.16
29 80 0.43
30 54 0.29
31 19 0.10
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.32
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGAATCG
Found at i:34154 original size:58 final size:57
Alignment explanation
Indices: 34078--34389 Score: 360
Period size: 58 Copynumber: 5.4 Consensus size: 57
34068 AAACATCCGA
* * * * * *
34078 GGGTAAAATGGTACTTTTTGGAAGAATCGGGGTCAAAAATGAGATTTTTGGAAGTTTGG
1 GGGTAAAAT-GTAATTTTTGGAAAAATCGAGGTAAAAAATG-GAATTTTGGAAGTTCGG
*
34137 GGGT-AAATGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTCGG
1 GGGTAAAAT-GTAATTTTTGGAAAAATCGAGGTAAAAAATGGAA-TTTTGGAAGTTCGG
* * **
34195 GGGTAAAATGGTAATTTTTAGAAAAATTGAGGTAAAAAATGGAATTTTGGAAAGTTCAA
1 GGGTAAAAT-GTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTGG-AAGTTCGG
* *
34254 GGGTAAAATGTAATTTTTGGAAAAATCGTGGTTAAAAATGGAATTTTGGAAAGTTCGG
1 GGGTAAAATGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTGG-AAGTTCGG
* * * **
34312 GGGTAAAAATGTAATTTTTGGAAAAAT-TAGGGTAAAAAATGAAACTTTGGAAGTTTTG
1 GGGT-AAAATGTAATTTTTGGAAAAATCGA-GGTAAAAAATGGAATTTTGGAAGTTCGG
34370 GGG-AAAATGTAATTTTTGGA
1 GGGTAAAATGTAATTTTTGGA
34390 TAGTTTAGGG
Statistics
Matches: 224, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
56 17 0.08
57 2 0.01
58 111 0.50
59 94 0.42
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (57 bp):
GGGTAAAATGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTGGAAGTTCGG
Found at i:34213 original size:117 final size:116
Alignment explanation
Indices: 34078--34389 Score: 416
Period size: 117 Copynumber: 2.7 Consensus size: 116
34068 AAACATCCGA
* * * * * *
34078 GGGTAAAATGGTACTTTTTGGAAGAATCGGGGTCAAAAATGAGATTTTTGGAAGTTTGGGGGTAA
1 GGGTAAAATGGTAATTTTTGGAAAAATTGGGGTAAAAAATGAGAATTTTGGAAGTTTAGGGGTAA
34143 ATGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGG-AAGTTCGG
66 AT-GTAATTTTTGGAAAAATCGAGGTTAAAAATGGAA-TTTTGGAAAGTTCGG
* * * *
34195 GGGTAAAATGGTAATTTTTAGAAAAATTGAGGTAAAAAATG-GAATTTTGGAAAGTTCAAGGGTA
1 GGGTAAAATGGTAATTTTTGGAAAAATTGGGGTAAAAAATGAGAATTTTGG-AAGTTTAGGGGT-
*
34259 AAATGTAATTTTTGGAAAAATCGTGGTTAAAAATGGAATTTTGGAAAGTTCGG
64 AAATGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGG
* * * *
34312 GGGTAAAAAT-GTAATTTTTGGAAAAATTAGGGTAAAAAATGA-AACTTTGGAAGTTTTGGGGAA
1 GGGT-AAAATGGTAATTTTTGGAAAAATTGGGGTAAAAAATGAGAATTTTGGAAGTTTAGGGGTA
34375 AATGTAATTTTTGGA
65 AATGTAATTTTTGGA
34390 TAGTTTAGGG
Statistics
Matches: 171, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
115 16 0.09
116 22 0.13
117 124 0.73
118 9 0.05
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (116 bp):
GGGTAAAATGGTAATTTTTGGAAAAATTGGGGTAAAAAATGAGAATTTTGGAAGTTTAGGGGTAA
ATGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGG
Found at i:34400 original size:27 final size:26
Alignment explanation
Indices: 34317--34400 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 26
34307 TTCGGGGGTA
**
34317 AAAATGTAATTTTTGGAAAAATTAGGG
1 AAAATGTAATTTTTGG-AAGTTTAGGG
** *
34344 TAAAAAATG-AAACTTTGGAAGTTTTGGGG
1 ---AAAATGTAATTTTTGGAAG-TTTAGGG
34373 AAAATGTAATTTTTGGATAGTTTAGGG
1 AAAATGTAATTTTTGGA-AGTTTAGGG
34400 A
1 A
34401 CCTTTATGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 4 0.09
29 12 0.28
30 6 0.14
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.35
Consensus pattern (26 bp):
AAAATGTAATTTTTGGAAGTTTAGGG
Found at i:35668 original size:3 final size:3
Alignment explanation
Indices: 35655--35747 Score: 71
Period size: 3 Copynumber: 30.0 Consensus size: 3
35645 TCAACTTTCT
** *
35655 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTAA TGC TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA
* * * * *
35701 TCA CTG TTGT TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA CTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
35748 ATTCATTTAA
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
2 2 0.03
3 59 0.83
4 10 0.14
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:36529 original size:6 final size:6
Alignment explanation
Indices: 36473--36590 Score: 75
Period size: 6 Copynumber: 20.0 Consensus size: 6
36463 TTGGACTTTG
* * * *
36473 AATTTA ATTTTA AAGTTTA AGTTTA AAATT- -ATTTCA AATTTA AA-CTA
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
** * ** *
36520 AATTTA AATTTA AA-ACA AATTTT AATTTAA AAAATG AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA
*
36568 AATTTA AA-GTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA
36591 GAAATAAATC
Statistics
Matches: 82, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
4 3 0.04
5 11 0.13
6 56 0.68
7 12 0.15
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:36582 original size:17 final size:18
Alignment explanation
Indices: 36560--36604 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
36550 AAAATGAATT
*
36560 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAA
36577 TAAATTTAAATTTAGAAA
1 TAAATTTAAATTTAGAAA
*
36595 TAAATCTAAA
1 TAAATTTAAA
36605 ACTAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:36604 original size:18 final size:17
Alignment explanation
Indices: 36483--36569 Score: 77
Period size: 17 Copynumber: 4.9 Consensus size: 17
36473 AATTTAATTT
*
36483 TAAAGTTTAAGTTTAAAA
1 TAAA-TTTAAATTTAAAA
* *
36501 T-TATTTCAAATTTAAAC
1 TAAATTT-AAATTTAAAA
36518 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
36535 CAAATTTTAATTTAAAAAA
1 TAAATTTAAATTT--AAAA
*
36554 TGAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
36570 TTTAAAGTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
16 3 0.05
17 33 0.60
18 5 0.09
19 14 0.25
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:39787 original size:28 final size:26
Alignment explanation
Indices: 39746--39803 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
39736 GATTGAATAC
39746 TTAAAAATAATATTTTAATTGATAATT
1 TTAAAAATAATATTTTAATT-ATAATT
* *
39773 GTTAAAACTATTATTTTAATTATAATT
1 -TTAAAAATAATATTTTAATTATAATT
39800 TTAA
1 TTAA
39804 TTGAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAAAATAATATTTTAATTATAATT
Found at i:39990 original size:16 final size:16
Alignment explanation
Indices: 39964--40013 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
39954 AAAATAATAA
39964 AAATAAATATAATATGT
1 AAAT-AATATAATATGT
*
39981 AAATAATATACTATGT
1 AAATAATATAATATGT
*
39997 AAATGAT-TACATATGT
1 AAATAATATA-ATATGT
40013 A
1 A
40014 TATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 2 0.07
16 23 0.79
17 4 0.14
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (16 bp):
AAATAATATAATATGT
Found at i:45480 original size:17 final size:17
Alignment explanation
Indices: 45458--45521 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
45448 CAAACCCATT
45458 TTAAATTTATTTTAAGA
1 TTAAATTTATTTTAAGA
*
45475 TTAAATTTGTTTTAA-A
1 TTAAATTTATTTTAAGA
* * *
45491 TTTAAAATTAATTTAAGT
1 -TTAAATTTATTTTAAGA
45509 TTAAATTTATTTT
1 TTAAATTTATTTT
45522 TAAATTTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 1 0.03
17 37 0.97
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAGA
Found at i:45494 original size:6 final size:6
Alignment explanation
Indices: 45485--45531 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
45475 TTAAATTTGT
* * **
45485 TTTAAA TTTAAA ATT-AA TTTAAG TTTAAA TTTATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
45532 ATTATTATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:45495 original size:34 final size:35
Alignment explanation
Indices: 45457--45537 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 35
45447 CCAAACCCAT
*
45457 TTTAAATTTATTTTAAGATTAAATTT-GTTTTAAA
1 TTTAAAATTATTTTAAGATTAAATTTAGTTTTAAA
* * *
45491 TTTAAAATTAATTTAAGTTTAAATTTATTTTTAAA
1 TTTAAAATTATTTTAAGATTAAATTTAGTTTTAAA
45526 TTTAAAATTATT
1 TTTAAAATTATT
45538 ATAAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 23 0.56
35 18 0.44
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (35 bp):
TTTAAAATTATTTTAAGATTAAATTTAGTTTTAAA
Found at i:45500 original size:23 final size:22
Alignment explanation
Indices: 45468--45517 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
45458 TTAAATTTAT
*
45468 TTTAAGATTAAATTT-GTTTTAAA
1 TTTAAAATT-AATTTAG-TTTAAA
45491 TTTAAAATTAATTTAAGTTTAAA
1 TTTAAAATTAATTT-AGTTTAAA
45514 TTTA
1 TTTA
45518 TTTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTAAAATTAATTTAGTTTAAA
Found at i:45544 original size:17 final size:16
Alignment explanation
Indices: 45485--45547 Score: 72
Period size: 17 Copynumber: 3.7 Consensus size: 16
45475 TTAAATTTGT
45485 TTTAAATTTAAAATTAA
1 TTTAAATTTAAAATT-A
* *
45502 TTTAAGTTTAAATTTA
1 TTTAAATTTAAAATTA
45518 TTTTTAAATTTAAAATTA
1 --TTTAAATTTAAAATTA
45536 TTATAAATTTAA
1 TT-TAAATTTAA
45548 TAAAAGTCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.08
17 22 0.56
18 14 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTAAATTTAAAATTA
Found at i:45547 original size:35 final size:33
Alignment explanation
Indices: 45457--45547 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 33
45447 CCAAACCCAT
*
45457 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAA
1 TTTAAAATTA-TTTAA-ATTTAAATTTGTTTTAAA
* *
45491 TTTAAAATTAATTTAAGTTTAAATTTATTTTTAAA
1 TTTAAAATT-ATTTAAATTTAAATTT-GTTTTAAA
45526 TTTAAAATTATTATAAATTTAA
1 TTTAAAATTATT-TAAATTTAA
45548 TAAAAGTCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
34 24 0.49
35 25 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (33 bp):
TTTAAAATTATTTAAATTTAAATTTGTTTTAAA
Found at i:46266 original size:3 final size:3
Alignment explanation
Indices: 46258--46296 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
46248 ATTTATTAAG
46258 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46297 GAAAAGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47264 original size:30 final size:30
Alignment explanation
Indices: 47230--47382 Score: 97
Period size: 29 Copynumber: 5.2 Consensus size: 30
47220 CAAAAATCAT
*
47230 ATTTTGACCCTTGAACTTTTCCAAAATTTC
1 ATTTTGACCCTTGAACTTTTCCAAAATTCC
* * * *
47260 ATTTTTGATCC-TAAACATTTT-GAAAATTAC
1 A-TTTTGACCCTTGAAC-TTTTCCAAAATTCC
* * * *
47290 ATTTTTACCCTCGAACTTCT-AAAAATTCC
1 ATTTTGACCCTTGAACTTTTCCAAAATTCC
*
47319 ATGTTTGACCC-TG-ATTTTTCCAAAAATTACC
1 AT-TTTGACCCTTGAACTTTTCC-AAAATT-CC
*
47350 ATTTT-ACCCTCGAAC--TTCCAAAAATTCC
1 ATTTTGACCCTTGAACTTTTCC-AAAATTCC
47378 ATTTT
1 ATTTT
47383 TAACCCTATT
Statistics
Matches: 96, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
28 11 0.11
29 35 0.36
30 33 0.34
31 17 0.18
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTTGACCCTTGAACTTTTCCAAAATTCC
Found at i:47346 original size:59 final size:59
Alignment explanation
Indices: 47282--47697 Score: 380
Period size: 59 Copynumber: 7.2 Consensus size: 59
47272 AAACATTTTG
* *
47282 AAAATTA-CATTTTTACCCTCGAACTTCTAAAAATTCCATGTTTGACCCTGATTTTTCCA
1 AAAATTACCA-TTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
*
47341 AAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCT-ATTTTTCCA
1 AAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
* * * ** *
47399 AAAATTACCATTTTACCCCCAAAACCTT-TAAAAATTATATTTTTGA-CCTCGATTTTT-TA
1 AAAATTACCATTTTACCCTC-GAA-CTTCCAAAAATTCCATTTTTGACCCT-GATTTTTCCA
* * * * * *
47458 GAAAATTACCACTTTACCCACGAACTTCCAAAAATTCTATTTTTGGCCCCGATTTTT-TA
1 -AAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
* * * *
47517 AAGATTATCATTTTACCCTCGAACTTCCAAAAATTTCATTTTTGACCTTGATTTTTCCA
1 AAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
* * * * *
47576 AAAAATACTATTTTACCCTCGAACCTCTAAAAATTCCATTATTG-----G----TTCC-
1 AAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
* * * * ** *
47625 AAAATTACCATTTTACCCCCGAA-TGTCTAAAAATTCCTTTTTTGACCCTAAACTTTCCC
1 AAAATTACCATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
47684 AAAATTACCATTTT
1 AAAATTACCATTTT
47698 GCCCCCCCGA
Statistics
Matches: 295, Mismatches: 42, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
49 37 0.13
50 4 0.01
54 1 0.00
58 85 0.29
59 137 0.46
60 31 0.11
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.38
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCA
Found at i:47410 original size:30 final size:29
Alignment explanation
Indices: 47282--47416 Score: 118
Period size: 29 Copynumber: 4.6 Consensus size: 29
47272 AAACATTTTG
* ** *
47282 AAAATTACATTTTTACCCTCGA-ACTTCTA
1 AAAATTCCATTTTTACCCT-GATTTTTCCA
*
47311 AAAATTCCATGTTTGACCCTGATTTTTCCA
1 AAAATTCCAT-TTTTACCCTGATTTTTCCA
**
47341 AAAATTACCA-TTTTACCCTCGA-ACTTCCA
1 AAAATT-CCATTTTTACCCT-GATTTTTCCA
47370 AAAATTCCATTTTTAACCCT-ATTTTTCCA
1 AAAATTCCATTTTT-ACCCTGATTTTTCCA
47399 AAAATTACCA-TTTTACCC
1 AAAATT-CCATTTTTACCC
47417 CCAAAACCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
28 8 0.09
29 49 0.56
30 28 0.32
31 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTGATTTTTCCA
Found at i:59153 original size:49 final size:49
Alignment explanation
Indices: 59088--59569 Score: 344
Period size: 49 Copynumber: 9.8 Consensus size: 49
59078 TTCAGTATCG
* * *
59088 CGAA-ACACGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCA
1 CGAAGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
* ** *
59136 CGAAGACAAGAAGGGAAAGGTTTAAGAAGCAATGGCGAA-CCTTA-TACCT
1 CGAAGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCT
* * * * *
59185 CAGAA-ACATTGAAGGGAAGGATTTAAGCCGTAACGGCGAATCCAATACCG
1 C-GAAGACA-AGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
* * * *
59235 CGAAGACACG-AGGAGAAAGGTTTAAGTCC-TAATGGCGAA-CCTTA-TACCT
1 CGAAGACAAGAAGG-GAAAGATTTAAG-CCGCAACGGCGAATCC--AGTACCT
* * * *
59284 CAGAAGA-ACA-AAGGGAAAGGTTTAAGCCACAACGGCGAATCTAGTACCA
1 C-GAAGACA-AGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
* * * * *
59333 CGAAGACATGAAGGGAAATATTTAAGTCGCAACGGCAAATCCAGTACCG
1 CGAAGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
* * * * *
59382 CCAAGACACA-AAAGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCT
1 CGAAGACA-AGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCT
* * * * *
59431 CAAAGACATGAAGGGAAAGATTTAAGCCACAACGGTGAATCCAGTACCA
1 CGAAGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
* * * * *
59480 CGAAGACACA-AAGGGAAAGGTTTAAGTCGCAATGGTGAACCCAGTACCT
1 CGAAGACA-AGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
* * * *
59529 C-AGAGGCATGAAGGGAAAGATTTAAGCCGTAATGGCGAATC
1 CGA-AGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATC
59570 TAATACCATG
Statistics
Matches: 342, Mismatches: 65, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
48 22 0.06
49 268 0.78
50 50 0.15
51 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (49 bp):
CGAAGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCT
Found at i:59212 original size:99 final size:99
Alignment explanation
Indices: 59091--59350 Score: 325
Period size: 99 Copynumber: 2.6 Consensus size: 99
59081 AGTATCGCGA
* *
59091 AACACGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACGAAGACAAGAAGGGAAAGG
1 AACA-GAAGGGAAGGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACAAGAAGGGAAAGG
*
59156 TTTAAGAAGC-AATGGCGAACCTTATACCTCAG-A-
65 TTTAAG-ACCTAATGGCGAACCTTATACCTCAGAAG
* * * *
59189 AACATTGAAGGGAAGGATTTAAGCCGTAACGGCGAATCCAATACCGCGAAGACACG-AGGAGAAA
1 AACA--GAAGGGAAGGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACAAGAAGG-GAAA
*
59253 GGTTTAAGTCCTAATGGCGAACCTTATACCTCAGAAG
63 GGTTTAAGACCTAATGGCGAACCTTATACCTCAGAAG
* * *
59290 AACA-AAGGGAAAGG-TTTAAGCCACAACGGCGAATCTAGTACCACGAAGACATGAAGGGAAA
1 AACAGAAGGG-AAGGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACAAGAAGGGAAA
59351 TATTTAAGTC
Statistics
Matches: 140, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
98 50 0.36
99 85 0.61
100 1 0.01
101 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (99 bp):
AACAGAAGGGAAGGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACAAGAAGGGAAAGGT
TTAAGACCTAATGGCGAACCTTATACCTCAGAAG
Found at i:59357 original size:98 final size:95
Alignment explanation
Indices: 59088--59609 Score: 389
Period size: 98 Copynumber: 5.3 Consensus size: 95
59078 TTCAGTATCG
* * * *
59088 CGAA-ACACGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACGAAGACAAGAAGGGA
1 CGAAGACACAAAGGGAAAGGTTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATGAAGGGA
* *
59152 AAGGTTTAAGAAGCAATGGCGAACCTTATACCT
66 AAGATTTAAG--CCAATGGCGAACC-TATACCT
** * * * *
59185 CAGAA-ACATTGAAGGG-AAGGATTTAAGCCGTAACGGCGAATCCAATACCGCGAAGACACG-AG
1 C-GAAGACA-CAAAGGGAAAGG-TTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATGAAG
*
59247 GAGAAAGGTTTAAGTCCTAATGGCGAACCTTATACCT
63 G-GAAAGATTTAAG-CC-AATGGCGAACC-TATACCT
* *
59284 CAGAAGA-ACAAAGGGAAAGGTTTAAGCCACAACGGCGAATCTAGTACCACGAAGACATGAAGGG
1 C-GAAGACACAAAGGGAAAGGTTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATGAAGGG
* * * *
59348 AAATATTTAAGTCGCAACGGCAAATCC-AGTACCG
65 AAAGATTTAAG-C-CAATGGCGAA-CCTA-TACCT
* * * * * *
59382 CCAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCTCAAAGACATGAAGGG
1 CGAAGACACAAAGGGAAAGGTTTAAGCCGCAACGGCGAATCC-AGTACCACGAAGACATGAAGGG
* * *
59446 AAAGATTTAAGCCACAACGGTGAATCC-AGTACCA
65 AAAGATTTAAG-C-CAATGGCGAA-CCTA-TACCT
* * * * * *
59480 CGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGTGAACCCAGTACCTC-AGAGGCATGAAGGG
1 CGAAGACACAAAGGGAAAGGTTTAAGCCGCAACGGCGAATCCAGTACCACGA-AGACATGAAGGG
*
59544 AAAGATTTAAGCCGTAATGGCGAATCTAATACCAT
65 AAAGATTTAAGCC--AATGGCGAACCT-ATACC-T
* * * * *
59579 -GAAGATACAGACGGAAATGTTTAAGTCGCAA
1 CGAAGACACAAAGGGAAAGGTTTAAGCCGCAA
59610 TGAAAAACCT
Statistics
Matches: 357, Mismatches: 48, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
96 1 0.00
97 10 0.03
98 255 0.71
99 90 0.25
100 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (95 bp):
CGAAGACACAAAGGGAAAGGTTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATGAAGGGA
AAGATTTAAGCCAATGGCGAACCTATACCT
Found at i:59381 original size:147 final size:146
Alignment explanation
Indices: 59100--59511 Score: 435
Period size: 147 Copynumber: 2.8 Consensus size: 146
59090 AAACACGAAG
* * * * * * *
59100 GGAAAGATTTAAGCCGCAACGGTGAATCC-AGTACCACGAAGACAAGAAGGGAAAGGTTTAAG-A
1 GGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCTCAAAGAC-AGAAGGGAAAGGTTTAAGCC
* * * * * * *
59163 AGCAATGGCGAACCTTA-TACCTCAGAA-ACATTGAAGGGAAGGATTTAAGCCGTAACGGCGAAT
64 A-CAACGGCGAATC-TAGTACCAC-GAAGACA-TGAAGGGAAAGATTTAAGTCGCAACGGCAAAT
* * *
59226 CCAATACCGCGAAGACAC-GAG
125 CCAATACCGCCAAGACACAAAA
59247 GAGAAAGGTTTAAGTC-CTAATGGCGAACCTTA-TACCTCAGAAGAACA-AAGGGAAAGGTTTAA
1 G-GAAAGGTTTAAGTCGC-AATGGCGAACC-TAGTACCTCA-AAG-ACAGAAGGGAAAGGTTTAA
*
59309 GCCACAACGGCGAATCTAGTACCACGAAGACATGAAGGGAAATATTTAAGTCGCAACGGCAAATC
61 GCCACAACGGCGAATCTAGTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAACGGCAAATC
*
59374 CAGTACCGCCAAGACACAAAA
126 CAATACCGCCAAGACACAAAA
*
59395 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATGAAGGGAAAGATTTAAGCCA
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACA-GAAGGGAAAGGTTTAAGCCA
* * ** *
59460 CAACGGTGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAA
65 CAACGGCGAATCTAGTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAA
59512 TGGTGAACCC
Statistics
Matches: 225, Mismatches: 26, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
145 3 0.01
146 5 0.02
147 148 0.66
148 61 0.27
149 6 0.03
150 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.16
Consensus pattern (146 bp):
GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACAGAAGGGAAAGGTTTAAGCCAC
AACGGCGAATCTAGTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAACGGCAAATCCAATA
CCGCCAAGACACAAAA
Found at i:59563 original size:147 final size:146
Alignment explanation
Indices: 59196--59576 Score: 394
Period size: 147 Copynumber: 2.6 Consensus size: 146
59186 AGAAACATTG
* * * * * * * * *
59196 AAGGGAAGGATTTAAGCCGTAACGGCGAATCCAATACCGCGAAGACAC-GAGGAGAAAGGTTTAA
1 AAGGGAAAGATTTAAGTCGCAACGGCAAACCCAGTACCGCCAAGACACAAAAG-GAAAGGTTTAA
*
59260 GTCC-TAATGGCGAACCTTATACCTCAGAAGAACAAAGGGAAAGGTTTAAGCCACAACGGCGAAT
65 G-CCGTAATGGCGAACC-TATACCTCAGAAGAACAAAGGGAAAGATTTAAGCCACAACGGCGAAT
* **
59324 CTAGTACCACGAAGACATG
128 CCAGTACCACGAAGACACA
* *
59343 AAGGGAAATATTTAAGTCGCAACGGCAAATCCAGTACCGCCAAGACACAAAAGGAAAGGTTTAAG
1 AAGGGAAAGATTTAAGTCGCAACGGCAAACCCAGTACCGCCAAGACACAAAAGGAAAGGTTTAAG
* * *
59408 TCGCAATGGCGAACCTAGTACCTCA-AAG-ACATGAAGGGAAAGATTTAAGCCACAACGGTGAAT
66 CCGTAATGGCGAACCTA-TACCTCAGAAGAACA--AAGGGAAAGATTTAAGCCACAACGGCGAAT
59471 CCAGTACCACGAAGACACA
128 CCAGTACCACGAAGACACA
* * ** * * ** * *
59490 AAGGGAAAGGTTTAAGTCGCAATGGTGAACCCAGTACC-TCAGAGGCATGAAGGGAAAGATTTAA
1 AAGGGAAAGATTTAAGTCGCAACGGCAAACCCAGTACCGCCA-AGACACAAAAGGAAAGGTTTAA
*
59554 GCCGTAATGGCGAATCTAATACC
65 GCCGTAATGGCGAACCT-ATACC
59577 ATGAAGATAC
Statistics
Matches: 196, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
145 3 0.02
146 8 0.04
147 182 0.93
148 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (146 bp):
AAGGGAAAGATTTAAGTCGCAACGGCAAACCCAGTACCGCCAAGACACAAAAGGAAAGGTTTAAG
CCGTAATGGCGAACCTATACCTCAGAAGAACAAAGGGAAAGATTTAAGCCACAACGGCGAATCCA
GTACCACGAAGACACA
Found at i:59677 original size:98 final size:98
Alignment explanation
Indices: 59286--59675 Score: 383
Period size: 98 Copynumber: 4.0 Consensus size: 98
59276 TTATACCTCA
* * * * * * * *
59286 GAAGA-ACAAAGGGAAAGGTTTAAGCCACAACGGCGAATCTAGTACCAC-GAAGACATGAAGGGA
1 GAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGAGAACCTAGTACCTCAAAAG-CATGAAGGGA
* * * *
59349 AATATTTAAGTCGCAACGGCAAATCCAGTACCGC
65 AAGATTTAAGCCGCAACGGCGAATCCAGTACCAC
* *
59383 CAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTC-AAAGACATGAAGGGA
1 GAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGAGAACCTAGTACCTCAAAAG-CATGAAGGGA
* *
59447 AAGATTTAAGCCACAACGGTGAATCCAGTACCAC
65 AAGATTTAAGCCGCAACGGCGAATCCAGTACCAC
* * * * *
59481 GAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGTGAACCCAGTACCTCAGAGGCATGAAGGGAA
1 GAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGAGAACCTAGTACCTCAAAAGCATGAAGGGAA
* * * * *
59546 AGATTTAAGCCGTAATGGCGAATCTAATACCAT
66 AGATTTAAGCCGCAACGGCGAATCCAGTACCAC
* * * * * * *
59579 GAAGATACAGACGGAAATGTTTAAGTCGCAATGAAAAACCTTA-TACCTCAAAAGCATGAAAGGA
1 GAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGAGAACC-TAGTACCTCAAAAGCATGAAGGGA
* * * **
59643 AATATTTAAGTCGCGACGGCGAATTTAGTACCA
65 AAGATTTAAGCCGCAACGGCGAATCCAGTACCA
59676 TGCAGATTAA
Statistics
Matches: 245, Mismatches: 45, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
97 4 0.02
98 238 0.97
99 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (98 bp):
GAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGAGAACCTAGTACCTCAAAAGCATGAAGGGAA
AGATTTAAGCCGCAACGGCGAATCCAGTACCAC
Found at i:60066 original size:17 final size:17
Alignment explanation
Indices: 60043--60150 Score: 137
Period size: 17 Copynumber: 6.3 Consensus size: 17
60033 CCAAACCCAT
60043 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
60061 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
60077 TTTAAATTAATTTTAAA
1 TTTAAATTTATTTTAAA
* *
60094 TTTAAATTTACTTTAAG
1 TTTAAATTTATTTTAAA
60111 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
60129 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
60146 TTTAA
1 TTTAA
60151 TAAAAGTCCA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
16 1 0.01
17 63 0.81
18 14 0.18
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:60080 original size:6 final size:6
Alignment explanation
Indices: 60071--60134 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
60061 TTAAATTTGT
* * *
60071 TTTAAA TTTAAA -TTAAT TTTAAA TTTAAA TTT-AC TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
60117 TTTATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
60135 ATTATTATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 8 0.17
6 39 0.83
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:60086 original size:28 final size:28
Alignment explanation
Indices: 60042--60096 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
60032 ACCAAACCCA
**
60042 TTTTAAATTTATTTTAAGATTAAATTTG
1 TTTTAAATTTAAATTAAGATTAAATTTG
**
60070 TTTTAAATTTAAATTAATTTTAAATTT
1 TTTTAAATTTAAATTAAGATTAAATTT
60097 AAATTTACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAAATTTAAATTAAGATTAAATTTG
Found at i:60855 original size:3 final size:3
Alignment explanation
Indices: 60849--60875 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
60839 GTAATAATTC
60849 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
60876 AGAAAAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61880 original size:30 final size:30
Alignment explanation
Indices: 61827--61970 Score: 105
Period size: 30 Copynumber: 4.8 Consensus size: 30
61817 TGAAGGTCCT
* * *
61827 TAAACTATCCAAAAATCATATTTTGAACCC
1 TAAACTTTCCAAAAATTACATTTTGAACCC
* *
61857 TAAACTTTTCC-AAAATTCCATTTTTG-ATCC
1 TAAAC-TTTCCAAAAATTACA-TTTTGAACCC
* * * *
61887 TGAACTTTCCAAAAGTTACATTTTTACCCC
1 TAAACTTTCCAAAAATTACATTTTGAACCC
* * *
61917 CAAAC-TTCCAAAAATTACATTTTAAACCT
1 TAAACTTTCCAAAAATTACATTTTGAACCC
* **
61946 TGATTTTTCCAAAAATTACCATTTT
1 TAAACTTTCCAAAAATTA-CATTTT
61971 ACCCTCGAAC
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
29 30 0.34
30 42 0.48
31 15 0.17
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
TAAACTTTCCAAAAATTACATTTTGAACCC
Found at i:61956 original size:59 final size:59
Alignment explanation
Indices: 61868--62112 Score: 273
Period size: 58 Copynumber: 4.2 Consensus size: 59
61858 AAACTTTTCC
** * * *
61868 AAAATTCCATTTTTGATCCT-GAACTTTCCAAAAGTTA-CATTTTTACCCCCAAACTTCCA
1 AAAATTCCATTTTTGA-CCTCGATTTTTCCAAAAATTACCA-TTTTACCCCCGAACCTCCA
* ** * * *
61927 AAAATTACATTTTAAACCTTGATTTTTCCAAAAATTACCATTTTACCCTCGAACCTCTA
1 AAAATTCCATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAACCTCCA
** * * * *
61986 AAAATTCCATTTTTGGTCTCGATTTTTCC-AAAATTACCATTTTTCCCTCGAACTTTCA
1 AAAATTCCATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAACCTCCA
* *
62044 AAAATTCCATTTTTGACCCCGATTTTTCCAAAAATTACCA-TTTACCCCCGAACCTCTA
1 AAAATTCCATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAACCTCCA
62102 AAAATTCCATT
1 AAAATTCCATT
62113 CTTGGTTCCA
Statistics
Matches: 155, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
58 78 0.50
59 75 0.48
60 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (59 bp):
AAAATTCCATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAACCTCCA
Found at i:61999 original size:29 final size:30
Alignment explanation
Indices: 61956--62112 Score: 91
Period size: 29 Copynumber: 5.4 Consensus size: 30
61946 TGATTTTTCC
61956 AAAAATTACCA-TTTTACCCTCGAACCTCT
1 AAAAATTACCATTTTTACCCTCGAACCTCT
*** ** *
61985 AAAAATT-CCATTTTTGGTCTCG-ATTTTT
1 AAAAATTACCATTTTTACCCTCGAACCTCT
* *
62013 CCAAAATTACCATTTTT-CCCTCGAA-CTTT
1 -AAAAATTACCATTTTTACCCTCGAACCTCT
*** *
62042 CAAAAATT-CCATTTTTGACCC-CGATTTTTCC
1 -AAAAATTACCATTTTT-ACCCTCGA-ACCTCT
*
62073 AAAAATTACCA--TTTACCCCCGAACCTCT
1 AAAAATTACCATTTTTACCCTCGAACCTCT
62101 AAAAATT-CCATT
1 AAAAATTACCATT
62113 CTTGGTTCCA
Statistics
Matches: 97, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
27 3 0.03
28 27 0.28
29 44 0.45
30 19 0.20
31 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAATTACCATTTTTACCCTCGAACCTCT
Found at i:62028 original size:30 final size:29
Alignment explanation
Indices: 61862--62086 Score: 111
Period size: 29 Copynumber: 7.6 Consensus size: 29
61852 AACCCTAAAC
*
61862 TTTTCCAAAATTCCATTTTTGATCCT-GAA
1 TTTTCCAAAATTCCATTTTTGA-CCTCGAT
* * * * *
61891 CTTTCCAAAAGTTACATTTTT-ACCCCCAA
1 TTTTCCAAAA-TTCCATTTTTGACCTCGAT
** * ** *
61920 ACTTCCAAAAATTACATTTTAAACCTTGAT
1 TTTTCC-AAAATTCCATTTTTGACCTCGAT
61950 TTTTCCAAAAATTACCA-TTTT-ACCCTCGA-
1 TTTTCC-AAAATT-CCATTTTTGA-CCTCGAT
*** * **
61979 ACCTCTAAAAATTCCATTTTTGGTCTCGAT
1 TTTTC-CAAAATTCCATTTTTGACCTCGAT
* *
62009 TTTTCCAAAATTACCATTTTT-CCCTCGAA
1 TTTTCCAAAATT-CCATTTTTGACCTCGAT
* * *
62038 CTTTCAAAAATTCCATTTTTGACCCCGAT
1 TTTTCCAAAATTCCATTTTTGACCTCGAT
62067 TTTTCCAAAAATTACCATTT
1 TTTTCC-AAAATT-CCATTT
62087 ACCCCCGAAC
Statistics
Matches: 146, Mismatches: 36, Indels: 26
0.70 0.17 0.12
Matches are distributed among these distances:
28 13 0.09
29 73 0.50
30 52 0.36
31 8 0.05
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.40
Consensus pattern (29 bp):
TTTTCCAAAATTCCATTTTTGACCTCGAT
Found at i:62047 original size:58 final size:59
Alignment explanation
Indices: 61863--62112 Score: 251
Period size: 59 Copynumber: 4.3 Consensus size: 59
61853 ACCCTAAACT
* ** * *
61863 TTTCCAAAATTCCATTTTTGATC-CTGAACTTTCCAAAAGTTA-CATTTTTACCCCCAAAC
1 TTTCAAAAATTCCATTTTTGATCTC-GATTTTTCCAAAAATTACCA-TTTTACCCCCGAAC
* * ** * * *
61922 TTCCAAAAATTACATTTTAAACCTTGATTTTTCCAAAAATTACCATTTTACCCTCGAAC
1 TTTCAAAAATTCCATTTTTGATCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAAC
* * * *
61981 -CTCTAAAAATTCCATTTTTGGTCTCGATTTTTCC-AAAATTACCATTTTTCCCTCGAAC
1 TTTC-AAAAATTCCATTTTTGATCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAAC
* *
62039 TTTCAAAAATTCCATTTTTGACCCCGATTTTTCCAAAAATTACCA-TTTACCCCCGAAC
1 TTTCAAAAATTCCATTTTTGATCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAAC
*
62097 -CTCTAAAAATTCCATT
1 TTTC-AAAAATTCCATT
62113 CTTGGTTCCA
Statistics
Matches: 157, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
57 2 0.01
58 74 0.47
59 79 0.50
60 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (59 bp):
TTTCAAAAATTCCATTTTTGATCTCGATTTTTCCAAAAATTACCATTTTACCCCCGAAC
Found at i:78266 original size:145 final size:147
Alignment explanation
Indices: 78072--78339 Score: 362
Period size: 146 Copynumber: 1.8 Consensus size: 147
78062 GTCGTCCTAA
* * *
78072 TTTTTATCTCAAAATTTTTTATCGAATTAAAATATTAAGGTTTAATTTTGACTCTCAG-GTTA-T
1 TTTTTATCCCAAAATTTTTCATCGAATTAAAATATTAAGGTTTAATTTTGACTCTC-GCATTATT
*
78135 TTTTCCATAGAAATTGAATCCACCAATTATGGGTATTCAAGCCCCTAATTGACGATGACCATCTA
65 TTTTCCATAGAAATTGAATCCACCAATGATGGGTATTCAAGCCCCTAATTGACGATGACCATCTA
78200 CTTCATTATCTTCATAAT
130 CTTCATTATCTTCATAAT
* * * **
78218 TTTTTATCCCAAAA-TTTTCATCGATTTAAAATGTTAGGGTTTGGTTTTGACTCTCGCATTATTT
1 TTTTTATCCCAAAATTTTTCATCGAATTAAAATATTAAGGTTTAATTTTGACTCTCGCATTATTT
* ** ** * *
78282 TTTTCATAGAAATTGAATCCACGGATGATGGGTATTTGAGCCCTTAATTGATGATGAC
66 TTTCCATAGAAATTGAATCCACCAATGATGGGTATTCAAGCCCCTAATTGACGATGAC
78340 GATGCATTTG
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
144 1 0.01
145 38 0.37
146 65 0.62
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (147 bp):
TTTTTATCCCAAAATTTTTCATCGAATTAAAATATTAAGGTTTAATTTTGACTCTCGCATTATTT
TTTCCATAGAAATTGAATCCACCAATGATGGGTATTCAAGCCCCTAATTGACGATGACCATCTAC
TTCATTATCTTCATAAT
Found at i:78544 original size:2 final size:2
Alignment explanation
Indices: 78537--78571 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
78527 GTGCCAATTC
78537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78572 CAATTCAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79556 original size:40 final size:40
Alignment explanation
Indices: 79502--79611 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
79492 TTTGGAAAGA
*
79502 AAACGCCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTTTCCAT
**
79542 AAACGTTGCAAAAGGTAAAGCAATAGCGAG-GTTTTTCCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCG-GCGTTTTTCCAT
*
79582 AAGCGCCGCAAAAGGTAAAGCAATAGCGGC
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGC
79612 ATTTATAAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 60 0.97
41 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (40 bp):
AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTTTCCAT
Found at i:79691 original size:41 final size:41
Alignment explanation
Indices: 79646--79962 Score: 289
Period size: 41 Copynumber: 7.7 Consensus size: 41
79636 GCTCTGACCT
* * * *
79646 TTAGCGGTGTTTATGTCA-AAGCGTCGCTAAAGGTCAGGACA
1 TTAGCGGTGCTT-TCTCATAAGCGCCGCTAAAGGTCAGGGCA
* * * * * **
79687 TTAGCGGCGCTTTCCCATAAGCACTGTTAAAGGTCAGGTAA
1 TTAGCGGTGCTTTCTCATAAGCGCCGCTAAAGGTCAGGGCA
* * *
79728 TTAGCGGCGCTTTCCCATAAGCGCCGTTAAAGGTCAGGGCA
1 TTAGCGGTGCTTTCTCATAAGCGCCGCTAAAGGTCAGGGCA
* * * *
79769 TTAGCGGTGCTTTCTCATAAGCGTCGTTAAAGCTTAGGGCA
1 TTAGCGGTGCTTTCTCATAAGCGCCGCTAAAGGTCAGGGCA
* *
79810 TTAGCGGCG-TTTCCTCATAAGCGTCGCTAAAGGTCAGGGCA
1 TTAGCGGTGCTTT-CTCATAAGCGCCGCTAAAGGTCAGGGCA
*
79851 TTAGCGGTGCTTCCTCATAAGCGCCGCTAAAGGTCAGGGCA
1 TTAGCGGTGCTTTCTCATAAGCGCCGCTAAAGGTCAGGGCA
* *** * * **
79892 TTAACAACGTTTTATTGTAAGCGCCGCTAAAGGTCAGGGCA
1 TTAGCGGTGCTTTCTCATAAGCGCCGCTAAAGGTCAGGGCA
* * * *
79933 TTAGTGGCT-ATTTCCCATAAGTGCCGCTAA
1 TTAGCGG-TGCTTTCTCATAAGCGCCGCTAA
79963 TTTATTTAAA
Statistics
Matches: 226, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
40 6 0.03
41 218 0.96
42 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TTAGCGGTGCTTTCTCATAAGCGCCGCTAAAGGTCAGGGCA
Found at i:79773 original size:123 final size:122
Alignment explanation
Indices: 79646--79953 Score: 340
Period size: 123 Copynumber: 2.5 Consensus size: 122
79636 GCTCTGACCT
*
79646 TTAGCGGTGTTTATGTCAAAGCGTCGCTAAAGGTCAGGACATTAGCGGCGCTTTCCCATAAGCAC
1 TTAGCGGTGTTTATGTCAAAGCGTCGCTAAAGGTCAGGGCATTAGCGGCG-TTTCCCATAAGC-C
* * *
79711 T-GTTAAAGGTCAGGTAATTAGCGGCGCTTTCC-CATAAGCGCCGTTAAAGGTCAGGGCA
64 TCGCTAAAGGTCAGGGAATTAGCGGCGC-TTCCTCATAAGCGCCGCTAAAGGTCAGGGCA
* * * * * *
79769 TTAGCGGTGCTT-TCTCATAAGCGTCGTTAAAGCTTAGGGCATTAGCGGCGTTTCCTCATAAGCG
1 TTAGCGGTGTTTATGTCA-AAGCGTCGCTAAAGGTCAGGGCATTAGCGGCGTTTCC-CATAAGCC
* *
79833 TCGCTAAAGGTCAGGGCATTAGCGGTGCTTCCTCATAAGCGCCGCTAAAGGTCAGGGCA
64 TCGCTAAAGGTCAGGGAATTAGCGGCGCTTCCTCATAAGCGCCGCTAAAGGTCAGGGCA
* * * * *
79892 TTAACAACGT-TTTATTGT--AAGCGCCGCTAAAGGTCAGGGCATTAGTGGCTATTTCCCATAAG
1 TTAGC--GGTGTTTA-TGTCAAAGCGTCGCTAAAGGTCAGGGCATTAGCGGC-GTTTCCCATAAG
79954 TGCCGCTAAT
Statistics
Matches: 154, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
122 14 0.09
123 129 0.84
124 7 0.05
125 2 0.01
126 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (122 bp):
TTAGCGGTGTTTATGTCAAAGCGTCGCTAAAGGTCAGGGCATTAGCGGCGTTTCCCATAAGCCTC
GCTAAAGGTCAGGGAATTAGCGGCGCTTCCTCATAAGCGCCGCTAAAGGTCAGGGCA
Done.