Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015042.1 Kokia drynarioides strain JFW-HI SEQ_130086, 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: 366595
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 491 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:11145 original size:20 final size:20
Alignment explanation
Indices: 11120--11160 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11110 TGATACTTTA
11120 AATTTGGTTATTTTGTTGTC
1 AATTTGGTTATTTTGTTGTC
11140 AATTTGGTTATTTTGTTGTC
1 AATTTGGTTATTTTGTTGTC
11160 A
1 A
11161 GAATAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.59
Consensus pattern (20 bp):
AATTTGGTTATTTTGTTGTC
Found at i:18895 original size:21 final size:21
Alignment explanation
Indices: 18866--18976 Score: 151
Period size: 21 Copynumber: 5.5 Consensus size: 21
18856 GTGCCTAGTA
*
18866 GGCTTTGTGCCGGTATATTCG
1 GGCTTTGTGCCGGTGTATTCG
* * *
18887 GGCTATGTG-C--T-TAGT-A
1 GGCTTTGTGCCGGTGTATTCG
18903 GGCTTTGTGCCGGTGTATTCG
1 GGCTTTGTGCCGGTGTATTCG
18924 GGCTTTGTGCCGGTGTATTCG
1 GGCTTTGTGCCGGTGTATTCG
18945 GGCTTTGTGCCGGTGTATTCG
1 GGCTTTGTGCCGGTGTATTCG
18966 GGCTTTGTGCC
1 GGCTTTGTGCC
18977 TAGTAGGCTT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
16 8 0.10
17 4 0.05
18 1 0.01
19 1 0.01
20 4 0.05
21 61 0.77
ACGTcount: A:0.07, C:0.19, G:0.36, T:0.38
Consensus pattern (21 bp):
GGCTTTGTGCCGGTGTATTCG
Found at i:18902 original size:37 final size:37
Alignment explanation
Indices: 18849--19028 Score: 227
Period size: 37 Copynumber: 4.7 Consensus size: 37
18839 TTAAATAATT
*
18849 GGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTATATTC
1 GGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTATTC
* *
18886 GGGCTATGTGCTTAGTAGGCTTTGTGCCGGTGTATTC
1 GGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTATTC
18923 GGGCTTTGTGCCGGT-GTATTCGGGCTTTGTGCCGGTGTATTC
1 GGGCTTTGTGCC--TAGTA----GGCTTTGTGCCGGTGTATTC
* * *
18965 GGGCTTTGTGCCTAGTAGGCTTTGCGTCGCTGTATTC
1 GGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTATTC
**
19002 GGATTTTGTGCCTAGTAGGCTTTGTGC
1 GGGCTTTGTGCCTAGTAGGCTTTGTGC
19029 TGGTAAATCA
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
37 84 0.68
38 3 0.02
39 1 0.01
40 1 0.01
41 3 0.02
42 32 0.26
ACGTcount: A:0.09, C:0.18, G:0.34, T:0.38
Consensus pattern (37 bp):
GGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTATTC
Found at i:18964 original size:79 final size:79
Alignment explanation
Indices: 18866--19013 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 79
18856 GTGCCTAGTA
* * * *
18866 GGCTTTGTGCCGGTATATTCGGGCTATGTGCTTAGTAGGCTTTGTGCCGGTGTATTCGGGCTTTG
1 GGCTTTGTGCCGGTATATTCGGGCTATGTGCCTAGTAGGCTTTGCGCCGCTGTATTCGGACTTTG
18931 TGCCGGTGTATTCG
66 TGCCGGTGTATTCG
* * * *
18945 GGCTTTGTGCCGGTGTATTCGGGCTTTGTGCCTAGTAGGCTTTGCGTCGCTGTATTCGGATTTTG
1 GGCTTTGTGCCGGTATATTCGGGCTATGTGCCTAGTAGGCTTTGCGCCGCTGTATTCGGACTTTG
19010 TGCC
66 TGCC
19014 TAGTAGGCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.08, C:0.19, G:0.34, T:0.39
Consensus pattern (79 bp):
GGCTTTGTGCCGGTATATTCGGGCTATGTGCCTAGTAGGCTTTGCGCCGCTGTATTCGGACTTTG
TGCCGGTGTATTCG
Found at i:22918 original size:3 final size:3
Alignment explanation
Indices: 22910--22951 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22900 TCAATCCAAT
22910 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
22952 TGTTTATTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:23287 original size:30 final size:30
Alignment explanation
Indices: 23251--23310 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23241 GCCGGGCCGG
23251 GTCGGGTTCAGGACGGGCTTCAGTAAAATT
1 GTCGGGTTCAGGACGGGCTTCAGTAAAATT
*
23281 GTCGGGTTCAGGCCGGGCTTCAGTAAAATT
1 GTCGGGTTCAGGACGGGCTTCAGTAAAATT
23311 TTAGATTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (30 bp):
GTCGGGTTCAGGACGGGCTTCAGTAAAATT
Found at i:23533 original size:49 final size:48
Alignment explanation
Indices: 23452--23547 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 48
23442 TATTACATAC
* * *
23452 AACAAATTTAAAAAATATATAATATATCAAATACACATAAAAACATTAA
1 AACAAATTTAAAAAATAAATAATATATAAAATAC-CATAAAAAAATTAA
* *
23501 AACAAATATTAAAAAATAAATAA-ATTTAAAATACCTTAAAAAAATTA
1 AACAAAT-TTAAAAAATAAATAATATATAAAATACCATAAAAAAATTA
23548 TATTAAGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 11 0.27
49 16 0.39
50 14 0.34
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (48 bp):
AACAAATTTAAAAAATAAATAATATATAAAATACCATAAAAAAATTAA
Found at i:23708 original size:23 final size:24
Alignment explanation
Indices: 23657--23701 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23647 AAAACGCATA
*
23657 AAAAATAACAATCAAAACAGCAGC
1 AAAAATAACAATCAAAACAACAGC
*
23681 AAAAATAACAGT-AAAACAACA
1 AAAAATAACAATCAAAACAACA
23702 TTAAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.67, C:0.18, G:0.07, T:0.09
Consensus pattern (24 bp):
AAAAATAACAATCAAAACAACAGC
Found at i:23708 original size:24 final size:24
Alignment explanation
Indices: 23653--23714 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
23643 AGTAAAAACG
*
23653 CATAAAAAATAACAATCAAAACAG
1 CATAAAAAATAACAATCAAAACAA
** *
23677 CAGCAAAAATAACAGT-AAAACAA
1 CATAAAAAATAACAATCAAAACAA
* *
23700 CATTAAAAACAACAA
1 CATAAAAAATAACAA
23715 AAATAGCAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.66, C:0.18, G:0.05, T:0.11
Consensus pattern (24 bp):
CATAAAAAATAACAATCAAAACAA
Found at i:23716 original size:9 final size:10
Alignment explanation
Indices: 23693--23807 Score: 52
Period size: 12 Copynumber: 10.4 Consensus size: 10
23683 AAATAACAGT
23693 AAAACAACATTA
1 AAAACAACA--A
23705 AAAACAACAA
1 AAAACAACAA
23715 AAATAGCAACAA
1 AAA-A-CAACAA
23727 AAACAGCAACAA
1 AAA-A-CAACAA
23739 AAATA-ACACAA
1 AAA-ACA-ACAA
* *
23750 AAAATAACACG
1 AAAACAACA-A
* *
23761 AAAATAGCAA
1 AAAACAACAA
*
23771 TCAAAACAATAA
1 --AAAACAACAA
*
23783 AAAACAACTCA
1 AAAACAAC-AA
*
23794 AAAACAGCAA
1 AAAACAACAA
23804 AAAA
1 AAAA
23808 AATCAACCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
10 21 0.25
11 25 0.30
12 37 0.45
ACGTcount: A:0.70, C:0.18, G:0.04, T:0.08
Consensus pattern (10 bp):
AAAACAACAA
Found at i:23724 original size:12 final size:12
Alignment explanation
Indices: 23709--23776 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
23699 ACATTAAAAA
23709 CAACAAAAATAG
1 CAACAAAAATAG
*
23721 CAACAAAAACAG
1 CAACAAAAATAG
*
23733 CAACAAAAATAA
1 CAACAAAAATAG
*
23745 C-ACAAAAAATAA
1 CAAC-AAAAATAG
*
23757 C-ACGAAAATAG
1 CAACAAAAATAG
23768 CAATCAAAA
1 CAA-CAAAA
23777 CAATAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
11 9 0.19
12 34 0.72
13 4 0.09
ACGTcount: A:0.68, C:0.19, G:0.06, T:0.07
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:23728 original size:21 final size:23
Alignment explanation
Indices: 23704--23776 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
23694 AAACAACATT
23704 AAAAACAACAAAAATAGCAA-CA
1 AAAAACAACAAAAATAGCAATCA
*
23726 AAAACAGCAACAAAAATAAC-A-CA
1 AAAA-A-CAACAAAAATAGCAATCA
*
23749 AAAAATAACACGAAAATAGCAATCA
1 AAAAACAACA--AAAATAGCAATCA
23774 AAA
1 AAA
23777 CAATAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 15 0.36
24 13 0.31
25 5 0.12
ACGTcount: A:0.70, C:0.18, G:0.05, T:0.07
Consensus pattern (23 bp):
AAAAACAACAAAAATAGCAATCA
Found at i:23797 original size:21 final size:20
Alignment explanation
Indices: 23772--23829 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 20
23762 AAATAGCAAT
23772 CAAAACAATAAAAAA-CAAC
1 CAAAACAATAAAAAATCAAC
*
23791 TCAAAAACAGCAAAAAAAATCAAC
1 -C-AAAACA--ATAAAAAATCAAC
*
23815 CAAAACATTAAAAAA
1 CAAAACAATAAAAAA
23830 AAAAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 7 0.23
21 6 0.19
22 6 0.19
23 8 0.26
24 4 0.13
ACGTcount: A:0.71, C:0.19, G:0.02, T:0.09
Consensus pattern (20 bp):
CAAAACAATAAAAAATCAAC
Found at i:41189 original size:16 final size:16
Alignment explanation
Indices: 41168--41198 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41158 TTTTGTATTG
*
41168 TTTTAATATTAAATAT
1 TTTTAAGATTAAATAT
41184 TTTTAAGATTAAATA
1 TTTTAAGATTAAATA
41199 ATATTAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAAGATTAAATAT
Found at i:42427 original size:57 final size:57
Alignment explanation
Indices: 42359--42475 Score: 171
Period size: 57 Copynumber: 2.1 Consensus size: 57
42349 AAATTGACAA
* **
42359 TTTTTTAGGAACATTCGATTTTTTGGTATAGGGTTTAGGCAAACAATTTTTTCTAAT
1 TTTTTTAGGAACATTCGATTTCTTGGTATAGGGTTTAGGCAAACAAAATTTTCTAAT
* * * *
42416 TTTTTTTGGAACATTCGGTTTCTTGGTTTAGGGTTTAGGGAAACAAAATTTTCTAAT
1 TTTTTTAGGAACATTCGATTTCTTGGTATAGGGTTTAGGCAAACAAAATTTTCTAAT
42473 TTT
1 TTT
42476 ATATTGACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.48
Consensus pattern (57 bp):
TTTTTTAGGAACATTCGATTTCTTGGTATAGGGTTTAGGCAAACAAAATTTTCTAAT
Found at i:42557 original size:30 final size:30
Alignment explanation
Indices: 42499--42554 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
42489 TTTGTTTTTG
42499 TTCGTATTATATCTGACTTCAAATTTTGTA
1 TTCGTATTATATCTGACTTCAAATTTTGTA
* *
42529 TTCGTATTAT-TTTGACTTCTAATTTT
1 TTCGTATTATATCTGACTTCAAATTTT
42555 TGTTTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (30 bp):
TTCGTATTATATCTGACTTCAAATTTTGTA
Found at i:44746 original size:9 final size:9
Alignment explanation
Indices: 44728--44822 Score: 61
Period size: 9 Copynumber: 10.1 Consensus size: 9
44718 TTACATCTGC
44728 TATG-TATG
1 TATGTTATG
44736 TATGTTATG
1 TATGTTATG
*
44745 TATGTCATG
1 TATGTTATG
*
44754 TATATTACTG
1 TATGTTA-TG
*
44764 TTATGAATATG
1 -TATG-TTATG
*
44775 TTTGTTATG
1 TATGTTATG
44784 TATGTATAT-
1 TATGT-TATG
44793 TATG-TATG
1 TATGTTATG
44801 TTATGTTTAATG
1 -TATG-TT-ATG
*
44813 AATGTTATG
1 TATGTTATG
44822 T
1 T
44823 TTAACACTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 36 0.54
10 10 0.15
11 9 0.13
12 5 0.07
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (9 bp):
TATGTTATG
Found at i:45242 original size:16 final size:16
Alignment explanation
Indices: 45221--45258 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45211 TCAAATTCCT
*
45221 CAAATCGTGAAA-CCTC
1 CAAATCATGAAATCC-C
45237 CAAATCATGAAATCCC
1 CAAATCATGAAATCCC
45253 CAAATC
1 CAAATC
45259 CATAACATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.42, C:0.32, G:0.08, T:0.18
Consensus pattern (16 bp):
CAAATCATGAAATCCC
Found at i:45313 original size:16 final size:16
Alignment explanation
Indices: 45289--45325 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45279 TAAATCCCTA
*
45289 AAATATTGAAATCCTC
1 AAATCTTGAAATCCTC
*
45305 AAATCTTGAAATCCTT
1 AAATCTTGAAATCCTC
45321 AAATC
1 AAATC
45326 ATTAACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (16 bp):
AAATCTTGAAATCCTC
Found at i:46473 original size:33 final size:32
Alignment explanation
Indices: 46267--46473 Score: 116
Period size: 33 Copynumber: 6.3 Consensus size: 32
46257 TTGACTGTTG
* ** *
46267 GGGAGGGTAATG-ATGAAGGGGTGGAAGTTGAT
1 GGGAGGGTGATGTA-GAAGGGGTACAAGCTGAT
* * **
46299 AGGGAGAGTGATG-ATGAAGGGGTAGAATTTGAT
1 -GGGAGGGTGATGTA-GAAGGGGTACAAGCTGAT
* * * *
46332 GAGGAGGGTGACG-ACGAAGGGGCAGAATCTGAT
1 G-GGAGGGTGATGTA-GAAGGGGTACAAGCTGAT
* * * * *
46365 GGTGAAGGTGATCT-GAAAAGGGTAAAAGCTGTT
1 GG-GAGGGTGATGTAG-AAGGGGTACAAGCTGAT
46398 AGGGAGGGTGATGTAGAAGGGGTACAAGCTGAT
1 -GGGAGGGTGATGTAGAAGGGGTACAAGCTGAT
* * *
46431 GGGCAGGGTGATGTAGGAGGGTTACAAGTTGATT
1 GGG-AGGGTGATGTAGAAGGGGTACAAGCTGA-T
46465 GGGAGGGTG
1 GGGAGGGTG
46474 TATTTGCTAC
Statistics
Matches: 141, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
32 6 0.04
33 128 0.91
34 7 0.05
ACGTcount: A:0.29, C:0.05, G:0.45, T:0.21
Consensus pattern (32 bp):
GGGAGGGTGATGTAGAAGGGGTACAAGCTGAT
Found at i:49682 original size:21 final size:20
Alignment explanation
Indices: 49637--49711 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
49627 ATAGTGCAGA
*
49637 CTTCTACC-ATACAAGTAACA
1 CTTCTACCGATACAAGT-ACT
*
49657 GTTCTACCGATACAAGTGACT
1 CTTCTACCGATACAAGT-ACT
* * *
49678 CTTCTACCAAAACAAGTATT
1 CTTCTACCGATACAAGTACT
*
49698 ACTTTTACCGATAC
1 -CTTCTACCGATAC
49712 TGAAAACTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 9 0.21
21 34 0.79
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (20 bp):
CTTCTACCGATACAAGTACT
Found at i:53026 original size:61 final size:61
Alignment explanation
Indices: 52643--53016 Score: 581
Period size: 61 Copynumber: 6.1 Consensus size: 61
52633 CAAGATGCCG
*
52643 TAAAGACATCGAAACTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
1 TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
* * * *
52704 TAAAGACATCGAATCTTTAATCCATAATAGGATTAATTTTCATATAATACTCACGATGAAA
1 TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
*
52765 TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACAATGACA
1 TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
* * **
52826 TAAAGACAT-AAGACCTTTAA-CCTATAATAGAATTCATTTTCATGTAATGTTCACGATGACA
1 TAAAGACATCGA-ACCTTTAATCC-ATAATAGGATTCATTTTCATGTAATACTCACGATGACA
* * *
52887 TAAAGACATCGAACCTTTAATCTATAATAGGATTCATTTTCATGTAATACTCTCGATGAAA
1 TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
* *
52948 TAAAGACATCGAACCTTTAATCCATAATAGGATTCGTTTTCATGTAATACTCACAATGACA
1 TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
53009 TAAAGACA
1 TAAAGACA
53017 GCAGACCTTT
Statistics
Matches: 283, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
60 3 0.01
61 278 0.98
62 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (61 bp):
TAAAGACATCGAACCTTTAATCCATAATAGGATTCATTTTCATGTAATACTCACGATGACA
Found at i:55567 original size:27 final size:29
Alignment explanation
Indices: 55523--55577 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
55513 ATGATTCAAA
*
55523 AAGAAGATTGTTAAAGATTTTAGGGATTCT
1 AAGAAGATTGTT-AAGATGTTAGGGATTCT
*
55553 AAGAAGATT-TT-AGATGTTATGGATT
1 AAGAAGATTGTTAAGATGTTAGGGATT
55578 TGAGGAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
29 2 0.09
30 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
AAGAAGATTGTTAAGATGTTAGGGATTCT
Found at i:55593 original size:16 final size:16
Alignment explanation
Indices: 55574--55617 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
55564 AGATGTTATG
*
55574 GATTTGAGGAATCCAT
1 GATTTGAGGAATCCAA
** *
55590 GATTTGAGGGTTTCAA
1 GATTTGAGGAATCCAA
55606 GATTTGAGGAAT
1 GATTTGAGGAAT
55618 TTGACGAGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (16 bp):
GATTTGAGGAATCCAA
Found at i:61942 original size:55 final size:55
Alignment explanation
Indices: 61858--61967 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
61848 GATTTTAGTA
61858 AAGGACTAAGTGTTTATTATGATAATTCATCATTCATAACAATGATTAACCATAT
1 AAGGACTAAGTGTTTATTATGATAATTCATCATTCATAACAATGATTAACCATAT
61913 AAGGACTAAGTGTTTATTATGATAATTCATCATTCATAACAATGATTAACCATAT
1 AAGGACTAAGTGTTTATTATGATAATTCATCATTCATAACAATGATTAACCATAT
61968 TAGAAAAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (55 bp):
AAGGACTAAGTGTTTATTATGATAATTCATCATTCATAACAATGATTAACCATAT
Found at i:63551 original size:20 final size:20
Alignment explanation
Indices: 63526--63565 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63516 TGAATATACA
63526 TTTTTTATCTCCCTCTTTCC
1 TTTTTTATCTCCCTCTTTCC
* * *
63546 TTTTTTCTTTCTCTCTTTCC
1 TTTTTTATCTCCCTCTTTCC
63566 GTTTAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTATCTCCCTCTTTCC
Found at i:63807 original size:19 final size:19
Alignment explanation
Indices: 63783--63846 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 19
63773 ATATCTTTAA
63783 ATTAAAATTAAGTAGAATG
1 ATTAAAATTAAGTAGAATG
* **
63802 ATTAAATATT--TTCTAA--
1 ATTAAA-ATTAAGTAGAATG
63818 ATTAAAATTAAGTAGAATG
1 ATTAAAATTAAGTAGAATG
63837 ATT-AAATTAA
1 ATTAAAATTAA
63847 AAGTGAAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 11
0.67 0.12 0.22
Matches are distributed among these distances:
15 3 0.09
16 6 0.18
17 3 0.09
18 10 0.29
19 9 0.26
20 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (19 bp):
ATTAAAATTAAGTAGAATG
Found at i:70098 original size:19 final size:18
Alignment explanation
Indices: 70052--70099 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
70042 TAAGAATGTC
70052 AATTATTTAAAATAATTAA
1 AATT-TTTAAAATAATTAA
*
70071 ATATATTTTAAATTAAATTAA
1 A-AT-TTTTAAAAT-AATTAA
70092 AATTTTTA
1 AATTTTTA
70100 TTACATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 6 0.24
20 11 0.44
21 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTTTAAAATAATTAA
Found at i:87760 original size:32 final size:33
Alignment explanation
Indices: 87722--87843 Score: 135
Period size: 32 Copynumber: 3.8 Consensus size: 33
87712 TTTGGGATTG
* *
87722 TCGATTTTGGGGAATTTT-GGGTTTAAGGTTCA
1 TCGATTTTGAGGAATTTTCGAGTTTAAGGTTCA
* *
87754 TTGATTTTGAGGAATTTT-GAGTTTAGGGTTCA
1 TCGATTTTGAGGAATTTTCGAGTTTAAGGTTCA
* * *
87786 TCGATTTTGAGG-ATTTTCAAGTTTATGGTTCG
1 TCGATTTTGAGGAATTTTCGAGTTTAAGGTTCA
* *
87818 TCAATTTTG-GGAATTTTCGGGTTTAA
1 TCGATTTTGAGGAATTTTCGAGTTTAA
87844 CGTATGTCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
31 7 0.09
32 69 0.91
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.46
Consensus pattern (33 bp):
TCGATTTTGAGGAATTTTCGAGTTTAAGGTTCA
Found at i:89524 original size:16 final size:17
Alignment explanation
Indices: 89503--89546 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
89493 AAACGTTGAC
89503 GAACAAAGAG-CAGCAA
1 GAACAAAGAGACAGCAA
89519 GAACAAAGAAGAACAGCAA
1 GAACAAAG-AG-ACAGCAA
89538 GAACAAAGA
1 GAACAAAGA
89547 AGAGTTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 1 0.04
19 14 0.56
ACGTcount: A:0.61, C:0.16, G:0.23, T:0.00
Consensus pattern (17 bp):
GAACAAAGAGACAGCAA
Found at i:89535 original size:19 final size:19
Alignment explanation
Indices: 89508--89549 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
89498 TTGACGAACA
*
89508 AAGAGCAGCAAGAACAAAG
1 AAGAACAGCAAGAACAAAG
89527 AAGAACAGCAAGAACAAAG
1 AAGAACAGCAAGAACAAAG
89546 AAGA
1 AAGA
89550 GTTGGAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.62, C:0.14, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAACAGCAAGAACAAAG
Found at i:89604 original size:14 final size:14
Alignment explanation
Indices: 89580--89613 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
89570 CTCATATTCA
89580 GGAAG-AGAAAGAG
1 GGAAGAAGAAAGAG
89593 GGAAGAAGAAAGAG
1 GGAAGAAGAAAGAG
*
89607 GAAAGAA
1 GGAAGAA
89614 TTTGGGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
GGAAGAAGAAAGAG
Found at i:90664 original size:30 final size:30
Alignment explanation
Indices: 90628--90684 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
90618 GTATCATGTA
*
90628 ATGGTAATAAAGGTGGTGAGGGTGATGGTG
1 ATGGTAATAAAGGTGGCGAGGGTGATGGTG
*
90658 ATGGTAATGAAGGTGGCGAGGGTGATG
1 ATGGTAATAAAGGTGGCGAGGGTGATG
90685 AAAAAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.47, T:0.25
Consensus pattern (30 bp):
ATGGTAATAAAGGTGGCGAGGGTGATGGTG
Found at i:90770 original size:24 final size:24
Alignment explanation
Indices: 90738--90840 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
90728 TGAGGGATTT
90738 GGTGGTGAGGTTGATTGCAATAAA
1 GGTGGTGAGGTTGATTGCAATAAA
* ** **
90762 GGTGGTGAGGGTGA--GGGAT-TG
1 GGTGGTGAGGTTGATTGCAATAAA
*
90783 GGTGGTGAGGTTG-TTGGGAATAAA
1 GGTGGTGAGGTTGATT-GCAATAAA
*
90807 GGTGGTGAGGTT-ATTTGCAGTAAA
1 GGTGGTGAGGTTGA-TTGCAATAAA
*
90831 GGTGATGAGG
1 GGTGGTGAGG
90841 GTGGTGAGGG
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
21 12 0.20
22 3 0.05
23 4 0.07
24 40 0.66
25 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.47, T:0.28
Consensus pattern (24 bp):
GGTGGTGAGGTTGATTGCAATAAA
Found at i:90775 original size:45 final size:45
Alignment explanation
Indices: 90690--90816 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 45
90680 TGATGAAAAA
* *
90690 GGTGAGGTTGCTGGCAATAAAGGTGGTGAGAGTTCGGGTGAGGGATTTGGT
1 GGTGAGGTTGTTGGCAATAAAGGTGGT--GA----GGGTGAGGGATTGGGT
90741 GGTGAGGTTGATT-GCAATAAAGGTGGTGAGGGTGAGGGATTGGGT
1 GGTGAGGTTG-TTGGCAATAAAGGTGGTGAGGGTGAGGGATTGGGT
*
90786 GGTGAGGTTGTTGGGAATAAAGGTGGTGAGG
1 GGTGAGGTTGTTGGCAATAAAGGTGGTGAGG
90817 TTATTTGCAG
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
44 2 0.03
45 42 0.59
49 2 0.03
51 24 0.34
52 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.27
Consensus pattern (45 bp):
GGTGAGGTTGTTGGCAATAAAGGTGGTGAGGGTGAGGGATTGGGT
Found at i:93437 original size:158 final size:159
Alignment explanation
Indices: 93148--93566 Score: 510
Period size: 158 Copynumber: 2.6 Consensus size: 159
93138 AATAAAAGAT
* * * *
93148 CATGCATTCATCCTAACACAAC-GAGAACACAAGTATATCGTAAATACTTTTTCATTGTCAATTC
1 CATGCATTCAGCCTAACACAACTG-GATCACAAGTATATCGTAAACACTTTTT-AATGTCAATTC
* * * * * *
93212 CAAAATATTATAATC---TTT-GGATTTTGATTTTTTTTTTTTGTCTTAGTTTGGTATGAGTACG
64 CAAAATATTTTAATCTAATTTGGGGTTATGA---TTTTTTTGTGTCTTACTATGGTATGAGTACG
* * *
93273 AGAACTAGAAGCCAAAAAAATAACAACATAACAC
126 AGAACTAGAAGCAAAAAAAAAAACAACAAAACAC
* **
93307 CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAGACACTTTTTAATGTCAATTAAA
1 CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACACTTTTTAATGTCAATTCCA
93372 AAATATTTTAATCTAATTTGGGGTTATGATTTTTTTGT-TCTTACTATGGTATGAGTACGCA-AA
66 AAATATTTTAATCTAATTTGGGGTTATGATTTTTTTGTGTCTTACTATGGTATGAGTACG-AGAA
*
93435 CTAGAAGTAAAAAAAAAAACAACAAAACAC
130 CTAGAAGCAAAAAAAAAAACAACAAAACAC
* * *
93465 CATGCATTCAGCCTAACACAATTGGATCACAGGTATATCGTAAACATTTTTTTAATGTCAATTCC
1 CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACA-CTTTTTAATGTCAATTCC
* * * *
93530 AAATTATTTAAATCTAATTTGGGGTTCTAATTTTTTT
65 AAAATATTTTAATCTAATTTGGGGTTATGATTTTTTT
93567 TCTCAATTTA
Statistics
Matches: 226, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
158 112 0.50
159 103 0.46
160 1 0.00
161 3 0.01
162 7 0.03
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (159 bp):
CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACACTTTTTAATGTCAATTCCA
AAATATTTTAATCTAATTTGGGGTTATGATTTTTTTGTGTCTTACTATGGTATGAGTACGAGAAC
TAGAAGCAAAAAAAAAAACAACAAAACAC
Found at i:95301 original size:46 final size:46
Alignment explanation
Indices: 95226--95317 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
95216 TCAAGCTCTT
* *
95226 AATCTTTGTGTTTAATTCAACCTGGTCCACAACGTCATGATTCACC
1 AATCTTTGTGTTTAATTCAACCTGATCCACAACATCATGATTCACC
**
95272 AATCTTTGTGTTTAATTCAATGTGATCCACAACATCATGATTCACC
1 AATCTTTGTGTTTAATTCAACCTGATCCACAACATCATGATTCACC
95318 TCTTTTGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (46 bp):
AATCTTTGTGTTTAATTCAACCTGATCCACAACATCATGATTCACC
Found at i:96297 original size:18 final size:18
Alignment explanation
Indices: 96263--96297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96253 GGGTTCTAAA
*
96263 TTTTTTTAATTTTAATTG
1 TTTTTTTAATTTAAATTG
*
96281 TTTTTTTAGTTTAAATT
1 TTTTTTTAATTTAAATT
96298 CATTTGCTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTTTAATTTAAATTG
Found at i:99008 original size:136 final size:136
Alignment explanation
Indices: 98765--99016 Score: 371
Period size: 136 Copynumber: 1.9 Consensus size: 136
98755 GAGAAAGCGA
* * * * *
98765 ATATTATCCCAAAGAGATTAAGGATATCCTATGAGGGTAACATTGTACCAGCTCGGTTTTCAGTG
1 ATATTATCCCAAAGAGATTAAGGATATCCTATGAAGGTAACATTATAACAGCCCGATTTTCAGTG
* * * **
98830 ATGTCGAAAATAATGATTTCGGGATCACAACTCTGATGAGTCGAATCATAAGGATTATATTAAGA
66 ATATCGAAAATAATGATTTCGGGATCACAAATCCGACAAGTCGAATCATAAGGATTATATTAAGA
98895 GAGTGT
131 GAGTGT
*
98901 ATATTATCCCAAAGAGATTTAGGATATCCTATGAAGGTAACATTATAACAGCCCGATTTTCAGT-
1 ATATTATCCCAAAGAGATTAAGGATATCCTATGAAGGTAACATTATAACAGCCCGATTTTCAGTG
* *
98965 AGTATCGAAAATAGTGATTTCGGGATCACAAATCCGACAAGTCGAGTCATAA
66 A-TATCGAAAATAATGATTTCGGGATCACAAATCCGACAAGTCGAATCATAA
99017 ATTTATTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
135 1 0.01
136 101 0.99
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (136 bp):
ATATTATCCCAAAGAGATTAAGGATATCCTATGAAGGTAACATTATAACAGCCCGATTTTCAGTG
ATATCGAAAATAATGATTTCGGGATCACAAATCCGACAAGTCGAATCATAAGGATTATATTAAGA
GAGTGT
Found at i:105540 original size:30 final size:28
Alignment explanation
Indices: 105506--105582 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
105496 CAAATAATTT
105506 TAAAATTATTAAAATTATTGTTTTGAAATA
1 TAAAATTATTAAAATTATT-TTTT-AAATA
*
105536 TAAAATTATT-AAATTATTTTTTTAATA
1 TAAAATTATTAAAATTATTTTTTAAATA
*
105563 TAAAATTATT-ATATTATTTT
1 TAAAATTATTAAAATTATTTT
105583 AATTTTCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 23 0.51
28 4 0.09
29 8 0.18
30 10 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (28 bp):
TAAAATTATTAAAATTATTTTTTAAATA
Found at i:114239 original size:3 final size:3
Alignment explanation
Indices: 114231--114262 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
114221 AACATTTTTA
114231 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
114263 AGGAAAGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:116443 original size:49 final size:49
Alignment explanation
Indices: 116387--116488 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 49
116377 GTTGTATCTA
*
116387 ATATTTCTGTGTTCAGGAATGATTTTATGGTCTTTGATATATTGTTTGC
1 ATATTTCTGTGTTCAGGAATGATTTTACGGTCTTTGATATATTGTTTGC
116436 ATATTTCTGTGTTCAGGAATGATTTTACGGTCTTTGATATATTGTTTGC
1 ATATTTCTGTGTTCAGGAATGATTTTACGGTCTTTGATATATTGTTTGC
116485 -TATT
1 ATATT
116489 GATTAATACT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 4 0.08
49 48 0.92
ACGTcount: A:0.21, C:0.09, G:0.20, T:0.51
Consensus pattern (49 bp):
ATATTTCTGTGTTCAGGAATGATTTTACGGTCTTTGATATATTGTTTGC
Found at i:118382 original size:3 final size:3
Alignment explanation
Indices: 118374--118408 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
118364 ACGTTTTTAA
118374 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
118409 AGGAAAGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:126322 original size:17 final size:17
Alignment explanation
Indices: 126284--126322 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
126274 AGGTGGAGAA
* *
126284 CTTGTTTGTTGAGAGTT
1 CTTGTTTGTAGAGAATT
*
126301 TTTGTTTGTAGAGAATT
1 CTTGTTTGTAGAGAATT
126318 CTTGT
1 CTTGT
126323 CAAGGTGGAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.26, T:0.54
Consensus pattern (17 bp):
CTTGTTTGTAGAGAATT
Found at i:126357 original size:41 final size:41
Alignment explanation
Indices: 126312--126402 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
126302 TTGTTTGTAG
* * **
126312 AGAATTCTTG-TCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGCT-AAGGTGAAGATTATTAGAATTAAGTGACT
126353 AGAATTCTTGCTAAGGTGAAGATTATTAGAATTAAGTGACT
1 AGAATTCTTGCTAAGGTGAAGATTATTAGAATTAAGTGACT
126394 AGAATTCTT
1 AGAATTCTT
126403 ATTAAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (41 bp):
AGAATTCTTGCTAAGGTGAAGATTATTAGAATTAAGTGACT
Found at i:126678 original size:2 final size:2
Alignment explanation
Indices: 126671--126702 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
126661 TAAAATTTAA
126671 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126703 TACGATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127920 original size:32 final size:32
Alignment explanation
Indices: 127879--127975 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
127869 AAGATTGCCA
127879 ACAAGCAGAATTGTGATAGGTTAGCCATGAAT
1 ACAAGCAGAATTGTGATAGGTTAGCCATGAAT
* *
127911 ACAAGCAGAATTATGATAGTTTAGCCATGAAT
1 ACAAGCAGAATTGTGATAGGTTAGCCATGAAT
127943 ACAAGCAGAATTGTGATAGGTTAGCCATGAAT
1 ACAAGCAGAATTGTGATAGGTTAGCCATGAAT
127975 A
1 A
127976 AATGACCACA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (32 bp):
ACAAGCAGAATTGTGATAGGTTAGCCATGAAT
Found at i:131334 original size:39 final size:39
Alignment explanation
Indices: 131291--131371 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
131281 GCATCTAGTA
*
131291 TAGAATGAACTATGCCCATTGATCAAGTATTTAAATCTC
1 TAGAATGAACCATGCCCATTGATCAAGTATTTAAATCTC
131330 TAGAATGAACCATGCCCATTGATCAAGTATTTAAATCTC
1 TAGAATGAACCATGCCCATTGATCAAGTATTTAAATCTC
131369 TAG
1 TAG
131372 TTATGCCTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (39 bp):
TAGAATGAACCATGCCCATTGATCAAGTATTTAAATCTC
Found at i:136603 original size:160 final size:161
Alignment explanation
Indices: 136316--136624 Score: 458
Period size: 160 Copynumber: 1.9 Consensus size: 161
136306 TGCTCTTTTC
* * **
136316 GTTCATTACTTAAGTCATTAGTTTTCTATGGCTTGATATTTGAATTAGGCTTCTTGCCTATAGTC
1 GTTCATTAATTAAGTCATTAGTTTTCTATGGCTCGATATTCAAATTAGGCTTCTTGCC-ATAGTC
* * * *
136381 TATTGGTTCTTGCTTGGATGCTTAACATTTTGAACCTTTGCTATCACTTTTACCTTGGTTTTACC
65 TACTGGTTCTTGCTTGGATGCTTAACATTATGAACCATTGCTAGCACTTTTACCTTGGTTTTACC
*
136446 ATTATAACTGTTATAATTTAACTGGTCTTACT
130 ATTATAACTGTGATAATTTAACTGGTCTTACT
* * *
136478 GTTCATTAATTAAGTCTTTAGTTTTCTGTGGCTCGATATTCAAATTAGGTTTCTTGCC-TAGTCT
1 GTTCATTAATTAAGTCATTAGTTTTCTATGGCTCGATATTCAAATTAGGCTTCTTGCCATAGTCT
* * * *
136542 ACTGGTTCTTGCTTGGGTGCTTAACATTATGTACCATTGCTAGCACTTTTTCTTTGGTTTTACCA
66 ACTGGTTCTTGCTTGGATGCTTAACATTATGAACCATTGCTAGCACTTTTACCTTGGTTTTACCA
136607 TTATAACTGTGATAATTT
131 TTATAACTGTGATAATTT
136625 GCCTACTAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
160 80 0.61
162 51 0.39
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.47
Consensus pattern (161 bp):
GTTCATTAATTAAGTCATTAGTTTTCTATGGCTCGATATTCAAATTAGGCTTCTTGCCATAGTCT
ACTGGTTCTTGCTTGGATGCTTAACATTATGAACCATTGCTAGCACTTTTACCTTGGTTTTACCA
TTATAACTGTGATAATTTAACTGGTCTTACT
Found at i:138840 original size:13 final size:13
Alignment explanation
Indices: 138822--138869 Score: 62
Period size: 12 Copynumber: 3.7 Consensus size: 13
138812 AATTTTACAT
138822 TAAATTAAAAATA
1 TAAATTAAAAATA
138835 TAAATTAAAAA-A
1 TAAATTAAAAATA
*
138847 TAATTTAAAAACTA
1 TAAATTAAAAA-TA
*
138861 TTAATTAAA
1 TAAATTAAA
138870 TTTTATGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.37
13 11 0.37
14 8 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATTAAAAATA
Found at i:149209 original size:18 final size:18
Alignment explanation
Indices: 149165--149213 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
149155 ACTTTTTAAA
* *
149165 TAAAATTTGTTTATATTTT
1 TAAAATTT-TTAATAATTT
**
149184 TATGATTTTTAATAATTT
1 TAAAATTTTTAATAATTT
149202 TAAAATTTTTAA
1 TAAAATTTTTAA
149214 AGGTCTTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
TAAAATTTTTAATAATTT
Found at i:150562 original size:18 final size:19
Alignment explanation
Indices: 150523--150566 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
150513 AGAGATTAAA
* *
150523 ATATATAAATATACATACT
1 ATATATAAAGATACAAACT
150542 ATATATAAAGA-ACAAACT
1 ATATATAAAGATACAAACT
150560 ATATATA
1 ATATATA
150567 CATGCATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATATAAAGATACAAACT
Found at i:151163 original size:12 final size:12
Alignment explanation
Indices: 151146--151179 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
151136 TTGCTTCTTG
151146 TATTTTCGTATA
1 TATTTTCGTATA
151158 TATTTTCGTATA
1 TATTTTCGTATA
151170 T-TTTCTCGTA
1 TATTT-TCGTA
151180 ACATTTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (12 bp):
TATTTTCGTATA
Found at i:151760 original size:22 final size:22
Alignment explanation
Indices: 151717--151772 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
151707 AATAACGGCA
*
151717 AACAACAACAAACACAACAAAAAT
1 AACAACAA-AAA-ACAAAAAAAAT
* *
151741 AGCAATAAAAAACAAAAAAAAT
1 AACAACAAAAAACAAAAAAAAT
151763 AACAACAAAA
1 AACAACAAAA
151773 GGAGCACCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 18 0.67
23 3 0.11
24 6 0.22
ACGTcount: A:0.75, C:0.18, G:0.02, T:0.05
Consensus pattern (22 bp):
AACAACAAAAAACAAAAAAAAT
Found at i:153138 original size:6 final size:6
Alignment explanation
Indices: 153129--153156 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
153119 CGATCCCAGA
153129 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
153157 GTGACTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:153437 original size:6 final size:6
Alignment explanation
Indices: 153406--153511 Score: 80
Period size: 6 Copynumber: 18.3 Consensus size: 6
153396 TAAGATTGGG
* **
153406 TTTAAA TTT--A TTCAAA TTTATT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
** **
153451 TTTAAA TTTATCT TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA TTT-AA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
153498 TTAAAA TTTAAA TT
1 TTTAAA TTTAAA TT
153512 GATTTAAAAC
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
4 5 0.07
5 9 0.12
6 56 0.74
7 6 0.08
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:153471 original size:36 final size:35
Alignment explanation
Indices: 153419--153519 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 35
153409 AAATTTATTC
*
153419 AAATTTATTTTTAAATTTAAATTT-ATCTTAAATTT
1 AAATTTATTTTTAAATTTAAATTTGCT-TTAAATTT
153454 AAATTTATCTTTTAAATTTAAATTTGCTTTAAATTT
1 AAATTTAT-TTTTAAATTTAAATTTGCTTTAAATTT
* * *
153490 AAATTTA-ATTAAAATTTAAA-TTGATTTAAA
1 AAATTTATTTTTAAATTTAAATTTGCTTTAAA
153520 ACTTAATTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
33 9 0.15
34 11 0.18
35 8 0.13
36 31 0.52
37 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (35 bp):
AAATTTATTTTTAAATTTAAATTTGCTTTAAATTT
Found at i:153520 original size:17 final size:16
Alignment explanation
Indices: 153406--153519 Score: 110
Period size: 17 Copynumber: 7.0 Consensus size: 16
153396 TAAGATTGGG
*
153406 TTTAAATTTATTCAAA
1 TTTAAATTTATTTAAA
153422 TTT--A-TT-TTTAAA
1 TTTAAATTTATTTAAA
153434 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
153451 TTTAAATTTATCTTTTAAA
1 TTTAAATTTA---TTTAAA
*
153470 TTTAAATTTGCTTTAAA
1 TTTAAATTT-ATTTAAA
*
153487 TTTAAATTTAATTAAAA
1 TTTAAATTT-ATTTAAA
*
153504 TTTAAATTGATTTAAA
1 TTTAAATTTATTTAAA
153520 ACTTAATTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 18
0.77 0.07 0.17
Matches are distributed among these distances:
12 8 0.10
13 2 0.02
14 2 0.02
15 2 0.02
16 10 0.12
17 43 0.52
19 14 0.17
20 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:153534 original size:16 final size:17
Alignment explanation
Indices: 153488--153536 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
153478 TGCTTTAAAT
* *
153488 TTAAATTTAATTAAAAT
1 TTAAATTAAATTAAAAC
* *
153505 TTAAATTGATTTAAAAC
1 TTAAATTAAATTAAAAC
153522 TT-AATTAAATTAAAA
1 TTAAATTAAATTAAAA
153537 GTCCAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAATTAAATTAAAAC
Found at i:155380 original size:29 final size:28
Alignment explanation
Indices: 155341--155598 Score: 248
Period size: 29 Copynumber: 8.8 Consensus size: 28
155331 GGAGGTCCCT
155341 AAACTGTCCAAAAATTCCATTTTTACCCTC
1 AAACT-TCCAAAAATTCCATTTTTACCC-C
* *
155371 GAACTTCCAAAAATTCCATTTTTCCCCTC
1 AAACTTCCAAAAATTCCATTTTTACCC-C
* * * *
155400 GAACTTCCAAGAATTTCTTTTTTGACCCC
1 AAACTTCCAAAAATTCCATTTTT-ACCCC
155429 GAAACTTCCAAAAATTCCATTTTTAGCCCC
1 -AAACTTCCAAAAATTCCATTTTTA-CCCC
*
155459 AAACTTCCAAAAA-TCCTATTTTTGACCTCG
1 AAACTTCCAAAAATTCC-ATTTTT-ACC-CC
* * *
155489 AAACTTCTAAAAACTCAATTTTTACCCC
1 AAACTTCCAAAAATTCCATTTTTACCCC
* * * *
155517 TAAACTTCTAAAACTTCCATTTTCGACCCTA
1 -AAACTTCCAAAAATTCCATTTT-TACCC-C
* *
155548 AAACATCCAAAAATTCCATTATTACCCC
1 AAACTTCCAAAAATTCCATTTTTACCCC
155576 TAAACTTCCAAAAATTCCATTTT
1 -AAACTTCCAAAAATTCCATTTT
155599 CGACCTCGAA
Statistics
Matches: 190, Mismatches: 27, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
28 4 0.02
29 112 0.59
30 72 0.38
31 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (28 bp):
AAACTTCCAAAAATTCCATTTTTACCCC
Found at i:155440 original size:59 final size:58
Alignment explanation
Indices: 155337--155611 Score: 297
Period size: 59 Copynumber: 4.7 Consensus size: 58
155327 CCCGGGAGGT
155337 CCCTAAACTGTCCAAAAATTCCATTTTT-ACCCTCG-AACTTCCAAAAATTCCATTTTT-C
1 CCCTAAACT-TCC-AAAATTCCATTTTTGACCC-CGAAACTTCCAAAAATTCCATTTTTAC
* * *
155395 CCCTCGAACTTCCAAGAATTTCTTTTTTGACCCCGAAACTTCCAAAAATTCCATTTTTAGC
1 CCCT-AAACTTCCAA-AATTCCATTTTTGACCCCGAAACTTCCAAAAATTCCATTTTTA-C
* * * * *
155456 CCC-AAACTTCCAAAAATCCTATTTTTGACCTCGAAACTTCTAAAAACTCAATTTTTAC
1 CCCTAAACTTCCAAAATTCC-ATTTTTGACCCCGAAACTTCCAAAAATTCCATTTTTAC
* * ** * *
155514 CCCTAAACTTCTAAAACTTCCATTTTCGACCCTAAAACATCCAAAAATTCCATTATTAC
1 CCCTAAACTTCCAAAA-TTCCATTTTTGACCCCGAAACTTCCAAAAATTCCATTTTTAC
* *
155573 CCCTAAACTTCCAAAAATTCCATTTTCGACCTCGAAACT
1 CCCTAAACTTCC-AAAATTCCATTTTTGACCCCGAAACT
155612 CTCAAAATTA
Statistics
Matches: 180, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
57 2 0.01
58 27 0.15
59 140 0.78
60 7 0.04
61 4 0.02
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.32
Consensus pattern (58 bp):
CCCTAAACTTCCAAAATTCCATTTTTGACCCCGAAACTTCCAAAAATTCCATTTTTAC
Found at i:155516 original size:88 final size:88
Alignment explanation
Indices: 155341--155611 Score: 257
Period size: 88 Copynumber: 3.1 Consensus size: 88
155331 GGAGGTCCCT
* *
155341 AAACTGTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTCCCCTCGAACTT
1 AAACT-TCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTCACCTCGAACTT
** *
155406 CCAAGAATTTCTTTTTTGACCCCG
65 CCAAGAAACTCATTTTTGACCCCG
*
155430 AAACTTCCAAAAATTCCATTTTTAGCCC-CAAACTTCCAAAAA-TCCTATTTTTGACCTCGAAAC
1 AAACTTCCAAAAATTCCATTTTTA-CCCTCAAACTTCCAAAAATTCC-ATTTTTCACCTCG-AAC
* *
155493 TTCTAA-AAACTCAATTTTT-ACCCCT
63 TTCCAAGAAACTC-ATTTTTGACCCCG
* * * * * * * *
155518 AAACTTCTAAAACTTCCATTTTCGACCCTAAAACATCCAAAAATTCCATTATT-ACCCCTAAACT
1 AAACTTCCAAAAATTCCATTTT-TACCCTCAAACTTCCAAAAATTCCATTTTTCACCTC-GAACT
* * *
155582 TCCAA-AAATTCCATTTTCGACCTCG
64 TCCAAGAAACT-CATTTTTGACCCCG
155607 AAACT
1 AAACT
155612 CTCAAAATTA
Statistics
Matches: 151, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
87 3 0.02
88 96 0.64
89 49 0.32
90 3 0.02
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (88 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTCACCTCGAACTTC
CAAGAAACTCATTTTTGACCCCG
Found at i:155618 original size:29 final size:29
Alignment explanation
Indices: 155349--155636 Score: 147
Period size: 29 Copynumber: 9.8 Consensus size: 29
155339 CTAAACTGTC
*
155349 CAAAAATTCCATTTTTACCCTCG-AACT-T
1 CAAAAATTCCATTTTGACCC-CGAAACTCT
**
155377 CCAAAAATTCCATTTTTCCCCTCG-AACT-T
1 -CAAAAATTCCATTTTGACCC-CGAAACTCT
* **
155406 CCAAGAATTTCTTTTTTGACCCCGAAACT-T
1 -CAA-AAATTCCATTTTGACCCCGAAACTCT
*
155436 CCAAAAATTCCATTTTTAGCCCC-AAACT-T
1 -CAAAAATTCCATTTTGA-CCCCGAAACTCT
*
155465 CCAAAAA-TCCTATTTTTGACCTCGAAACT-T
1 -CAAAAATTCC-A-TTTTGACCCCGAAACTCT
* * * *
155495 CTAAAAACTCAATTTTTACCCCTAAACT-T
1 C-AAAAATTCCATTTTGACCCCGAAACTCT
* **
155524 CTAAAACTTCCATTTTCGACCCTAAAACATC-
1 C-AAAAATTCCATTTT-GACCCCGAAAC-TCT
*
155555 CAAAAATTCCATTATT-ACCCCTAAACT-T
1 CAAAAATTCCATT-TTGACCCCGAAACTCT
*
155583 CCAAAAATTCCATTTTCGACCTCGAAACTCT
1 -CAAAAATTCCATTTT-GACCCCGAAACTCT
*
155614 C-AAAATTACCCTTTT-ACCCCGAA
1 CAAAAATT-CCATTTTGACCCCGAA
155637 TGTCTAAAAA
Statistics
Matches: 212, Mismatches: 29, Indels: 37
0.76 0.10 0.13
Matches are distributed among these distances:
28 13 0.06
29 115 0.54
30 77 0.36
31 7 0.03
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
CAAAAATTCCATTTTGACCCCGAAACTCT
Found at i:163429 original size:31 final size:31
Alignment explanation
Indices: 163391--163453 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
163381 GATGAAAAGA
163391 AAGAGGTGAAAATTGGGACAAGCATCTTCGT
1 AAGAGGTGAAAATTGGGACAAGCATCTTCGT
163422 AAGAGGTGAAAATTGGGACAAGCATCTTCGT
1 AAGAGGTGAAAATTGGGACAAGCATCTTCGT
163453 A
1 A
163454 GAAACCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (31 bp):
AAGAGGTGAAAATTGGGACAAGCATCTTCGT
Found at i:168018 original size:205 final size:203
Alignment explanation
Indices: 167601--168234 Score: 794
Period size: 205 Copynumber: 3.1 Consensus size: 203
167591 CGAATCCCAG
* * ** * *
167601 CTTCCTGATGAGATACAAAGAAGTGGATTGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTGAATTGAAACAAACAACGCAGTCATCTTCCTGATGAGATAC
* * ** * * *
167666 --A-AAGAAGA-ATA-CCAACTTAGGGCTCGATGCGAGCAAATCTTCGAACCCAACTTCCTGATG
66 TGAGAAGAAGACAAATCAAACCCA-CGCTCGATGTGAGCAAATCTTCGAACCCAGCTTCCTGATG
* * * *
167726 AGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCAGCCTCCTGATGAGATACTGAGAAGTGAA
130 AGATACTGAGAAGCAGGTCGAAGCAATAAAA-GGTTAGCTTCCTGATGAGATATTGAGAAGTGAA
* *
167791 ACAAATTTGT
194 CCAAATTCGT
* * * *
167801 CTTTCGGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTGAATTGAAACAAACAACGCAGTCATCTTCCTGATGAGATAC
* *
167866 TGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCTTGAT
66 TGAGAAGAAGA-CAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGAT
* * *
167931 GAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGACATTGAGAAGTGGA
129 GAGATACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATATTGAGAAGTGAA
*
167996 CCAAATTCAT
194 CCAAATTCGT
* *
168006 CTTCCTGATGAGATACAGAGAGGTGAATTGAAATAAACAACGCAGTCATC-TCCTTGATGAGATA
1 CTTCCTGATGAGATACAGAGAAGTGAATTGAAACAAACAACGCAGTCATCTTCC-TGATGAGATA
168070 CTGAGAAGAAGACTAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGAATCCCAGCTTCCTGA
65 CTGAGAAGAAGAC-AAATCAAACCCACGCTCGATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGA
* ** * * *
168135 TGAGATACTGAGAAGTAGGTCGAAGCAATAATTGGTTAACTTCCTGTTGAAATATTGAGAAGTGA
128 TGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATATTGAGAAGTGA
168200 ACCAAATTCGT
193 ACCAAATTCGT
* * * *
168211 CTTCTTGATAAAACACAGAGAAGT
1 CTTCCTGATGAGATACAGAGAAGT
168235 AGGTTAAAAA
Statistics
Matches: 372, Mismatches: 53, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
200 55 0.15
202 1 0.00
203 7 0.02
204 4 0.01
205 258 0.69
206 47 0.13
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (203 bp):
CTTCCTGATGAGATACAGAGAAGTGAATTGAAACAAACAACGCAGTCATCTTCCTGATGAGATAC
TGAGAAGAAGACAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGA
GATACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATATTGAGAAGTGAACC
AAATTCGT
Found at i:168687 original size:6 final size:6
Alignment explanation
Indices: 168676--168723 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
168666 AAATTTATCT
** *
168676 TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA TTT-AA TTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
168722 TT
1 TT
168724 GATTTAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 7 0.21
6 27 0.79
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:168698 original size:17 final size:17
Alignment explanation
Indices: 168676--168723 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
168666 AAATTTATCT
**
168676 TTTAAATTTAAATTTGC
1 TTTAAATTTAAATTTAA
168693 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTAA
*
168710 TTAAAATTTAAATT
1 TTTAAATTTAAATT
168724 GATTTAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:168730 original size:17 final size:17
Alignment explanation
Indices: 168679--168737 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
168669 TTTATCTTTT
*
168679 AAATTTAAATTTGCTTT-
1 AAATTTAAA-TTGATTTA
* *
168696 AAATTTAAATTTAATTA
1 AAATTTAAATTGATTTA
168713 AAATTTAAATTGATTTA
1 AAATTTAAATTGATTTA
*
168730 AAACTTAA
1 AAATTTAA
168738 TTAAATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 4 0.11
17 31 0.89
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AAATTTAAATTGATTTA
Found at i:168730 original size:33 final size:34
Alignment explanation
Indices: 168679--168748 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
168669 TTTATCTTTT
* * *
168679 AAATTTAAATTTGCTTT-AAATTTAAATTTAATTA
1 AAATTTAAATTTGATTTAAAACTT-AATTAAATTA
168713 AAATTTAAA-TTGATTTAAAACTTAATTAAATTA
1 AAATTTAAATTTGATTTAAAACTTAATTAAATTA
168746 AAA
1 AAA
168749 GTCCAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 18 0.56
34 14 0.44
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (34 bp):
AAATTTAAATTTGATTTAAAACTTAATTAAATTA
Found at i:168746 original size:16 final size:17
Alignment explanation
Indices: 168700--168748 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
168690 TGCTTTAAAT
* *
168700 TTAAATTTAATTAAAAT
1 TTAAATTAAATTAAAAC
* *
168717 TTAAATTGATTTAAAAC
1 TTAAATTAAATTAAAAC
168734 TT-AATTAAATTAAAA
1 TTAAATTAAATTAAAA
168749 GTCCAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAATTAAATTAAAAC
Found at i:170590 original size:29 final size:29
Alignment explanation
Indices: 170529--170866 Score: 333
Period size: 29 Copynumber: 11.6 Consensus size: 29
170519 GAAGGTCCCT
* * *
170529 AAACTGTCCAAAAATTCCATTTT-TCCTCG
1 AAACT-TCCAAAAATTCCATTTTGACCCCA
* *
170558 AAACTTCTAAAAATTTCATTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTGACCCCA
* *
170587 AAACTTCAAAAAATTCCATTTTG-CCCCC
1 AAACTTCCAAAAATTCCATTTTGACCCCA
* * *
170615 AAACTTCCAAAAATTTCATTTTTGAGCCTA
1 AAACTTCCAAAAATTCCA-TTTTGACCCCA
* *
170645 AAACTTCCAAAAATTCCATTTT-TCCCCT
1 AAACTTCCAAAAATTCCATTTTGACCCCA
* * * * *
170673 GAACTTCCAAGAATTCCTTTTTTGACCTCG
1 AAACTTCCAAAAATTCC-ATTTTGACCCCA
*
170703 AAACTTCCAAAAATTCCATTTTTACCCC-
1 AAACTTCCAAAAATTCCATTTTGACCCCA
* *
170731 AAACTTCCAAAATTTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCA-TTTTGACCCCA
* * * *
170761 AAACTTCTAAAAACTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTGACCCCA
* ** *
170790 AAACTTCCAAAAATTCTATTTTCGACATCG
1 AAACTTCCAAAAATTCCATTTT-GACCCCA
* *
170820 AAACTTCCAAAAATTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTGACCCCA
170849 AAACTTCCAAAAATTCCA
1 AAACTTCCAAAAATTCCA
170867 CTTTCAACCT
Statistics
Matches: 253, Mismatches: 48, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
28 69 0.27
29 108 0.43
30 76 0.30
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTGACCCCA
Found at i:170651 original size:30 final size:29
Alignment explanation
Indices: 170529--170866 Score: 360
Period size: 30 Copynumber: 11.6 Consensus size: 29
170519 GAAGGTCCCT
* *
170529 AAACTGTCCAAAAATTCCATTTTT-CCTCG
1 AAACT-TCCAAAAATTCCATTTTTACCCCC
* * * *
170558 AAACTTCTAAAAATTTCATTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* *
170587 AAACTTCAAAAAATTCCA-TTTTGCCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* * **
170615 AAACTTCCAAAAATTTCATTTTTGAGCCTA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCC
*
170645 AAACTTCCAAAAATTCCATTTTT-CCCCT
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* * * * *
170673 GAACTTCCAAGAATTCCTTTTTTGACCTCG
1 AAACTTCCAAAAATTCCATTTTT-ACCCCC
170703 AAACTTCCAAAAATTCCATTTTTA-CCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* *
170731 AAACTTCCAAAATTTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCC
* *
170761 AAACTTCTAAAAACTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* * ** *
170790 AAACTTCCAAAAATTCTATTTTCGACATCG
1 AAACTTCCAAAAATTCCATTTT-TACCCCC
170820 AAACTTCCAAAAATTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
170849 AAACTTCCAAAAATTCCA
1 AAACTTCCAAAAATTCCA
170867 CTTTCAACCT
Statistics
Matches: 253, Mismatches: 48, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
28 84 0.33
29 75 0.30
30 94 0.37
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCCC
Found at i:170665 original size:58 final size:57
Alignment explanation
Indices: 170529--170863 Score: 379
Period size: 58 Copynumber: 5.8 Consensus size: 57
170519 GAAGGTCCCT
* * * *
170529 AAACTGTCCAAAAATTCCATTTTTCCTCGAAACTTCTAAAAATTTCA-TTTTGACCCCA
1 AAACT-TCCAAAAATTCCATTTTTCCCCCAAACTTCCAAAAATTTCATTTTTGA-CCTA
* *
170587 AAACTTCAAAAAATTCCATTTTGCCCCCAAACTTCCAAAAATTTCATTTTTGAGCCTA
1 AAACTTCCAAAAATTCCATTTTTCCCCCAAACTTCCAAAAATTTCATTTTTGA-CCTA
** * * * *
170645 AAACTTCCAAAAATTCCATTTTTCCCCTGAACTTCCAAGAATTCCTTTTTTGACCTCG
1 AAACTTCCAAAAATTCCATTTTTCCCCCAAACTTCCAAAAATTTCATTTTTGACCT-A
* * *
170703 AAACTTCCAAAAATTCCATTTTTACCCCAAACTTCC-AAAATTTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTCCCCCAAACTTCCAAAAATTT-CATTTTTGA-CCTA
* * * * *
170761 AAACTTCTAAAAACTCCATTTTTACCCCCAAACTTCCAAAAA-TTCTATTTTCGACATCG
1 AAACTTCCAAAAATTCCATTTTT-CCCCCAAACTTCCAAAAATTTC-ATTTTTGACCT-A
170820 AAACTTCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATT
1 AAACTTCCAAAAATTCCATTTTT-CCCCCAAACTTCCAAAAATT
170864 CCACTTTCAA
Statistics
Matches: 234, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
57 44 0.19
58 123 0.53
59 62 0.26
60 5 0.02
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (57 bp):
AAACTTCCAAAAATTCCATTTTTCCCCCAAACTTCCAAAAATTTCATTTTTGACCTA
Found at i:173033 original size:29 final size:29
Alignment explanation
Indices: 172949--173320 Score: 201
Period size: 29 Copynumber: 12.8 Consensus size: 29
172939 AATGGGGTCG
* * *
172949 AAAATG-AAGTTTCGAAGAGTTCGGGGTT
1 AAAATGTAATTTTAGAAGAGTTCGGGGTA
* * *
172977 AAAATGCAATTTTA-AAAAGTTTTAGGGGTA
1 AAAATGTAATTTTAGAAGAG--TTCGGGGTA
* *
173007 AAAATGTCATTTTAGAAGAGTTCGGGGCA
1 AAAATGTAATTTTAGAAGAGTTCGGGGTA
* * * *
173036 AAAATGTGATTTTTGAAAAGTTCGAGGTA
1 AAAATGTAATTTTAGAAGAGTTCGGGGTA
*
173065 AAAATGTAAATTTTA-AA-AGTTTAGGGGTA
1 AAAATGT-AATTTTAGAAGAG-TTCGGGGTA
* * *
173094 AAAATATAATTTTTAGAAG-TTTAGGGGTA
1 AAAATGTAA-TTTTAGAAGAGTTCGGGGTA
* * *
173123 AAAATGTGATTTTTGGA-AGTTCGAGGGTA
1 AAAATGTAATTTTAGAAGAGTTCG-GGGTA
* ** *
173152 AAAATGTGATTTTTTAA-TGTTCGAGGGTA
1 AAAATGTAATTTTAGAAGAGTTCG-GGGTA
* *
173181 AAAATGTAATTTTTA-AAAAGTTTAGGGGTA
1 AAAATGTAA-TTTTAGAAGAG-TTCGGGGTA
* * *
173211 AAAATGT-ATTTTTGTAAG-TTTAGGGGTA
1 AAAATGTAATTTTAG-AAGAGTTCGGGGTA
* *
173239 AAAATGTAATTTT-TAAGAACTTCGAGGGATA
1 AAAATGTAATTTTAGAAG-AGTTCG-GGG-TA
* * ** *
173270 AAAATGTGATTTTA-AAAAGTTTAAGGGTT
1 AAAATGTAATTTTAGAAGAG-TTCGGGGTA
* *
173299 AAAATGTAATTTTGGAAAAGTT
1 AAAATGTAATTTTAGAAGAGTT
173321 TAAGGTCTAA
Statistics
Matches: 272, Mismatches: 48, Indels: 47
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.01
28 43 0.16
29 144 0.53
30 57 0.21
31 25 0.09
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAGAGTTCGGGGTA
Found at i:173095 original size:87 final size:87
Alignment explanation
Indices: 172966--173316 Score: 304
Period size: 87 Copynumber: 4.0 Consensus size: 87
172956 AGTTTCGAAG
* * * *
172966 AGTTCGGGGTTAAAATG-CAATTTTAAAAAGTTTTAGGGGTAAAAATGTCA-TTTTAGAAGAGTT
1 AGTTCGAGGTAAAAATGTAAATTTT-AAAAG-TTTAGGGGTAAAAATGTAATTTTTAGAAGAGTT
* *
173029 CGGGGCAAAAATGTGATTTTTGAAA
64 AGGGGTAAAAATGTGATTTTTG-AA
* *
173054 AGTTCGAGGTAAAAATGTAAATTTTAAAAGTTTAGGGGTAAAAATATAATTTTTAGAAG-TTTAG
1 AGTTCGAGGTAAAAATGTAAATTTTAAAAGTTTAGGGGTAAAAATGTAATTTTTAGAAGAGTTAG
*
173118 GGGTAAAAATGTGATTTTTGGA
66 GGGTAAAAATGTGATTTTTGAA
* * * * * *
173140 AGTTCGAGGGTAAAAATGTGATTTTTTAATG-TTCGAGGGTAAAAATGTAATTTTTA-AAAAGTT
1 AGTTCGA-GGTAAAAATGTAAATTTTAAAAGTTTAG-GGGTAAAAATGTAATTTTTAGAAGAG-T
*
173203 TAGGGGTAAAAATGT-ATTTTTGTA
63 TAGGGGTAAAAATGTGATTTTTGAA
* * * * * * * *
173227 AGTTTAGGGGTAAAAATGTAATTTTTAAGAACTTCGAGGGATAAAAATGTGA-TTTTA-AAAAGT
1 AG-TTCGAGGTAAAAATGTAAATTTTAA-AAGTT-TAGGGGTAAAAATGTAATTTTTAGAAGAG-
* * * *
173290 TTAAGGGTTAAAATGTAATTTTGGAA
62 TTAGGGGTAAAAATGTGATTTTTGAA
173316 A
1 A
173317 AGTTTAAGGT
Statistics
Matches: 220, Mismatches: 32, Indels: 21
0.81 0.12 0.08
Matches are distributed among these distances:
86 13 0.06
87 105 0.48
88 74 0.34
89 27 0.12
90 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (87 bp):
AGTTCGAGGTAAAAATGTAAATTTTAAAAGTTTAGGGGTAAAAATGTAATTTTTAGAAGAGTTAG
GGGTAAAAATGTGATTTTTGAA
Found at i:173098 original size:58 final size:57
Alignment explanation
Indices: 172971--173322 Score: 239
Period size: 58 Copynumber: 6.0 Consensus size: 57
172961 CGAAGAGTTC
* ** * * * *
172971 GGGGTTAAAATGCAATTTTAAAAAGTTTTAGGGGTAAAAATGT-CATTTTAGAAGAG-TTC
1 GGGGTAAAAATGTGATTTTTAAAAG--TTAGAGGTAAAAATGTAAATTTTA-AA-AGTTTA
* *
173030 GGGGCAAAAATGTGATTTTTGAAAAGTTCGAGGTAAAAATGTAAATTTTAAAAGTTTA
1 GGGGTAAAAATGTGATTTTT-AAAAGTTAGAGGTAAAAATGTAAATTTTAAAAGTTTA
* * * * * * ** *
173088 GGGGTAAAAATATAATTTTTAGAAGTTTAGGGGTAAAAATGTGATTTTTGGAAG-TTC
1 GGGGTAAAAATGTGATTTTTAAAAG-TTAGAGGTAAAAATGTAAATTTTAAAAGTTTA
* * * *
173145 GAGGGTAAAAATGTGATTTTTTAATGTTCGAGGGTAAAAATGTAATTTTTAAAAAGTTTA
1 G-GGGTAAAAATGTGATTTTTAAAAGTTAGA-GGTAAAAATGTAAATTTT-AAAAGTTTA
** * * * *
173205 GGGGTAAAAATGT-ATTTTTGTAAGTTTAGGGGTAAAAATGTAATTTTTAAGAACTTCGA
1 GGGGTAAAAATGTGATTTTTAAAAG-TTAGAGGTAAAAATGTAAATTTTAA-AAGTT-TA
* * *
173264 GGGATAAAAATGTGATTTTAAAAAGTTTA-AGGGTTAAAATGT-AATTTTGGAAAAGTTTA
1 GGGGTAAAAATGTGATTTTTAAAAG-TTAGA-GGTAAAAATGTAAATTTT--AAAAGTTTA
173323 AGGTCTAAAA
Statistics
Matches: 231, Mismatches: 47, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
57 14 0.06
58 123 0.53
59 58 0.25
60 34 0.15
61 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (57 bp):
GGGGTAAAAATGTGATTTTTAAAAGTTAGAGGTAAAAATGTAAATTTTAAAAGTTTA
Found at i:173341 original size:30 final size:30
Alignment explanation
Indices: 173284--173341 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
173274 TGTGATTTTA
*
173284 AAAAGTTTAAGGGTTAAAATGTAATTTTGG
1 AAAAGTTTAAGGGTTAAAATATAATTTTGG
*
173314 AAAAGTTTAA-GGTCTAAAATATTATTTT
1 AAAAGTTTAAGGGT-TAAAATATAATTTT
173342 TGGATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (30 bp):
AAAAGTTTAAGGGTTAAAATATAATTTTGG
Found at i:175620 original size:99 final size:98
Alignment explanation
Indices: 175517--175803 Score: 317
Period size: 99 Copynumber: 2.9 Consensus size: 98
175507 TTGTGGCCTA
* * *
175517 AACCTTTCCCTTTATGTCTTCATGGTATTAGATTTGCCGTTGCGACCTCAATCCTTCCCATCACA
1 AACCTTTCCCTTTATATCTTCATGGTATTGGGTTTGCCGTTGCGACCTCAA-CCTTCCCATCACA
* * *
175582 TCTTTTAAGGTACCGGGTTCGCCGTTGTGAAGTC
65 TCTTTTAAGGTACCGGATTCGCCGTTGCGAACTC
* * * **
175616 AACCTTTCCCTTTGTATCTTCGTGGTATCGGGTTTATCGTTGCGACCTCAACCTTTCCCATCACA
1 AACCTTTCCCTTTATATCTTCATGGTATTGGGTTTGCCGTTGCGACCTCAACC-TTCCCATCACA
* * * **
175681 TCTTCTT-AGGTACTGGATTCGTCGTCGCGGCCTC
65 TCTT-TTAAGGTACCGGATTCGCCGTTGCGAACTC
* * * * * * *
175715 AATCTTTCCGTTCATCTCTTCATGGTACTGGGTTTGCCGTTGCGGCCTCAACCTTTCCA-CACAT
1 AACCTTTCCCTTTATATCTTCATGGTATTGGGTTTGCCGTTGCGACCTCAACCTTCCCATCACAT
*
175779 CTTTTAAAGTACCGGATTCGCCGTT
66 CTTTTAAGGTACCGGATTCGCCGTT
175804 ATGGCCTTAA
Statistics
Matches: 153, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
96 2 0.01
97 23 0.15
98 7 0.05
99 119 0.78
100 2 0.01
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.36
Consensus pattern (98 bp):
AACCTTTCCCTTTATATCTTCATGGTATTGGGTTTGCCGTTGCGACCTCAACCTTCCCATCACAT
CTTTTAAGGTACCGGATTCGCCGTTGCGAACTC
Found at i:175684 original size:49 final size:50
Alignment explanation
Indices: 175553--176314 Score: 489
Period size: 50 Copynumber: 15.4 Consensus size: 50
175543 ATTAGATTTG
* *
175553 CCGTTGCGACCTCAATCC-TTCCCATCACATCTT-TTAAGGTACCGGGTTCG
1 CCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTT-AGGTACCGGGTTCA
* *** * *** * * *
175603 CCGTTGTGAAGTCAACCTTTCCCTTTGTATCTTCGT-GGTATCGGGTTTA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* * * * *
175652 TCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGGTACTGGATTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* * * ** * * **
175702 TCGTCGCGGCCTCAATCTTTCCGTTCATC-TCTTCAT-GGTACTGGGTTTG
1 CCGTTGCGGCCTCAACCTTTCCCATCA-CATCTTCTTAGGTACCGGGTTCA
* * *
175751 CCGTTGCGGCCTCAACCTTT-CCA-CACATCTT-TTAAAGTACCGGATTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTT-AGGTACCGGGTTCA
** * * * * *
175799 CCGTTATGGCCTTAATCC-TTCCCATCACATATTCTAAGGTACCAGGTTCT
1 CCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
** * * * * * * * *
175849 CTATTGCCGTCTCAACCTTTCCCTTCATATCTCCAT-GGTACCGAGTTTA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
*
175898 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* ** * ***
175948 CCATTGCATCCTCAACCTTTCCCTTTGTATCTT-TGT-GGTACCGGGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCT-TAGGTACCGGGTTCA
* ** * * * *
175997 TCGTTATGGCCTCAACCTTTCCCATCACATCTTTTTAAGTACTGGATTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* * * * *
176047 CCGTCGTGGCCTCAATCC-TTCCCTTCATC-TCTTCAT-GGTACTGGGTT-A
1 CCGTTGCGGCCTCAA-CCTTTCCCATCA-CATCTTCTTAGGTACCGGGTTCA
* *
176095 GCCGTTGTGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTCA
1 -CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* * ** * * *
176146 CCGTTGCGGTCTCAACCTTTCCCTTCGTATCTTCAT-GGTACCGAGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* *** * * *
176195 TCGTTGCAATCTCAACCTTTCCCATCACATCTTCTTGGGTACCAGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
* * * * * *
176245 CCATTGTGGCCTCAACCTTTCCCTTCACATCTT-TTAAGGTTCCGGATTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTT-AGGTACCGGGTTCA
*
176295 CCATTGCGGCCTCAATCCTT
1 CCGTTGCGGCCTCAA-CCTT
176315 CCCTTCAAAC
Statistics
Matches: 542, Mismatches: 144, Indels: 51
0.74 0.20 0.07
Matches are distributed among these distances:
46 2 0.00
47 6 0.01
48 28 0.05
49 226 0.42
50 269 0.50
51 11 0.02
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (50 bp):
CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCA
Found at i:175905 original size:246 final size:248
Alignment explanation
Indices: 175562--176317 Score: 619
Period size: 246 Copynumber: 3.1 Consensus size: 248
175552 GCCGTTGCGA
* * * * ** * **
175562 CCTCAATCCTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTG-TGAAGTCAACCTTTCCC
1 CCTCAATCCTTCCCATCACATATTCTAAGGTACCAGGTTCTCTATTGCCG-TCTCAACCTTTCCC
** * * * * *
175626 TTTGTATCTTCGTGGTATCGGGTTTATCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGG
65 TTCATATCTCCATGGTACCGAGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGG
* * * * * * * * **
175691 TACTGGATTCGTCGTCGCGGCCTCAATCTTTCCGTTCATCTCTTCATGGTACTGGGTTTGCCGTT
130 TACCGGATTCGCCATCGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACCGTT
* * *
175756 GCGGCCTCAACCTTT-CCA-CACATCTTTTAAAGTACCGGATTCGCCGTTATGG
195 ACGGCCTCAACCTTTCCCATCACATCTTTTAAAGTACCGGATTCACCGTCATGG
*
175808 CCTTAATCCTTCCCATCACATATTCTAAGGTACCAGGTTCTCTATTGCCGTCTCAACCTTTCCCT
1 CCTCAATCCTTCCCATCACATATTCTAAGGTACCAGGTTCTCTATTGCCGTCTCAACCTTTCCCT
*
175873 TCATATCTCCATGGTACCGAGTTTACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGT
66 TCATATCTCCATGGTACCGAGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGGT
* * * ** ** *
175938 ACCGGGTTCGCCATTGCATCCTCAACCTTTCCCTTTGTATCTTTGTGGTACCGGGTTCATCGTTA
131 ACCGGATTCGCCATCGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACCGTTA
* * * *
176003 TGGCCTCAACCTTTCCCATCACATCTTTTTAAGTACTGGATTCACCGTCGTGG
196 CGGCCTCAACCTTTCCCATCACATCTTTTAAAGTACCGGATTCACCGTCATGG
* * * ** ** ** ** *
176056 CCTCAATCCTTCCCTTCATC-TCTTC-ATGGTACTGGGTTAGCCGTTGTGGCCTCAACCTTTCCC
1 CCTCAATCCTTCCCATCA-CATATTCTAAGGTACCAGGTTCTCTATTGCCGTCTCAACCTTTCCC
* * * * * ** * ** *
176119 ATCACATCTTCTTAGGTACC-AGGTTCACCGTTGCGGTCTCAACCTTTCCCTTCGTATCTTCAT-
65 TTCATATCTCCAT-GGTACCGA-GTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTA
* * * ** * * * * *
176182 GGTACC-GAGTTCGTCGTTGCAATCTCAACCTTTCCCATCACATCTTCTTGGGTACCAGGTTCGC
128 GGTACCGGA-TTCGCCATCGCAGCCTCAACCTTTCCCTTCATATCTTCAT-GGTACCGGGTTCAC
* ** * * * * * ***
176246 CATTGTGGCCTCAACCTTTCCCTTCACATCTTTTAAGGTTCCGGATTCGCCATTGCGG
191 CGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAAGTACCGGATTCACCGTCATGG
176304 CCTCAATCCTTCCC
1 CCTCAATCCTTCCC
176318 TTCAAACCTT
Statistics
Matches: 411, Mismatches: 91, Indels: 14
0.80 0.18 0.03
Matches are distributed among these distances:
246 170 0.41
247 78 0.19
248 162 0.39
249 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (248 bp):
CCTCAATCCTTCCCATCACATATTCTAAGGTACCAGGTTCTCTATTGCCGTCTCAACCTTTCCCT
TCATATCTCCATGGTACCGAGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTAGGT
ACCGGATTCGCCATCGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACCGTTA
CGGCCTCAACCTTTCCCATCACATCTTTTAAAGTACCGGATTCACCGTCATGG
Found at i:175920 original size:99 final size:99
Alignment explanation
Indices: 175817--176277 Score: 489
Period size: 99 Copynumber: 4.7 Consensus size: 99
175807 GCCTTAATCC
* * * * * *
175817 TTCCCATCACATATTCTAAGGTACCAGGTTCTCTATTGCCGTCTCAACCTTTCCCTTCATATCTC
1 TTCCCATCACATCTTCTTAGGTACCAGGTTCACCATTGCGGTCTCAACCTTTCCCTTCATATCTT
*
175882 CATGGTACCGAGTTTACCGTTGCGGCCTCAACCT
66 CATGGTACCGAGTTCACCGTTGCGGCCTCAACCT
* * * **
175916 TTCCCATCACATCTTCTTAGGTACCGGGTTCGCCATTGC-ATCCTCAACCTTTCCCTTTGTATCT
1 TTCCCATCACATCTTCTTAGGTACCAGGTTCACCATTGCGGT-CTCAACCTTTCCCTTCATATCT
** * * **
175980 TTGTGGTACCGGGTTCATCGTTATGGCCTCAACCT
65 TCATGGTACCGAGTTCACCGTTGCGGCCTCAACCT
* * * * * * * *
176015 TTCCCATCACATCTTTTTAAGTA-CTGGATTCACCGTCGTGGCCTCAATCC-TTCCCTTCATCTC
1 TTCCCATCACATCTTCTTAGGTACCAGG-TTCACCATTGCGGTCTCAA-CCTTTCCCTTCATATC
* * *
176078 TTCATGGTACTGGGTT-AGCCGTTGTGGCCTCAACCT
64 TTCATGGTACCGAGTTCA-CCGTTGCGGCCTCAACCT
* *
176114 TTCCCATCACATCTTCTTAGGTACCAGGTTCACCGTTGCGGTCTCAACCTTTCCCTTCGTATCTT
1 TTCCCATCACATCTTCTTAGGTACCAGGTTCACCATTGCGGTCTCAACCTTTCCCTTCATATCTT
** ***
176179 CATGGTACCGAGTTCGTCGTTGCAATCTCAACCT
66 CATGGTACCGAGTTCACCGTTGCGGCCTCAACCT
* * * * *
176213 TTCCCATCACATCTTCTTGGGTACCAGGTTCGCCATTGTGGCCTCAACCTTTCCCTTCACATCTT
1 TTCCCATCACATCTTCTTAGGTACCAGGTTCACCATTGCGGTCTCAACCTTTCCCTTCATATCTT
176278 TTAAGGTTCC
Statistics
Matches: 298, Mismatches: 56, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
98 7 0.02
99 286 0.96
100 5 0.02
ACGTcount: A:0.17, C:0.33, G:0.16, T:0.35
Consensus pattern (99 bp):
TTCCCATCACATCTTCTTAGGTACCAGGTTCACCATTGCGGTCTCAACCTTTCCCTTCATATCTT
CATGGTACCGAGTTCACCGTTGCGGCCTCAACCT
Found at i:176022 original size:198 final size:198
Alignment explanation
Indices: 175800--176276 Score: 543
Period size: 198 Copynumber: 2.4 Consensus size: 198
175790 CCGGATTCGC
* * * ** *
175800 CGTTATGGCCTTAATCC-TTCCCATCACATATTCTAAGGTACCAGGTTCTCTATTGCCGTCTCAA
1 CGTTATGGCCTCAA-CCTTTCCCATCACATATTCTAAGGTACCAGGTTCACCATTGTGGCCTCAA
*
175864 CCTTTCCCTTCATATCTCCATGGTACCGAGTTTA-CCGTTGCGGCCTCAACCTTTCCCATCACAT
65 CCTTTCCCTTCATATCTCCATGGTACCG-GGTTAGCCGTTGCGGCCTCAACCTTTCCCATCACAT
* * * ** *
175928 CTTCTTAGGTACCGGGTTCGCCATTGC-ATCCTCAACCTTTCCCTTTGTATCTTTGTGGTACCGG
129 CTTCTTAGGTACCAGGTTCACCATTGCGAT-CTCAACCTTTCCCTTCGTATCTTCATGGTACCGA
175992 GTTCAT
193 GTTCAT
* * * * *
175998 CGTTATGGCCTCAACCTTTCCCATCACATCTTTTTAA-GTA-CTGGATTCACCGTCGTGGCCTCA
1 CGTTATGGCCTCAACCTTTCCCATCACAT-ATTCTAAGGTACCAGG-TTCACCATTGTGGCCTCA
* * * *
176061 ATCC-TTCCCTTCATCTCTTCATGGTACTGGGTTAGCCGTTGTGGCCTCAACCTTTCCCATCACA
64 A-CCTTTCCCTTCATATCTCCATGGTACCGGGTTAGCCGTTGCGGCCTCAACCTTTCCCATCACA
* *
176125 TCTTCTTAGGTACCAGGTTCACCGTTGCGGTCTCAACCTTTCCCTTCGTATCTTCATGGTACCGA
128 TCTTCTTAGGTACCAGGTTCACCATTGCGATCTCAACCTTTCCCTTCGTATCTTCATGGTACCGA
*
176190 GTTCGT
193 GTTCAT
***** * ** *
176196 CGTTGCAATCTCAACCTTTCCCATCACATCTTCTTGGGTACCAGGTTCGCCATTGTGGCCTCAAC
1 CGTTATGGCCTCAACCTTTCCCATCACATATTCTAAGGTACCAGGTTCACCATTGTGGCCTCAAC
*
176261 CTTTCCCTTCACATCT
66 CTTTCCCTTCATATCT
176277 TTTAAGGTTC
Statistics
Matches: 230, Mismatches: 40, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
197 14 0.06
198 205 0.89
199 11 0.05
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.35
Consensus pattern (198 bp):
CGTTATGGCCTCAACCTTTCCCATCACATATTCTAAGGTACCAGGTTCACCATTGTGGCCTCAAC
CTTTCCCTTCATATCTCCATGGTACCGGGTTAGCCGTTGCGGCCTCAACCTTTCCCATCACATCT
TCTTAGGTACCAGGTTCACCATTGCGATCTCAACCTTTCCCTTCGTATCTTCATGGTACCGAGTT
CAT
Found at i:182859 original size:16 final size:16
Alignment explanation
Indices: 182838--182870 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
182828 AAGAAAATTT
182838 GCGCCTAGTAAGTTAA
1 GCGCCTAGTAAGTTAA
182854 GCGCCTAGTAAGTTAA
1 GCGCCTAGTAAGTTAA
182870 G
1 G
182871 GCACAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (16 bp):
GCGCCTAGTAAGTTAA
Found at i:183388 original size:59 final size:60
Alignment explanation
Indices: 183211--183447 Score: 301
Period size: 59 Copynumber: 4.1 Consensus size: 60
183201 AGCTTTGGAG
183211 AGTTCG-GGGTAAAAATGTGATTTTTGAGAAGTTCGA-GGTAAAAATGTGATTTTTG-GA
1 AGTTCGAGGGTAAAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGAGA
* * * *
183268 AGTTTGGGGGTAAAAATGTCATTTTTG-GAAGTTTG-GGGTAAAAATGTGATTTTT-AGA
1 AGTTCGAGGGTAAAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGAGA
* *
183325 AGTTCGAGAGTAAAAATGTGATTTTTGAGAAGTTCAAGGGTAAAAATGTGATTTTTGAG-
1 AGTTCGAGGGTAAAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGAGA
* * * * * *
183384 AGTTC-AGGGGTAATAATGTAATTTTTTAGAAGTTTGAGGGTAAAAATGTGATTTTAGAAA
1 AGTTCGA-GGGTAAAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGAGA
183444 AGTT
1 AGTT
183448 TAAGGGTCAA
Statistics
Matches: 155, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
57 55 0.35
58 26 0.17
59 68 0.44
60 6 0.04
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (60 bp):
AGTTCGAGGGTAAAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGAGA
Found at i:183448 original size:30 final size:30
Alignment explanation
Indices: 183217--183499 Score: 303
Period size: 29 Copynumber: 9.7 Consensus size: 30
183207 GGAGAGTTCG
*
183217 GGGTAAAAATGTGATTTTTGAGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
*
183247 -GGTAAAAATGTGATTTTTG-GAAGTTTGG
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
*
183275 GGGTAAAAATGTCATTTTTG-GAAGTTTG-
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
*
183303 GGGTAAAAATGTGATTTTT-AGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
* **
183332 GAGTAAAAATGTGATTTTTGAGAAGTTCAA
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
*
183362 GGGTAAAAATGTGATTTTTGAG-AG-TTCA
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
* * *
183390 GGGGTAATAATGTAATTTTTTAGAAGTTTGA
1 -GGGTAAAAATGTGATTTTTGAGAAGTTTGA
* * *
183421 GGGTAAAAATGTGATTTTAGAAAAGTTTAA
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
* * * * * *
183451 GGGTCAAAATATAATTTTGGAAAAATTT-A
1 GGGTAAAAATGTGATTTTTGAGAAGTTTGA
* *
183480 GGGTCAAAATATGATTTTTG
1 GGGTAAAAATGTGATTTTTG
183500 GATAGTTCAG
Statistics
Matches: 219, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
28 34 0.16
29 103 0.47
30 79 0.36
31 3 0.01
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.36
Consensus pattern (30 bp):
GGGTAAAAATGTGATTTTTGAGAAGTTTGA
Found at i:183483 original size:59 final size:59
Alignment explanation
Indices: 183247--183497 Score: 154
Period size: 59 Copynumber: 4.3 Consensus size: 59
183237 AGAAGTTCGA
* * *** * * * *
183247 GGTAAAAATGTGATTTTTGGAAGTTTGGGGGTAAAAATGTCATTTTTGG--AAGTTTG-G
1 GGTAAAAATGTGATTTTAGAAAGTTCAAGGGTAATAATAT-AATTTTGGAAAAATTTGAG
* * * * * * * * **
183304 GGTAAAAATGTGATTTTTAG-AAGTTCGAGAGTAAAAATGTGATTTTTGAGAAGTTCAAG
1 GGTAAAAATGTGA-TTTTAGAAAGTTCAAGGGTAATAATATAATTTTGGAAAAATTTGAG
* * * * ** * *
183363 GGTAAAAATGTGATTTTTGAGAGTTCAGGGGTAATAATGTAATTTTTTAGAAGTTTGAG
1 GGTAAAAATGTGATTTTAGAAAGTTCAAGGGTAATAATATAATTTTGGAAAAATTTGAG
*
183422 GGTAAAAATGTGATTTTAGAAAAGTTTAAGGGTCAA-AATATAATTTTGGAAAAATTT-AG
1 GGTAAAAATGTGATTTTAG-AAAGTTCAAGGGT-AATAATATAATTTTGGAAAAATTTGAG
* *
183481 GGTCAAAATATGATTTT
1 GGTAAAAATGTGATTTT
183498 TGGATAGTTC
Statistics
Matches: 157, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
56 5 0.03
57 30 0.19
58 15 0.10
59 79 0.50
60 26 0.17
61 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (59 bp):
GGTAAAAATGTGATTTTAGAAAGTTCAAGGGTAATAATATAATTTTGGAAAAATTTGAG
Found at i:183501 original size:30 final size:30
Alignment explanation
Indices: 183420--183497 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
183410 TAGAAGTTTG
* * * *
183420 AGGGTAAAAATGTGATTTTAGAAAAGTTTA
1 AGGGTCAAAATATGATTTTGGAAAAATTTA
*
183450 AGGGTCAAAATATAATTTTGGAAAAATTT-
1 AGGGTCAAAATATGATTTTGGAAAAATTTA
183479 AGGGTCAAAATATGATTTT
1 AGGGTCAAAATATGATTTT
183498 TGGATAGTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.35
Consensus pattern (30 bp):
AGGGTCAAAATATGATTTTGGAAAAATTTA
Found at i:188533 original size:18 final size:18
Alignment explanation
Indices: 188507--188543 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
188497 CCAACAAATG
188507 AAATACAATGACAAATAA
1 AAATACAATGACAAATAA
* *
188525 AAATGCAATGACAACTAA
1 AAATACAATGACAAATAA
188543 A
1 A
188544 TAAGATGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.16
Consensus pattern (18 bp):
AAATACAATGACAAATAA
Found at i:188545 original size:22 final size:19
Alignment explanation
Indices: 188519--188561 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
188509 ATACAATGAC
188519 AAATAAAAATGCAATGACAACT
1 AAAT-AAAATGC-AT-ACAACT
*
188541 AAATAAGATGCATACAACT
1 AAATAAAATGCATACAACT
188560 AA
1 AA
188562 CTACTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 6 0.30
22 4 0.20
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (19 bp):
AAATAAAATGCATACAACT
Found at i:200655 original size:27 final size:26
Alignment explanation
Indices: 200605--200656 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
200595 TTTAATTAAT
*
200605 TATTAATTTTTTTTAAATTAAAAAAA
1 TATTAATTTTTTTTAAACTAAAAAAA
200631 TATTCAATTTTTTTTAAAACTAAAAA
1 TATT-AATTTTTTTT-AAACTAAAAA
200657 TCATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.17
27 10 0.43
28 9 0.39
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TATTAATTTTTTTTAAACTAAAAAAA
Found at i:213732 original size:14 final size:16
Alignment explanation
Indices: 213713--213744 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
213703 TATAGGCTGT
213713 AGTAT-AATA-TTAAA
1 AGTATAAATATTTAAA
213727 AGTATAAATATTTAAA
1 AGTATAAATATTTAAA
213743 AG
1 AG
213745 AAAAAGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AGTATAAATATTTAAA
Found at i:215540 original size:9 final size:9
Alignment explanation
Indices: 215526--215552 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
215516 CATGGACCAA
215526 CCCCATTTT
1 CCCCATTTT
215535 CCCCATTTT
1 CCCCATTTT
215544 CCCCATTTT
1 CCCCATTTT
215553 TAGTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.44, G:0.00, T:0.44
Consensus pattern (9 bp):
CCCCATTTT
Found at i:229198 original size:13 final size:14
Alignment explanation
Indices: 229178--229207 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
229168 TTTTCAAAGT
*
229178 TAAAAAAATTAAAA
1 TAAAAAATTTAAAA
229192 TAAAAAATTTAAAA
1 TAAAAAATTTAAAA
229206 TA
1 TA
229208 GTCTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAAAATTTAAAA
Found at i:231061 original size:49 final size:49
Alignment explanation
Indices: 230998--231362 Score: 242
Period size: 49 Copynumber: 7.4 Consensus size: 49
230988 TGAAGACATG
** *
230998 AAGGAAAAGATTTAAGCCGCAACGGAAAATCCAATACCACGAAGATATAA
1 AAGG-AAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
* * * * * * *
231048 AAGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCTC-AGGAGTGTGA
1 AAGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGAAGA-TATAA
*
231097 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
1 AAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
* * * * * * * * *
231146 AAGGAGATG-TTTAAGTCGCAATGGC-AAACCTTGTACCTC-AGGAGTGTGA
1 AAGGA-AAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGAAGA-TATAA
* * *
231195 AGGGAAAGATTTAAACCGCAACGACGAATCCAGTACCACGAAGATATAA
1 AAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
* * * * ** *
231244 AAGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCTCAGAAG-CGTGA
1 AAGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAC-GAAGATATAA
* * * ** * *
231293 AGGGAAGGATTTAAGCTGCAACGGTAAATCTAGTACCACGAAGATACAA
1 AAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
* *
231342 ATGGAAA-AGTTTAAGTCGCAA
1 AAGGAAAGA-TTTAAGCCGCAA
231363 TGACGAACCT
Statistics
Matches: 232, Mismatches: 68, Indels: 31
0.70 0.21 0.09
Matches are distributed among these distances:
48 21 0.09
49 188 0.81
50 23 0.10
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (49 bp):
AAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
Found at i:231127 original size:98 final size:98
Alignment explanation
Indices: 230996--231416 Score: 574
Period size: 98 Copynumber: 4.3 Consensus size: 98
230986 CATGAAGACA
* * *
230996 TGAAGGAAAAGATTTAAGCCGCAACGGAAAATCCAATACCACGAAGATATAAAAGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTA
*
231061 AGTCGCAACGGCGAACCTTGTACCTCAGGAGTG
66 AGTCGCAACGGCGAACCTTGTACCTCAGAAGTG
* * *
231094 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAAAAGGAGATGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTA
* * *
231159 AGTCGCAATGGCAAACCTTGTACCTCAGGAGTG
66 AGTCGCAACGGCGAACCTTGTACCTCAGAAGTG
* * *
231192 TGAAGGGAAAGATTTAAACCGCAACGACGAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTA
*
231257 AGTCGCAACGGCGAACCTTGTACCTCAGAAGCG
66 AGTCGCAACGGCGAACCTTGTACCTCAGAAGTG
* * * * * * *
231290 TGAAGGGAAGGATTTAAGCTGCAACGGTAAATCTAGTACCACGAAGATACAAATGGAAAAGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTA
* * * *
231355 AGTCGCAATGACGAACCTTGTACCTTAGAAG-C
66 AGTCGCAACGGCGAACCTTGTACCTCAGAAGTG
** *
231387 ACAGAGGGAAAGATTTAAGCCGCAATGGCA
1 TGA-AGGGAAAGATTTAAGCCGCAACGGCA
231417 GGTCTCATAC
Statistics
Matches: 286, Mismatches: 36, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
97 1 0.00
98 285 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (98 bp):
TGAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGAAGATATAAAAGGAAAGGTTTA
AGTCGCAACGGCGAACCTTGTACCTCAGAAGTG
Found at i:231581 original size:51 final size:51
Alignment explanation
Indices: 231501--231617 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
231491 AGCAAGTCTT
231501 TATCTCTCTAAAGTTGTAGTAAGAACAAGATGAAGCTTCAACATCAAATCC
1 TATCTCTCTAAAGTTGTAGTAAGAACAAGATGAAGCTTCAACATCAAATCC
* * *
231552 TATCTCTCTTAAGTTGTAGTAAGAGCAAGATGAAGCTTCGACATCAAATCC
1 TATCTCTCTAAAGTTGTAGTAAGAACAAGATGAAGCTTCAACATCAAATCC
*
231603 TATCTCTCTGAAGTT
1 TATCTCTCTAAAGTT
231618 ATAACGAAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (51 bp):
TATCTCTCTAAAGTTGTAGTAAGAACAAGATGAAGCTTCAACATCAAATCC
Found at i:245110 original size:109 final size:109
Alignment explanation
Indices: 245012--245413 Score: 511
Period size: 109 Copynumber: 3.7 Consensus size: 109
245002 CTAGCGCACG
* * *
245012 ATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGCATGATCTCAGCCATCGCGACTGTGT
1 ATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGCAAGATCTCAACCATCGCAACTGTGT
* * * *
245077 GTATCATCAGAACATAGTATCCAGTCAGTATTCACCGGCTCACG
66 GTATCATTAGAACATGGTATCCATTCAGTATTCACCGGCTCACA
* * * * *
245121 ATGTTGCTCACACAAGTTGTCGAGAATCCGTAACATATGCAAGATCTCAACCATCACGA-TAGTG
1 ATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGCAAGATCTCAACCATCGCAACT-GTG
245185 TGTATCATTAGAACATGGTATCCATTCAGTATTCACCGGCTCACA
65 TGTATCATTAGAACATGGTATCCATTCAGTATTCACCGGCTCACA
* * * * * *
245230 ATGCTACTTACTCAAGCAGTCGAGAATCCACAACATATGCAAGATCTCAACCATCGCAACGGTGT
1 ATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGCAAGATCTCAACCATCGCAACTGTGT
* * * * *
245295 GTAACATTAGAACATGGTATCCATTCAATATTCATCGACCCACA
66 GTATCATTAGAACATGGTATCCATTCAGTATTCACCGGCTCACA
** * * * *
245339 ATTTTGTTCACACAAGCTGTCAAGAATACC-CAACATATGCAAGATCTCAGCCATCGCAACAGTG
1 ATGCTGCTCACACAAGCTGTCGAGAAT-CCGCAACATATGCAAGATCTCAACCATCGCAACTGTG
245403 TGTATCATTAG
65 TGTATCATTAG
245414 CCCAAGGCCT
Statistics
Matches: 253, Mismatches: 37, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
108 1 0.00
109 250 0.99
110 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (109 bp):
ATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGCAAGATCTCAACCATCGCAACTGTGT
GTATCATTAGAACATGGTATCCATTCAGTATTCACCGGCTCACA
Found at i:246249 original size:8 final size:8
Alignment explanation
Indices: 246226--246259 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
246216 TAATTTATTA
*
246226 TAATTCAC
1 TAATTTAC
*
246234 TTATTTAC
1 TAATTTAC
246242 TAATTTAC
1 TAATTTAC
246250 TAATTTAC
1 TAATTTAC
246258 TA
1 TA
246260 TTATACCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATTTAC
Found at i:250677 original size:19 final size:21
Alignment explanation
Indices: 250646--250685 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
250636 CCAAAACTTT
250646 CAAAACATTTTATTTT-TCCC
1 CAAAACATTTTATTTTCTCCC
250666 CAAAAC-TTTTATTTTCTCCC
1 CAAAACATTTTATTTTCTCCC
250686 ACTTTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (21 bp):
CAAAACATTTTATTTTCTCCC
Found at i:258247 original size:18 final size:18
Alignment explanation
Indices: 258226--258275 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
258216 GACTAAAGAA
258226 TTCACATAAAATAAGCAG
1 TTCACATAAAATAAGCAG
* * * *
258244 TTCACGTAGAATTATCAG
1 TTCACATAAAATAAGCAG
*
258262 CTCACATAAAATAA
1 TTCACATAAAATAA
258276 TAGTTCATAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (18 bp):
TTCACATAAAATAAGCAG
Found at i:259119 original size:17 final size:18
Alignment explanation
Indices: 259097--259134 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
259087 TTCGCCAAGT
*
259097 TAACACAGTTCAC-AATA
1 TAACACAGTACACAAATA
259114 TAACACAGTACACAAATA
1 TAACACAGTACACAAATA
259132 TAA
1 TAA
259135 TTAGTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (18 bp):
TAACACAGTACACAAATA
Found at i:261265 original size:24 final size:24
Alignment explanation
Indices: 261233--261307 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
261223 GTATACTGGT
261233 TAACCATTCTGGGCTCATAAGAGC
1 TAACCATTCTGGGCTCATAAGAGC
261257 TAACCATTCTGGGCTCATAAGAGC
1 TAACCATTCTGGGCTCATAAGAGC
* **
261281 TAACCATTCTAGGCTCATGTGAGC
1 TAACCATTCTGGGCTCATAAGAGC
261305 TAA
1 TAA
261308 TGTTTTCTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (24 bp):
TAACCATTCTGGGCTCATAAGAGC
Found at i:262046 original size:21 final size:21
Alignment explanation
Indices: 262022--262076 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
262012 TAAAAGTAAG
262022 ACTTGTATCGATAGAAGAGTC
1 ACTTGTATCGATAGAAGAGTC
* **
262043 ACTTGTATCGGTAGAATTGTC
1 ACTTGTATCGATAGAAGAGTC
*
262064 ACATGTATCGATA
1 ACTTGTATCGATA
262077 TTCTTGAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGATAGAAGAGTC
Found at i:263832 original size:24 final size:23
Alignment explanation
Indices: 263796--263849 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
263786 TTACATTATA
*
263796 CAATCCAATTCATA-TATCATTT
1 CAATTCAATTCATAGTATCATTT
*
263818 CACATTCAATATCATAGTCTCATTT
1 CA-ATTCAAT-TCATAGTATCATTT
263843 CAATTCA
1 CAATTCA
263850 TCATTAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 6 0.22
24 10 0.37
25 9 0.33
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (23 bp):
CAATTCAATTCATAGTATCATTT
Found at i:267384 original size:5 final size:5
Alignment explanation
Indices: 267374--267398 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
267364 ATATCCAAAA
267374 CCAAC CCAAC CCAAC CCAAC CCAAC
1 CCAAC CCAAC CCAAC CCAAC CCAAC
267399 AATTTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAC
Found at i:269694 original size:82 final size:82
Alignment explanation
Indices: 269557--269720 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
269547 TTTAAACATG
*
269557 ATTCATGATGAGTGTGATTCGTTCATGATCTTCTCCCCTTCATTCATGCATTTCTTTTCTTTTTT
1 ATTCATGATGAGTGTGATTCGTTCATGATCTTCTCCCCTTCATTCATGCATTTCTTTTCTTTTTC
269622 AAGCATAGTTGAGCAGC
66 AAGCATAGTTGAGCAGC
*
269639 ATTCATGATGAGTGTGATTCGTTCATGATCTTCTTCCCTTCATTCATGCATTTCTTTTCTTTTTC
1 ATTCATGATGAGTGTGATTCGTTCATGATCTTCTCCCCTTCATTCATGCATTTCTTTTCTTTTTC
269704 AAGCATAGTTGAGCAGC
66 AAGCATAGTTGAGCAGC
269721 TACCAACTCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (82 bp):
ATTCATGATGAGTGTGATTCGTTCATGATCTTCTCCCCTTCATTCATGCATTTCTTTTCTTTTTC
AAGCATAGTTGAGCAGC
Found at i:277039 original size:7 final size:7
Alignment explanation
Indices: 277027--277052 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
277017 TTCTAACACA
277027 TTCAAAT
1 TTCAAAT
277034 TTCAAAT
1 TTCAAAT
277041 TTCAAAT
1 TTCAAAT
277048 TTCAA
1 TTCAA
277053 CCCATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (7 bp):
TTCAAAT
Found at i:278157 original size:22 final size:22
Alignment explanation
Indices: 278127--278169 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
278117 CTTTAGAGGA
278127 TTTGCTTTGTAGCACGCTTCTT
1 TTTGCTTTGTAGCACGCTTCTT
* * *
278149 TTTGTTTTGTGGCATGCTTCT
1 TTTGCTTTGTAGCACGCTTCT
278170 ACCTTATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.19, G:0.21, T:0.53
Consensus pattern (22 bp):
TTTGCTTTGTAGCACGCTTCTT
Found at i:280398 original size:20 final size:20
Alignment explanation
Indices: 280373--280411 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
280363 AAAAATTCAG
*
280373 GAGCATCGATGTACATATAA
1 GAGCATCGAAGTACATATAA
*
280393 GAGCATCGAAGTACGTATA
1 GAGCATCGAAGTACATATA
280412 GGGACATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
GAGCATCGAAGTACATATAA
Found at i:282895 original size:23 final size:23
Alignment explanation
Indices: 282858--282901 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
282848 TAAATTTTGT
282858 AAATAATTAATATTAATTATTTAG
1 AAATAATTAATATTAA-TATTTAG
*
282882 AAATATTTAA-ATTAATATTT
1 AAATAATTAATATTAATATTT
282902 CATATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AAATAATTAATATTAATATTTAG
Found at i:284252 original size:17 final size:17
Alignment explanation
Indices: 284232--284265 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
284222 CTCACTTGCT
*
284232 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
284249 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
284266 CATATCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:285432 original size:28 final size:28
Alignment explanation
Indices: 285394--285466 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
285384 TATTTTTTTA
* *
285394 TTATAAAATATTATTA-TAATATTATTAT
1 TTATAATATATTATTACTAATA-TAATAT
* **
285422 TTATCATATATTAACACTAATATAATAT
1 TTATAATATATTATTACTAATATAATAT
285450 TTATAATATA-TATTACT
1 TTATAATATATTATTACT
285467 TTGACCGTCC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 5 0.14
28 26 0.72
29 5 0.14
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (28 bp):
TTATAATATATTATTACTAATATAATAT
Found at i:285433 original size:14 final size:13
Alignment explanation
Indices: 285391--285464 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
285381 TTTTATTTTT
*
285391 TTATTATAAAATA
1 TTATTATAATATA
285404 TTATTATAATATTA
1 TTATTATAATA-TA
*
285418 TTATTTATCATATA
1 TTA-TTATAATATA
**
285432 TTAACACTAATATA
1 TTATTA-TAATATA
*
285446 ATATTTATAATATA
1 TTA-TTATAATATA
285460 -TATTA
1 TTATTA
285465 CTTTGACCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
12 3 0.06
13 13 0.27
14 25 0.51
15 8 0.16
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATTATAATATA
Found at i:289150 original size:22 final size:22
Alignment explanation
Indices: 289120--289174 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
289110 ACGGTAGTGC
289120 GCTTACTGTTTAGCACTGTGTGT
1 GCTT-CTGTTTAGCACTGTGTGT
*
289143 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTTAGCACTGTGTGT
289165 GCTTCTGTTT
1 GCTTCTGTTT
289175 CCTTAGCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.45
Consensus pattern (22 bp):
GCTTCTGTTTAGCACTGTGTGT
Found at i:289182 original size:26 final size:24
Alignment explanation
Indices: 289129--289184 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 24
289119 CGCTTACTGT
289129 TTAGCACTGTGTGTGCTTCTGTTC
1 TTAGCACTGTGTGTGCTTCTGTTC
289153 --AGCACTGTGTGTGCTTCTGTTTCC
1 TTAGCACTGTGTGTGCTTCTG-TT-C
289177 TTAGCACT
1 TTAGCACT
289185 TATGCGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 19 0.68
23 2 0.07
24 1 0.04
26 6 0.21
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (24 bp):
TTAGCACTGTGTGTGCTTCTGTTC
Found at i:291925 original size:29 final size:31
Alignment explanation
Indices: 291886--291948 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
291876 GTGAATCATC
*
291886 ATTATATTAAAAAATAAATTAAATAATA-AT
1 ATTATATTAAAAAATAAAATAAATAATATAT
***
291916 ATTAT-TTAAATTCTAAAATAAATAATATAT
1 ATTATATTAAAAAATAAAATAAATAATATAT
291946 ATT
1 ATT
291949 GTAAGTGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
ATTATATTAAAAAATAAAATAAATAATATAT
Found at i:293608 original size:308 final size:305
Alignment explanation
Indices: 293040--293930 Score: 1214
Period size: 308 Copynumber: 2.9 Consensus size: 305
293030 TTAAAAGAAT
* *
293040 TGGTAGCCAGTATTTGTAATGTATAAAAGGGAGAAGATAATTAATATATATTTGGAACCATGAGT
1 TGGTAGCCAATATTTGTAATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCATGAGT
* * * * *
293105 TTTATTCAATACGAGGAAATATTTAGTACATAAAAGACATAGCTTTAGTACCTGTTCTTATTTTC
66 TTTATTCAATACGAGGAAATATTTGGTACATGAAAGACATAACTTTAGTACATGTTTTTATTTTC
* * * * * *
293170 TAGTGGCTCCCCCAATAAAGGCATAAAAAGTTTTTGGTAATTTATACACCATGACCTCTCTCAAA
131 TAGTGGCTCCCCCAACAATGGCGTAAAAAGCTTTTGGTAA-TT-TACACCATGACCTCTCCCTAA
* * * * *
293235 ATGTCTTACTCAAACAATCTTATTTTCCTTTTAATCAAAACTTTGAACTCATTCTGAA-GCCCTC
194 ATGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCT-AAGGCCCTC
293299 CATTGTCACTTTCTTGTTGACGTCTTGCCATGAGAATAATTTCATCACA
258 CATTGTCAC-TTCTTGTTGACGTCTTGCCATGAGAATAATTTCATCACA
* * *
293348 TGGTAGTCAATATTTGTAATGAATGAAAGGGAAAAGATAATTAA-AGTATATTTGGAACCATGAG
1 TGGTAGCCAATATTTGTAATGAATAAAAGGGAGAAGATAATTAATA-TATATTTGGAACCATGAG
* * * * * *
293412 TTGT-TTCAATACGAGGAAACATATGGTACATGAAAGACGTAACTTTATTACTTGTTTTTATTTT
65 TTTTATTCAATACGAGGAAATATTTGGTACATGAAAGACATAACTTTAGTACATGTTTTTATTTT
* **
293476 CTAGTGACTCCCCAGCAACAATGGCGTAAAAAGCTTTTGGTAATTTACACCGCGACCTCTCCCTA
130 CTAGTGGCTCCCC--CAACAATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCTA
* *
293541 CATTGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACCTTCAATTCATTCTAAGGCCCT
193 -AATGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTAAGGCCCT
* ** * * *
293606 CCATTGCTGC-CTTATTGTTGTGGTCTTGCCATGAGAGTGATTTCATCATA
257 CCATTG-T-CACTTCTTGTTGACGTCTTGCCATGAGAATAATTTCATCACA
* ** *
293656 TGGTAACCAATATTTGTAATGAATAAAAGGGAGAAGATAATTAATATATATTTAAAACCACGAGT
1 TGGTAGCCAATATTTGTAATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCATGAGT
*
293721 TTTATTCAATACGAGGAAATATTTGGTACATGAAATACATAACTTTAGTACATGTTTTTATTTTC
66 TTTATTCAATACGAGGAAATATTTGGTACATGAAAGACATAACTTTAGTACATGTTTTTATTTTC
* * * *
293786 TAGTGGCTCCCCCAACAATGACGTAAAAAGCTTTTGGTAATTTACATCATGATCTCTTCCTAAAT
131 TAGTGGCTCCCCCAACAATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCTAAAT
* *
293851 GTCTTGCCCAAACAATTTTATTTTTCTTTTAATCAGAACTTTCAATTCATTCTAAGGCCCTCCAT
196 GTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTAAGGCCCTCCAT
293916 TGTCACCTTCTTGTT
261 TGTCA-CTTCTTGTT
293931 AAGGTATTTC
Statistics
Matches: 509, Mismatches: 63, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
304 1 0.00
305 1 0.00
306 74 0.15
307 126 0.25
308 213 0.42
309 93 0.18
310 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (305 bp):
TGGTAGCCAATATTTGTAATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCATGAGT
TTTATTCAATACGAGGAAATATTTGGTACATGAAAGACATAACTTTAGTACATGTTTTTATTTTC
TAGTGGCTCCCCCAACAATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCTAAAT
GTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTAAGGCCCTCCAT
TGTCACTTCTTGTTGACGTCTTGCCATGAGAATAATTTCATCACA
Found at i:298146 original size:32 final size:32
Alignment explanation
Indices: 298110--298171 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
298100 TATTCTACAC
298110 ATTTCAAAAGCAATCATATTTTACTAATATCA
1 ATTTCAAAAGCAATCATATTTTACTAATATCA
***
298142 ATTTCATTTGCAATCATATTTTACTAATAT
1 ATTTCAAAAGCAATCATATTTTACTAATAT
298172 TATTTTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.44
Consensus pattern (32 bp):
ATTTCAAAAGCAATCATATTTTACTAATATCA
Found at i:298179 original size:32 final size:32
Alignment explanation
Indices: 298119--298182 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
298109 CATTTCAAAA
298119 GCAATCATATTTTACTAATATCAATTTCATTT
1 GCAATCATATTTTACTAATATCAATTTCATTT
* *
298151 GCAATCATATTTTACTAATATTATTTTCATTT
1 GCAATCATATTTTACTAATATCAATTTCATTT
298183 TTCTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (32 bp):
GCAATCATATTTTACTAATATCAATTTCATTT
Found at i:298191 original size:15 final size:15
Alignment explanation
Indices: 298171--298199 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
298161 TTTACTAATA
298171 TTATTTTCATTTTTC
1 TTATTTTCATTTTTC
298186 TTATTTTCATTTTT
1 TTATTTTCATTTTT
298200 TTTCTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTCATTTTTC
Done.