Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1576944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:760423 original size:3 final size:3
Alignment explanation
Indices: 760415--760489 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
760405 CAAAATTTAT
* * * *
760415 TTA TTA TTA TTTA TTA TGA TTA TTA TTA TTA TTA TAA TTAA TTA ATG
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
760462 TTA TTA TTAA TTA TTA -AA TTA TTA TTA T
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA T
760490 AAATAAATAC
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 1 0.02
3 48 0.83
4 9 0.16
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:761234 original size:27 final size:29
Alignment explanation
Indices: 761186--761240 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
761176 CATTCGAACG
*
761186 AAAAAAGAGGAAATCAGAAAAG-AAAAAT
1 AAAAAAGAGGAAACCAGAAAAGTAAAAAT
761214 AAAAAAGA-GAAACCATG-AAAGTAAAAA
1 AAAAAAGAGGAAACCA-GAAAAGTAAAAA
761241 GGTTTTACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.71, C:0.05, G:0.16, T:0.07
Consensus pattern (29 bp):
AAAAAAGAGGAAACCAGAAAAGTAAAAAT
Found at i:772335 original size:16 final size:16
Alignment explanation
Indices: 772304--772335 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
772294 ATGCTCATTA
*
772304 TTAGTGGTGTTCATCG
1 TTAGTAGTGTTCATCG
772320 TTAGTAGTGTTCATCG
1 TTAGTAGTGTTCATCG
772336 GTGCTCGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.44
Consensus pattern (16 bp):
TTAGTAGTGTTCATCG
Found at i:774176 original size:36 final size:36
Alignment explanation
Indices: 774071--774177 Score: 162
Period size: 36 Copynumber: 3.0 Consensus size: 36
774061 TTAGGTCCAT
* *
774071 AAGGAATTACC-AGCTTGATCAGAGCTGAACCTGCAC
1 AAGGAATTACCTA-CTTGATCGGAGCTGAACCTGTAC
* *
774107 GAGGAATTACCTACTTGATTGGAGCTGAACCTGTAC
1 AAGGAATTACCTACTTGATCGGAGCTGAACCTGTAC
774143 AAGGAATTACCTACTTGATCGGAGCTGAACCTGTA
1 AAGGAATTACCTACTTGATCGGAGCTGAACCTGTA
774178 TAGACTTCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 63 0.98
37 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (36 bp):
AAGGAATTACCTACTTGATCGGAGCTGAACCTGTAC
Found at i:774459 original size:2 final size:2
Alignment explanation
Indices: 774452--774497 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
774442 TATTTAAAAC
774452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
774493 AT AT A
1 AT AT A
774498 ACACAAAAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:775075 original size:20 final size:20
Alignment explanation
Indices: 775033--775079 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
775023 CCAGTTTGGA
* **
775033 TTAACTCGGGCTGGTTCGTG
1 TTAACTCGGGCTGGTCCAAG
*
775053 TTAACTCGGGTTGGTCCAAG
1 TTAACTCGGGCTGGTCCAAG
775073 TTAACTC
1 TTAACTC
775080 AGAGCAGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (20 bp):
TTAACTCGGGCTGGTCCAAG
Found at i:782057 original size:85 final size:85
Alignment explanation
Indices: 781897--782061 Score: 190
Period size: 85 Copynumber: 1.9 Consensus size: 85
781887 TGACACGTAA
* * * * * *
781897 TTGTGTGTCATAAATCTACGACCCGCATTTATGACGCTCATTGCGCGTCATTGAAGCCCTCGTCA
1 TTGTGTGTCATAAATCTACGACACACATTTATGACGCTCATTACGCGTCATTGAAGCACACATCA
*
781962 TAAATGAAGATGACACACAT
66 TAAATAAAGATGACACACAT
* * * * *
781982 TTGTGTGTCATAAATTTATGACACACATTTATGAC-TTACATTACGTGTCATTGAAGCACACATT
1 TTGTGTGTCATAAATCTACGACACACATTTATGACGCT-CATTACGCGTCATTGAAGCACACATC
782046 ATTAAA-AAAGATGACA
65 A-TAAATAAAGATGACA
782062 TATATATATA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
84 1 0.02
85 61 0.92
86 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (85 bp):
TTGTGTGTCATAAATCTACGACACACATTTATGACGCTCATTACGCGTCATTGAAGCACACATCA
TAAATAAAGATGACACACAT
Found at i:782066 original size:2 final size:2
Alignment explanation
Indices: 782061--782105 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
782051 AAAAGATGAC
* *
782061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
782102 AT AT
1 AT AT
782106 TGTAGATTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:805400 original size:44 final size:45
Alignment explanation
Indices: 805263--805455 Score: 237
Period size: 45 Copynumber: 4.3 Consensus size: 45
805253 AAATGAAAAT
* * * * *
805263 AATAATAATGCATATGGGTACATTATCGGCATGAAATGATACTAA
1 AATAATAATGCATATGGGTGCATTATCTGCATGAAAGGATGCCAA
* * *
805308 AATAATATTGCATATGGGTGCATTATCAGCATGAAATGATGCCAA
1 AATAATAATGCATATGGGTGCATTATCTGCATGAAAGGATGCCAA
* *
805353 AATAATAATGTATATGGGTGCATTAT-TGCATGAAAGGATGCCGA
1 AATAATAATGCATATGGGTGCATTATCTGCATGAAAGGATGCCAA
*
805397 AATAATAATGCATATGGGTGCATTAAT-TGCATGAAAGGATACCATA
1 AATAATAATGCATATGGGTGCATT-ATCTGCATGAAAGGATGCCA-A
* *
805443 ACTAAAAATGCAT
1 AATAATAATGCAT
805456 GAACGAATAC
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
44 38 0.29
45 81 0.62
46 12 0.09
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.28
Consensus pattern (45 bp):
AATAATAATGCATATGGGTGCATTATCTGCATGAAAGGATGCCAA
Found at i:805531 original size:47 final size:47
Alignment explanation
Indices: 805415--805632 Score: 240
Period size: 47 Copynumber: 4.6 Consensus size: 47
805405 TGCATATGGG
* * *
805415 TGCATTAATTGCATGAAAGGAT-ACCATAACTAAAAATGCATGAACGAA
1 TGCATTAA-GGCATGAAAGGATGA-CATAACTAAAAATGTATGAACGGA
* ** * * *
805463 TACATTAAAGAAACGAAAGGATGACATAACAAAAAATGTATGAACGTA
1 TGCATT-AAGGCATGAAAGGATGACATAACTAAAAATGTATGAACGGA
* * *
805511 TGCATTAAGGCATGAAAGGATGTCATAACCAAAAATGAATGAACGGA
1 TGCATTAAGGCATGAAAGGATGACATAACTAAAAATGTATGAACGGA
* * *
805558 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGTATGAATGGC
1 TGCATTAAGGCATGAAAGGATGACATAACTAAAAATGTATGAACGGA
* * *
805605 TACATTAAGGCATAAAAGGATGTCATAA
1 TGCATTAAGGCATGAAAGGATGACATAA
805633 ATTAAATTAT
Statistics
Matches: 144, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
47 101 0.70
48 40 0.28
49 3 0.02
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (47 bp):
TGCATTAAGGCATGAAAGGATGACATAACTAAAAATGTATGAACGGA
Found at i:805623 original size:94 final size:95
Alignment explanation
Indices: 805425--805632 Score: 265
Period size: 94 Copynumber: 2.2 Consensus size: 95
805415 TGCATTAATT
** * *
805425 GCATGAAAGGATACCATAACTAAAAATGCATGAACGAATACATTAAAGAAACGAAAGGATGACAT
1 GCATGAAAGGATGTCATAACCAAAAATGAATGAACGAATACATTAAAGAAACGAAAGGATGACAT
* *
805490 AACAAAAAATGTATGAACGTATGCATTAAG
66 AACAAAAAATGTATGAACGGATACATTAAG
* * ** * *
805520 GCATGAAAGGATGTCATAACCAAAAATGAATGAACGGATGCATT-AAGGCATGAAAGGATGCCAT
1 GCATGAAAGGATGTCATAACCAAAAATGAATGAACGAATACATTAAAGAAACGAAAGGATGACAT
* * *
805584 AACTAAAAATGTATGAATGGCTACATTAAG
66 AACAAAAAATGTATGAACGGATACATTAAG
*
805614 GCATAAAAGGATGTCATAA
1 GCATGAAAGGATGTCATAA
805633 ATTAAATTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 59 0.61
95 38 0.39
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (95 bp):
GCATGAAAGGATGTCATAACCAAAAATGAATGAACGAATACATTAAAGAAACGAAAGGATGACAT
AACAAAAAATGTATGAACGGATACATTAAG
Found at i:809992 original size:20 final size:19
Alignment explanation
Indices: 809967--810036 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 19
809957 TGATTAAATC
809967 AGTATCGATATCGAAGAGGG
1 AGTATCGATATCGAAG-GGG
809987 AGTATCGATATCGAAGGGGG
1 AGTATCGATATCGAA-GGGG
* *
810007 AGTATCGATACCGAAGGGA
1 AGTATCGATATCGAAGGGG
810026 AGGTATCGATA
1 A-GTATCGATA
810037 CCATTTTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.09
20 41 0.89
21 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (19 bp):
AGTATCGATATCGAAGGGG
Found at i:810590 original size:45 final size:45
Alignment explanation
Indices: 810526--810660 Score: 216
Period size: 45 Copynumber: 3.0 Consensus size: 45
810516 AACGAATGGA
** *
810526 CAAAATAATAATGTGTATGGGTGCATTATCGGTATTAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGGATGC
* * *
810571 CAAAATAATAATGCATATGGGTTCATTATCAGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGGATGC
810616 CAAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGGATGC
810661 AATAACTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGGATGC
Found at i:810768 original size:47 final size:46
Alignment explanation
Indices: 810649--810821 Score: 186
Period size: 47 Copynumber: 3.7 Consensus size: 46
810639 CATTATCGGT
* * **
810649 ATGAAAGGATGCAATAACTAAAAATACATGAACGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACCAAAAATGTATGAACGGATGCATTAA-GC
* * *
810696 ATGAAAGTATGACATAACCAAAAATGTATGAACGAATGCATTAATGC
1 ATGAAAGGATGCCATAACCAAAAATGTATGAACGGATGCATTAA-GC
* *
810743 ATGAAAGGATGCCATAACCAAAAATGTAT-AATTGGATGTATTAAGAC
1 ATGAAAGGATGCCATAACCAAAAATGTATGAA-CGGATGCATTAAG-C
* * * *
810790 ATAAAAGGATGCTATAACTATAAATGTATGAA
1 ATGAAAGGATGCCATAACCAAAAATGTATGAA
810822 TGCATTTAGG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
46 3 0.03
47 101 0.95
48 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (46 bp):
ATGAAAGGATGCCATAACCAAAAATGTATGAACGGATGCATTAAGC
Found at i:810780 original size:94 final size:94
Alignment explanation
Indices: 810649--810821 Score: 215
Period size: 94 Copynumber: 1.8 Consensus size: 94
810639 CATTATCGGT
* * * *
810649 ATGAAAGGATGCAATAACTAAAAATACATGAACGGATGCATTAAGGCATGAAAGTATGAC-ATAA
1 ATGAAAGGATGCAATAACCAAAAATACATGAACGGATGCATTAAGACATAAAAGGATG-CTATAA
810713 CCAAAAATGTATGAACGAATGCATTAATGC
65 CCAAAAATGTATGAACGAATGCATTAATGC
* ** * *
810743 ATGAAAGGATGCCATAACCAAAAATGTAT-AATTGGATGTATTAAGACATAAAAGGATGCTATAA
1 ATGAAAGGATGCAATAACCAAAAATACATGAA-CGGATGCATTAAGACATAAAAGGATGCTATAA
* *
810807 CTATAAATGTATGAA
65 CCAAAAATGTATGAA
810822 TGCATTTAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
93 3 0.05
94 63 0.95
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (94 bp):
ATGAAAGGATGCAATAACCAAAAATACATGAACGGATGCATTAAGACATAAAAGGATGCTATAAC
CAAAAATGTATGAACGAATGCATTAATGC
Found at i:817017 original size:14 final size:14
Alignment explanation
Indices: 817000--817052 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
816990 AAGTCAATGG
*
817000 GTTGACTCAGATGA
1 GTTGACTCAGACGA
*
817014 GTTGATTCAGACGA
1 GTTGACTCAGACGA
* *
817028 GTTGACTCAGTCTA
1 GTTGACTCAGACGA
817042 GGTTGACTCAG
1 -GTTGACTCAG
817053 TTCAGGTCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 23 0.70
15 10 0.30
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (14 bp):
GTTGACTCAGACGA
Found at i:817678 original size:2 final size:2
Alignment explanation
Indices: 817671--817702 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
817661 CTTAATCGAT
817671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
817703 CCATCAACTA
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):
TA
Found at i:820875 original size:30 final size:27
Alignment explanation
Indices: 820837--820891 Score: 83
Period size: 30 Copynumber: 1.9 Consensus size: 27
820827 TATATTTGGT
820837 CCCTATAAATTTATATATCTTTTAAATGA
1 CCCTATAAATTTATAT-T-TTTTAAATGA
820866 CCCTAATAAATTTATATTTTTTAAAT
1 CCCT-ATAAATTTATATTTTTTAAAT
820892 AATTCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 8 0.32
29 5 0.20
30 12 0.48
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (27 bp):
CCCTATAAATTTATATTTTTTAAATGA
Found at i:820884 original size:51 final size:51
Alignment explanation
Indices: 820779--820882 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 51
820769 TCTCAAATGA
* * *
820779 ATTTGGTCCCTGTAAATTTATATTTTTTAGATGAATCTAATAAATCTATAT
1 ATTTGGTCCCTATAAATTTATATTTTTTAAATGAACCTAATAAATCTATAT
* *
820830 ATTTGGTCCCTATAAATTTATATATCTTTTAAATGACCCTAATAAATTTATAT
1 ATTTGGTCCCTATAAATTTATAT-T-TTTTAAATGAACCTAATAAATCTATAT
820883 TTTTTAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 22 0.48
52 1 0.02
53 23 0.50
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (51 bp):
ATTTGGTCCCTATAAATTTATATTTTTTAAATGAACCTAATAAATCTATAT
Found at i:820890 original size:28 final size:28
Alignment explanation
Indices: 820791--820891 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 28
820781 TTGGTCCCTG
* **
820791 TAAATTTATATTTTTTAGATGAATCTAA
1 TAAATTTATATTTTTTAAATGACCCTAA
* * * *
820819 TAAATCTATA-TATTT---GGTCCCT-A
1 TAAATTTATATTTTTTAAATGACCCTAA
820842 TAAATTTATATATCTTTTAAATGACCCTAA
1 TAAATTTATAT-T-TTTTAAATGACCCTAA
820872 TAAATTTATATTTTTTAAAT
1 TAAATTTATATTTTTTAAAT
820892 AATTCATAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
23 10 0.18
24 3 0.05
25 1 0.02
26 3 0.05
27 4 0.07
28 17 0.30
29 6 0.11
30 12 0.21
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (28 bp):
TAAATTTATATTTTTTAAATGACCCTAA
Found at i:829900 original size:21 final size:23
Alignment explanation
Indices: 829859--829900 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
829849 TAAATCCCAA
*
829859 CATATCCTGAAAAATCTGGGAAC
1 CATATCCTGAAAAATCAGGGAAC
829882 CATAT-CTGAAAAA-CAGGGA
1 CATATCCTGAAAAATCAGGGA
829901 TCTCAATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (23 bp):
CATATCCTGAAAAATCAGGGAAC
Found at i:836623 original size:5 final size:5
Alignment explanation
Indices: 836613--836715 Score: 56
Period size: 5 Copynumber: 20.6 Consensus size: 5
836603 AAAATGAGAG
*
836613 AAAGA AAAGA AAAGA AAAGA GAAA-A GATAGAA AAAGA AGGAA-A AAAGA
1 AAAGA AAAGA AAAGA AAAGA -AAAGA -AAAG-A AAAGA A--AAGA AAAGA
* * * * *
836661 GAA-C AAAGA AAAGA TAA-A AGATA AAAGA AGAAGA AAAG- AAA-A AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A-AAGA AAAGA AAAGA AAAGA
836708 AAAGA AAA
1 AAAGA AAA
836716 AAGGGAAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
4 12 0.16
5 48 0.63
6 13 0.17
7 3 0.04
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:836637 original size:7 final size:7
Alignment explanation
Indices: 836625--836723 Score: 51
Period size: 7 Copynumber: 13.7 Consensus size: 7
836615 AGAAAAGAAA
836625 AGAAAAG
1 AGAAAAG
836632 AGAAAAG
1 AGAAAAG
836639 ATAGAAAA-
1 --AGAAAAG
*
836647 AG-AAGG
1 AGAAAAG
*
836653 AAAAAAG
1 AGAAAAG
836660 AGAACAA-
1 AGAA-AAG
836667 AGAAAAG
1 AGAAAAG
*
836674 ATAAAAG
1 AGAAAAG
*
836681 ATAAAAG
1 AGAAAAG
*
836688 AAGAAGAAA
1 -AGAA-AAG
*
836697 AGAAAAAA
1 AG-AAAAG
836705 AGAAAAG
1 AGAAAAG
*
836712 AAAAAAG
1 AGAAAAG
*
836719 GGAAA
1 AGAAA
836724 GAAAATAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
5 2 0.03
6 5 0.07
7 43 0.60
8 12 0.17
9 10 0.14
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (7 bp):
AGAAAAG
Found at i:836659 original size:38 final size:38
Alignment explanation
Indices: 836611--836718 Score: 121
Period size: 42 Copynumber: 2.7 Consensus size: 38
836601 AAAAAATGAG
*
836611 AGAAAGAAAAGAAAAGAAAAGAGAAAAGATAGAAA-AAGA
1 AGAAA-AAAAGAAAAGAAAAGAAAAAAGATA-AAAGAAGA
*
836650 AGGAAAAAAGAGAACAAAGAAAAGATAAAAGATAAAAGAAGA
1 A-GAAAAAA-AG-A-AAAGAAAAGAAAAAAGATAAAAGAAGA
836692 AGAAAAGAAA-AAAAGAAAAGAAAAAAG
1 AGAAAA-AAAGAAAAGAAAAGAAAAAAG
836719 GGAAAGAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
38 15 0.25
39 5 0.08
40 6 0.10
41 10 0.16
42 25 0.41
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (38 bp):
AGAAAAAAAGAAAAGAAAAGAAAAAAGATAAAAGAAGA
Found at i:836669 original size:42 final size:38
Alignment explanation
Indices: 836614--836718 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 38
836604 AAATGAGAGA
* *
836614 AAGAAAAGAAAAGAA-AAGAGAAAAGATAGA-AAAAGAAGG
1 AAGAAAAGAAAAAAAGAAAAGAAAA-A-AGATAAAAGAA-G
* *
836653 AA-AAAAGAGAACAAAGAAAAGATAAAAGATAAAAGAAG
1 AAGAAAAGA-AAAAAAGAAAAGAAAAAAGATAAAAGAAG
836691 AAGAAAAGAAAAAAAGAAAAGAAAAAAG
1 AAGAAAAGAAAAAAAGAAAAGAAAAAAG
836719 GGAAAGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
38 29 0.52
39 20 0.36
40 7 0.12
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (38 bp):
AAGAAAAGAAAAAAAGAAAAGAAAAAAGATAAAAGAAG
Found at i:836704 original size:25 final size:24
Alignment explanation
Indices: 836613--836713 Score: 84
Period size: 24 Copynumber: 4.2 Consensus size: 24
836603 AAAATGAGAG
*
836613 AAAGAA-AAGAAAAG-AAAAGAGA
1 AAAGAAGAAGAAAAGAAAAAAAGA
* *
836635 AAAGATAGAAAAAGAAGGAAAAAAGA
1 AAAGA-AGAAGAA-AAGAAAAAAAGA
* * * *
836661 GAA-CA-AAGAAAAGATAAAAGATA
1 AAAGAAGAAGAAAAGA-AAAAAAGA
836684 AAAGAAGAAGAAAAGAAAAAAAGA
1 AAAGAAGAAGAAAAGAAAAAAAGA
836708 AAAGAA
1 AAAGAA
836714 AAAAGGGAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
22 8 0.13
23 13 0.22
24 18 0.30
25 12 0.20
26 9 0.15
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (24 bp):
AAAGAAGAAGAAAAGAAAAAAAGA
Found at i:836704 original size:47 final size:47
Alignment explanation
Indices: 836618--836707 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
836608 GAGAGAAAGA
*
836618 AAAGAAAAGAAAAGAGAAAAGATAGAAAAAGAAGGAAAAAAGAGAAC
1 AAAGAAAAGAAAAGAGAAAAGATAGAAAAAGAAGAAAAAAAGAGAAC
* *
836665 AAAGAAAAGATAAAAGATAAAAGA-AGAAGAA-AAGAAAAAAAGA
1 AAAGAAAAG--AAAAGAGAAAAGATAGAAAAAGAAGAAAAAAAGA
836708 AAAGAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
47 20 0.53
48 6 0.16
49 12 0.32
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.03
Consensus pattern (47 bp):
AAAGAAAAGAAAAGAGAAAAGATAGAAAAAGAAGAAAAAAAGAGAAC
Found at i:839999 original size:20 final size:20
Alignment explanation
Indices: 839966--840013 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
839956 TCAGGTCATC
*
839966 TCGGGTAATCCATAAGACCT
1 TCGGGCAATCCATAAGACCT
*
839986 TCGGGCAATTCATAAGACCT
1 TCGGGCAATCCATAAGACCT
*
840006 TCGAGCAA
1 TCGGGCAA
840014 GGGGTTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGGGCAATCCATAAGACCT
Found at i:840693 original size:134 final size:134
Alignment explanation
Indices: 840498--841073 Score: 622
Period size: 134 Copynumber: 4.3 Consensus size: 134
840488 GAAAATCAAA
* * * *
840498 CTCGATCCAATCTTCCCTTAAGAATAATGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * ** *
840563 AGAAGAAGCGTAACATATCCCTTTCTTTTC-ATATTTGATATTATATGACTAACAGTGGAACAAG
66 GGAAGAAGCGAAACATATCCC-TTCTTTTCAAGATTTGATATTACCTGAGTAACAGTGGAACAAG
840627 TCTAC
130 TCTAC
* * * * *
840632 CTTGATTCAATATTCTCT-GAGTAATAGTGGAATGAATCAATGTCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTAAAG-AATAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * * * * *
840696 AGGAAGAAGTGGAACATAT-CATTTTCTTTCAAGATTTTATATTCCCTGAGTAACGGTGGAACAA
65 AGGAAGAAGCGAAACATATCCCTTCT-TTTCAAGATTTGATATTACCTGAGTAACAGTGGAACAA
* *
840760 GTATGC
129 GTCTAC
* * * * *
840766 CTCGATTCAATCTTCCCTAAAGAATAGTGAAATGAATCAACGTCACCAGATATGCTTTACCCAT-
1 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCC-TC
* * * * * *
840830 AGGAAGAAGCGAAACAAATCCCTTGTTTTCAAGATTTGTTATTCCCTTAGTAATAGTGGAACAAG
65 AGGAAGAAGCGAAACATATCCCTTCTTTTCAAGATTTGATATTACCTGAGTAACAGTGGAACAAG
*
840895 TCTGC
130 TCTAC
* * * * * *
840900 CTTGATTCAATCTTCCCTAAAGAACAGT-GAATGAATGAACGTCCCCATATCTAATTTTCCCTCG
1 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * *
840964 GGAAGAATCAAAACACATCCCTTGTTTTCAAGATTTGATATTACCTGAATAACAATGGAACAAGT
66 GGAAGAAGCGAAACATATCCCTTCTTTTCAAGATTTGATATTACCTGAGTAACAGTGGAACAAGT
*
841029 GTAC
131 CTAC
* *
841033 CTCGATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAAC
1 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAAC
841074 ATTTCTAGAT
Statistics
Matches: 364, Mismatches: 70, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
132 4 0.01
133 114 0.31
134 239 0.66
135 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
GGAAGAAGCGAAACATATCCCTTCTTTTCAAGATTTGATATTACCTGAGTAACAGTGGAACAAGT
CTAC
Found at i:841281 original size:7 final size:7
Alignment explanation
Indices: 841269--841305 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
841259 ATTATTATTA
841269 TTTTCTT
1 TTTTCTT
841276 TTTTCTT
1 TTTTCTT
841283 TTTTC-T
1 TTTTCTT
*
841289 TTTTATT
1 TTTTCTT
841296 TTTTCTT
1 TTTTCTT
841303 TTT
1 TTT
841306 ATTATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTCTT
Found at i:841291 original size:13 final size:13
Alignment explanation
Indices: 841263--841313 Score: 66
Period size: 13 Copynumber: 3.7 Consensus size: 13
841253 TTTATTATTA
841263 TTATTATTTTCTTTT
1 TTATT-TTTTC-TTT
*
841278 TTCTTTTTTCTTT
1 TTATTTTTTCTTT
841291 TTATTTTTTCTTT
1 TTATTTTTTCTTT
841304 TTATTATTTT
1 TTATT-TTTT
841314 GAAGACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 20 0.61
14 9 0.27
15 4 0.12
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (13 bp):
TTATTTTTTCTTT
Found at i:849246 original size:3 final size:3
Alignment explanation
Indices: 849238--849272 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
849228 AATATTAAAG
849238 ATA ATA ATA ATA ATA ATA ATA ATA TATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA
849273 TTTATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:849793 original size:55 final size:51
Alignment explanation
Indices: 849499--849790 Score: 372
Period size: 51 Copynumber: 5.6 Consensus size: 51
849489 ACAGGTTCGT
*
849499 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCGGC
1 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCTGC
* *
849550 TCCCTATTCCTTCAGACAGTATAGGACTCAATCTTCAACAAACGTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCTGC
* *
849601 TCCCTATTTCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGT-TCGC
1 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCT-GC
* * *
849652 TCCCTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACATATCTAC
1 TCCCTATTCCTTCAGAGAGTATAGGAC-T---CAATCTTCAACAAACGTGTCTGC
* * *
849707 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAGCTTCAACAATCGTGTCTGC
1 TCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGTGTCTGC
*
849762 TCCCTATTCCTTCAG-GAAGTATAGAACTC
1 TCCCTATTCCTTCAGAG-AGTATAGGACTC
849791 GAATATATTC
Statistics
Matches: 215, Mismatches: 18, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
51 122 0.57
52 1 0.00
54 2 0.01
55 89 0.41
56 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (51 bp):
TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCTGC
Found at i:849838 original size:54 final size:54
Alignment explanation
Indices: 849779--849962 Score: 271
Period size: 54 Copynumber: 3.4 Consensus size: 54
849769 TCCTTCAGGA
* * * * * *
849779 AGTATAGAACTCGAATATATTCTGCTAACGAGTTCGCTCCCTCTTTCTCTAAGG
1 AGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGG
849833 AGTATAGAACTC-AGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGG
1 AGTATAGAACTCGA-ACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGG
* *
849887 AGTATGGAACTCGAACATCTTCTTCAAACGGGCTCGCTCCCTCTTTCTCTAGGG
1 AGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGG
*
849941 AGTATGGAACTCGAACATCTTC
1 AGTATAGAACTCGAACATCTTC
849963 ATCTGCTCCA
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.01
54 118 0.98
55 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (54 bp):
AGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGG
Found at i:851159 original size:27 final size:26
Alignment explanation
Indices: 851107--851170 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
851097 GAACCCTCCC
* *
851107 TTTTTTTTTCTTCCTTTTTTTGTTTT
1 TTTTTTTTTCTTCATTTTTTTCTTTT
851133 TTTTATTTTTCTT-ATTTTTTTCCTTTT
1 TTTT-TTTTTCTTCATTTTTTT-CTTTT
851160 TTCTTCTTTTT
1 TT-TT-TTTTT
851171 TTAAGCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.34
27 14 0.44
28 7 0.22
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (26 bp):
TTTTTTTTTCTTCATTTTTTTCTTTT
Found at i:851160 original size:10 final size:9
Alignment explanation
Indices: 851110--851172 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
851100 CCCTCCCTTT
851110 TTTTTTCTTC
1 TTTTTT-TTC
* *
851120 CTTTTTTTG
1 TTTTTTTTC
*
851129 TTTTTTTTA
1 TTTTTTTTC
* *
851138 TTTTTCTTA
1 TTTTTTTTC
*
851147 TTTTTTTCC
1 TTTTTTTTC
851156 TTTTTTCTTC
1 TTTTTT-TTC
851166 TTTTTTT
1 TTTTTTT
851173 AAGCAAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
9 30 0.70
10 13 0.30
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:863450 original size:3 final size:3
Alignment explanation
Indices: 863442--863479 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
863432 AATATTAAAG
863442 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA
863480 TTTATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:865081 original size:23 final size:24
Alignment explanation
Indices: 865055--865143 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 24
865045 TACGCGATCC
*
865055 TTCGGGATAATTCTATGTGGT-CT
1 TTCGGGACAATTCTATGTGGTCCT
* *
865078 TTCGGGACAATTTTATGTGGTGC-
1 TTCGGGACAATTCTATGTGGTCCT
*
865101 TTCGGGAC-ATCTCTACGTGGTCCT
1 TTCGGGACAAT-TCTATGTGGTCCT
*
865125 TT-GGGACATTTCTATGTGG
1 TTCGGGACAATTCTATGTGG
865144 CACTTCAGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 2 0.04
23 49 0.89
24 4 0.07
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (24 bp):
TTCGGGACAATTCTATGTGGTCCT
Found at i:865106 original size:46 final size:46
Alignment explanation
Indices: 865054--865143 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
865044 CTACGCGATC
*
865054 CTTCGGGATAAT-TCTATGTGGT-CTTTCGGGACAATTT-TATGTGGTG
1 CTTCGGGA-AATCTCTACGTGGTCCTTT-GGGAC-ATTTCTATGTGGTG
*
865100 CTTCGGGACATCTCTACGTGGTCCTTTGGGACATTTCTATGTGG
1 CTTCGGGAAATCTCTACGTGGTCCTTTGGGACATTTCTATGTGG
865144 CACTTCAGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
45 6 0.15
46 29 0.74
47 4 0.10
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.39
Consensus pattern (46 bp):
CTTCGGGAAATCTCTACGTGGTCCTTTGGGACATTTCTATGTGGTG
Found at i:865161 original size:24 final size:23
Alignment explanation
Indices: 865134--865192 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
865124 TTTGGGACAT
*
865134 TTCTATGTGGCACTTCAGTGCATA
1 TTCTATGTGGCACTTCAGAGCA-A
* * *
865158 TTCTACGCGGCACTTCGGAGCAA
1 TTCTATGTGGCACTTCAGAGCAA
865181 TTCTATGTGGCA
1 TTCTATGTGGCA
865193 GTTTCGATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
TTCTATGTGGCACTTCAGAGCAA
Found at i:868110 original size:3 final size:3
Alignment explanation
Indices: 868104--868168 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
868094 AAATATTTAA
*
868104 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
868151 TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT T-AT TAT TA
868169 CTATACCACA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:868745 original size:145 final size:145
Alignment explanation
Indices: 868477--868785 Score: 449
Period size: 145 Copynumber: 2.1 Consensus size: 145
868467 TCTCATCGTT
*
868477 GATCGGAATCTCCGATCACCATTCCGAACGGTCAAAAGTTACGCGAGACCATCACGAACAACATA
1 GATCGGAATCTCCGATCAACATTCCGAACGGTCAAAAGTTACGCGAGACCATCACGAACAACATA
* * **
868542 CTGAAAATTCAGGACGATCTGACGGTGGACGGCAATGGATCGGAGAAAATAAGCCGAACGGTTTT
66 CTGAAAATTCAGGACGATCAGACGGTGGACGACAACAGATCGGAGAAAATAAGCCGAACGGTTTT
* * *
868607 TGGCCTCTTTCCTGC
131 TAGCCTCTTGCCGGC
* * *
868622 GATCGGCATCTTCGATCAACATTCCGAACGGTCAAAAGTTGCGCGAGACCATCACGAACAACATA
1 GATCGGAATCTCCGATCAACATTCCGAACGGTCAAAAGTTACGCGAGACCATCACGAACAACATA
* * * * *
868687 CTGAAAATTCAGGACGGTCAGATGGTGGACGACAGCAGATCGGAGAAACTAAGTCGAACGGTTTT
66 CTGAAAATTCAGGACGATCAGACGGTGGACGACAACAGATCGGAGAAAATAAGCCGAACGGTTTT
868752 TAGCCTCTTGCCGGC
131 TAGCCTCTTGCCGGC
*
868767 GATC-GAGATCTCCGTTCAA
1 GATCGGA-ATCTCCGATCAA
868786 TACTTCAAAC
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
144 1 0.01
145 143 0.99
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (145 bp):
GATCGGAATCTCCGATCAACATTCCGAACGGTCAAAAGTTACGCGAGACCATCACGAACAACATA
CTGAAAATTCAGGACGATCAGACGGTGGACGACAACAGATCGGAGAAAATAAGCCGAACGGTTTT
TAGCCTCTTGCCGGC
Found at i:868823 original size:145 final size:145
Alignment explanation
Indices: 868477--869005 Score: 413
Period size: 145 Copynumber: 3.6 Consensus size: 145
868467 TCTCATCGTT
* * * * * *
868477 GATCGGAATCTCCGATCACCATTCCGAACGGTCAAAAGTTACGCGAGACCATCACGAACAACATA
1 GATCGGCATCTCCGATCAACATTCCAAACGGTCAAAAGTTGCGCAAGACCAACACGAACAACATA
* * **
868542 CTGAAAATTCAGGACGATCTGACGGTGGACGGCAATGGATCGGAGAAAATAAGCCGAACGGTTTT
66 CTGAAAATTCAGGACGATCAGACGGTGGACGACAACAGATCGGAGAAAATAAGCCGAACGGTTTT
* * *
868607 TGGCCTCTTTCCTGC
131 TAGCCTCTTGCCGGC
* * * *
868622 GATCGGCATCTTCGATCAACATTCCGAACGGTCAAAAGTTGCGCGAGACCATCACGAACAACATA
1 GATCGGCATCTCCGATCAACATTCCAAACGGTCAAAAGTTGCGCAAGACCAACACGAACAACATA
* * * * *
868687 CTGAAAATTCAGGACGGTCAGATGGTGGACGACAGCAGATCGGAGAAACTAAGTCGAACGGTTTT
66 CTGAAAATTCAGGACGATCAGACGGTGGACGACAACAGATCGGAGAAAATAAGCCGAACGGTTTT
868752 TAGCCTCTTGCCGGC
131 TAGCCTCTTGCCGGC
* * * * * * **
868767 GATCGAG-ATCTCCGTTCAATACTT-CAAACGGTGAAAAGTTGTGTAATG-TCAACACGAACAGT
1 GATCG-GCATCTCCGATCAACA-TTCCAAACGGTCAAAAGTTGCGCAA-GACCAACACGAACAAC
** * * * ***** * * * *
868829 ATACTGAAGTTTCATGACGATCGGACGGTAGACG-GTGGTGAATCAGAGAAAACAAATTCAGAA-
63 ATACTGAAAATTCAGGACGATCAGACGGTGGACGACAACAG-ATCGGAGAAAA-TAA-GCCGAAC
* * *
868892 GGTTTTTGGCCTCTCGCCGGT
125 GGTTTTTAGCCTCTTGCCGGC
* * * * * * * * **
868913 GATCGGAACCTCCAATCAATATTCCGAACGGTCAAAAGTTGCGCGATG-TCAACGCGAACAGTAT
1 GATCGGCATCTCCGATCAACATTCCAAACGGTCAAAAGTTGCGC-AAGACCAACACGAACAACAT
* * *
868977 ACTGAAATTTCAGGACAATCGGACGGTGG
65 ACTGAAAATTCAGGACGATCAGACGGTGG
869006 CACAGCAACG
Statistics
Matches: 314, Mismatches: 61, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
144 2 0.01
145 211 0.67
146 97 0.31
147 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (145 bp):
GATCGGCATCTCCGATCAACATTCCAAACGGTCAAAAGTTGCGCAAGACCAACACGAACAACATA
CTGAAAATTCAGGACGATCAGACGGTGGACGACAACAGATCGGAGAAAATAAGCCGAACGGTTTT
TAGCCTCTTGCCGGC
Found at i:869618 original size:2 final size:2
Alignment explanation
Indices: 869558--869601 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
869548 TTTCGTACAT
869558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
869600 TA
1 TA
869602 AAGTTATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:876665 original size:43 final size:43
Alignment explanation
Indices: 876574--876684 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
876564 ACGAAGGTGC
* **
876574 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCAATG
1 CATCCACGATTTCAACTCCACGACGGACGATATCGTACCAACA
* * * * *
876617 GATCCAAGATTTCAACTCCACGACGGACGATATCTTGCCCACA
1 CATCCACGATTTCAACTCCACGACGGACGATATCGTACCAACA
* *
876660 CATCCACGGTTTCAACTTCACGACG
1 CATCCACGATTTCAACTCCACGACG
876685 AAGGAAATCG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGACGATATCGTACCAACA
Found at i:876971 original size:43 final size:43
Alignment explanation
Indices: 876908--877032 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
876898 GACGAAGGCG
*
876908 ACATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAAT
1 ACATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAAC
** * *
876951 GGATCCACGATTTTAACTCCACGACGGAGGATATCGTGCCCAC
1 ACATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAAC
* * * * *
876994 ACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTAC
1 ACATCCACGATTTTAACTCCACGACGGAGGATATCGTAC
877033 ACACAAGCAG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ACATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAAC
Found at i:877069 original size:335 final size:335
Alignment explanation
Indices: 876459--877621 Score: 1819
Period size: 335 Copynumber: 3.5 Consensus size: 335
876449 TGCAGCTTTT
* * *
876459 AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCAAAATAGAACAAGCTTGGATTTCAAC
1 AGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAGAACAAGCTTGGATTTCAAC
* *
876524 TTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGTGCCATCCACGATTTCAA
66 TTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGCGACATCCACGATTTCAA
* * *
876589 CTCCACGACGGAGGATATCGTACCAATGGATCCAAGATTTCAACTCCACGACGGACGATATCTTG
131 CTCCACGACGGAGGATATCGTACCAATGGATCCACGATTTCAACTCCACGACGGAGGATATCGTG
876654 CCCACACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTACACACAAGCAACATTCATCTCT
196 CCCACACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTACACACAAGCAACATTCATCTCT
* **
876719 AGATTGGATTTCAACTTCACGACGAAGGATATCCAACTTAAAGAAGGAGTGCCTGTCAATAAACT
261 AGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGAGTGTATGTCAATAAACT
876784 TTTCAGTTTC
326 TTTCAGTTTC
* *
876794 AGAGCCAATTTTAACTTCACGGCGAAGGATATTGGACTCGAAACAGTACAAGCTTGGATTTCAAC
1 AGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAGAACAAGCTTGGATTTCAAC
* *
876859 TTCACAACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGCGACATCCACGATTTTAA
66 TTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGCGACATCCACGATTTCAA
*
876924 CTCCACGACGGAGGATATCGTACCAATGGATCCACGATTTTAACTCCACGACGGAGGATATCGTG
131 CTCCACGACGGAGGATATCGTACCAATGGATCCACGATTTCAACTCCACGACGGAGGATATCGTG
* *
876989 CCCACACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTACACACAAGCAGCATTCATATCT
196 CCCACACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTACACACAAGCAACATTCATCTCT
* *
877054 AGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGGGTGTTTGTCAATAAACT
261 AGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGAGTGTATGTCAATAAACT
877119 TTTCAGTTTC
326 TTTCAGTTTC
* * * *
877129 AGAGTCAATTTTAACTTCACGGCGAAGGATATTGGACTCGAAATAGCACAAGCTTGGATTTCAAC
1 AGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAGAACAAGCTTGGATTTCAAC
877194 TTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGC-ACCATCCACGATTTCA
66 TTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGCGA-CATCCACGATTTCA
* *
877258 ACTCAACGACGGAGGATATCGTACCAATGGATCAACGATTTCAACTCCACGACGGAGGATATCGT
130 ACTCCACGACGGAGGATATCGTACCAATGGATCCACGATTTCAACTCCACGACGGAGGATATCGT
* * * * *
877323 GCCCACACATCCACGATTTTAACTTCACGATGAAGGGAATCGTACACACAAGCAACATCCATCTC
195 GCCCACACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTACACACAAGCAACATTCATCTC
* *
877388 TAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAATGAGTTTATGTCAATAAAC
260 TAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGAGTGTATGTCAATAAAC
*
877453 TTTCCAGTTTC
325 TTTTCAGTTTC
* * * * * *
877464 AGAGTCAATTTCAACTTCACGTCGAAGGATATTGGCCTAGAAACAACACAACATAACTTGGATTT
1 AGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCG--A-AACAGAACA-AGCTTGGATTT
* * * * *
877529 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACGACAAATGG-GCCATCCACGAT
62 CAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAA-GGCGACATCCACGAT
* *
877593 TTCAACTTCACGACGAAGGGA-ATCGTACC
126 TTCAACTCCACGACGGA-GGATATCGTACC
877622 CATCAGCTAC
Statistics
Matches: 765, Mismatches: 55, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
334 1 0.00
335 665 0.87
337 1 0.00
338 6 0.01
339 87 0.11
340 5 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (335 bp):
AGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAGAACAAGCTTGGATTTCAAC
TTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGCGACATCCACGATTTCAA
CTCCACGACGGAGGATATCGTACCAATGGATCCACGATTTCAACTCCACGACGGAGGATATCGTG
CCCACACATCCACGGTTTCAACTTCACGACGAAGGAAATCGTACACACAAGCAACATTCATCTCT
AGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGAGTGTATGTCAATAAACT
TTTCAGTTTC
Found at i:877339 original size:43 final size:43
Alignment explanation
Indices: 877244--877352 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
877234 ACGAAGGCAC
* **
877244 CATCCACGATTTCAACTCAACGACGGAGGATATCGTACCAATG
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCAACA
* * * *
877287 GATCAACGATTTCAACTCCACGACGGAGGATATCGTGCCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCAACA
* *
877330 CATCCACGATTTTAACTTCACGA
1 CATCCACGATTTCAACTCCACGA
877353 TGAAGGGAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCAACA
Found at i:877785 original size:35 final size:36
Alignment explanation
Indices: 877710--877852 Score: 198
Period size: 36 Copynumber: 4.0 Consensus size: 36
877700 ATCCACGAAG
*
877710 CAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
1 CAAA-TTTTATCTCTCTTGAGACAGTTTCTCTTGAAA
*
877747 CAAATTTTATCTCTCTTGAGACA-TTTTTCTTGAAA
1 CAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAA
* * *
877782 CAAATTTTGTCTCTCATGAGACAGTTTCCCTTGAAA
1 CAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAA
* * *
877818 CAAATTTTATCTATTTTGAGAAAGTTTCTCTTGAA
1 CAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAA
877853 GCATCATTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
35 32 0.34
36 57 0.61
37 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (36 bp):
CAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAA
Found at i:877837 original size:71 final size:73
Alignment explanation
Indices: 877710--877852 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 73
877700 ATCCACGAAG
* * * * *
877710 CAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACA-TTTT
1 CAAAGTTTTGTCTCTCATGAGACAGTTTCCCTTGAAACAAATTTTATCTATCTTGAGAAAGTTTC
877774 TCTTGAAA
66 TCTTGAAA
*
877782 CAAA-TTTTGTCTCTCATGAGACAGTTTCCCTTGAAACAAATTTTATCTATTTTGAGAAAGTTTC
1 CAAAGTTTTGTCTCTCATGAGACAGTTTCCCTTGAAACAAATTTTATCTATCTTGAGAAAGTTTC
877846 TCTTGAA
66 TCTTGAA
877853 GCATCATTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 50 0.78
72 14 0.22
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (73 bp):
CAAAGTTTTGTCTCTCATGAGACAGTTTCCCTTGAAACAAATTTTATCTATCTTGAGAAAGTTTC
TCTTGAAA
Found at i:878194 original size:3 final size:3
Alignment explanation
Indices: 878178--878236 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
878168 GTCGAAAAAA
* * * *
878178 TAT TAT TAAA TAT TAT TAT TAC TAT TAT TAAT TAA TAA TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
878225 TAT TAAT TAT TA
1 TAT T-AT TAT TA
878237 CTATACCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
3 39 0.83
4 8 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:878206 original size:22 final size:22
Alignment explanation
Indices: 878178--878236 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
878168 GTCGAAAAAA
* *
878178 TATTATTAAATATTATTATTAC
1 TATTATTAATTATTAATATTAC
* *
878200 TATTATTAATTAATAATATTAT
1 TATTATTAATTATTAATATTAC
878222 TATTATTAATTATTA
1 TATTATTAATTATTA
878237 CTATACCACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTAATTATTAATATTAC
Found at i:878214 original size:25 final size:25
Alignment explanation
Indices: 878178--878236 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
878168 GTCGAAAAAA
*
878178 TATTATTAAATATTATTATTACTAT
1 TATTATTAAATAATATTATTACTAT
*
878203 TATTAATT-AATAATATTATTATTAT
1 TATT-ATTAAATAATATTATTACTAT
878228 TAATTATTA
1 T-ATTATTA
878237 CTATACCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATTAAATAATATTATTACTAT
Found at i:879658 original size:2 final size:2
Alignment explanation
Indices: 879599--879640 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
879589 TTTCGTACAT
879599 TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
879639 TA
1 TA
879641 AAAGTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:882608 original size:45 final size:45
Alignment explanation
Indices: 882553--882808 Score: 327
Period size: 45 Copynumber: 5.7 Consensus size: 45
882543 ACTCTAACAT
* *
882553 CTTTTCTGTTGATAATGCACCCATATACATTTCATCTATAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
882598 CTTTTATGTTGATAATGTACCCATACACATTTCAACCATAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
882643 CTTTTTTGTTGATAATGTACCCATATACATTTCAACTCTAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* *
882688 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
882733 CGTTTT-TGTTGATAATGCACCCATATGCATTTCAACTATGGCAT-
1 C-TTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
*** *
882777 CTTTTCATGCCAATAATGCACCCATATGCATT
1 CTTTT-ATGTTGATAATGCACCCATATACATT
882809 ATTCTTTTAT
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
43 4 0.02
44 1 0.01
45 181 0.95
46 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.40
Consensus pattern (45 bp):
CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
Found at i:882803 original size:90 final size:91
Alignment explanation
Indices: 882553--882887 Score: 315
Period size: 90 Copynumber: 3.8 Consensus size: 91
882543 ACTCTAACAT
* * * *** *
882553 CTTTTCTGTTGATAATGCACCCATATACATTTCATCTATAGTATACTTTT-ATGTTGATAATGTA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCATGCCAATAATGCA
** *
882617 CCCATACACATTTCAACCATAGTATA
66 CCCATATGCATTTCAACTATAGTATA
* * * * ***
882643 CTTTTTTGTTGATAATGTACCCATATACATTTCAACTCTAGTATACTTTTC-TGTTGATAATGCA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCATGCCAATAATGCA
882707 CCCATATGCATTTCAACTATAGTATA
66 CCCATATGCATTTCAACTATAGTATA
* *
882733 CGTTTT-TGTTGATAATGCACCCATATGCATTTCAACTATGGCAT-CTTTTCATGCCAATAATGC
1 C-TTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCATGCCAATAATGC
882796 ACCCATATG-----C-A-T-TA-T-T-
65 ACCCATATGCATTTCAACTATAGTATA
* * * * * * *
882812 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCAT-CATTTCATACCAATAATGCA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCATGCCAATAATGCA
882876 CCCATATGCATT
66 CCCATATGCATT
882888 ATTCTTTTAC
Statistics
Matches: 214, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.02
79 60 0.28
80 1 0.00
81 1 0.00
82 2 0.01
83 1 0.00
84 1 0.00
85 1 0.00
89 6 0.03
90 133 0.62
91 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.39
Consensus pattern (91 bp):
CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCATGCCAATAATGCA
CCCATATGCATTTCAACTATAGTATA
Found at i:882882 original size:79 final size:79
Alignment explanation
Indices: 882746--882896 Score: 257
Period size: 79 Copynumber: 1.9 Consensus size: 79
882736 TTTTGTTGAT
* * *
882746 AATGCACCCATATGCATTTCAACTATGGCATCTTTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCATTTCATACCAATAATGCACCCATATGCATTAT
882811 TCTTTTATGCTGAC
66 TCTTTTATGCTGAC
* *
882825 AATGTACCCATATACATTTCAGCTATGGCATCATTTCATACCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCATTTCATACCAATAATGCACCCATATGCATTAT
882890 TCTTTTA
66 TCTTTTA
882897 CATTCATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGGCATCATTTCATACCAATAATGCACCCATATGCATTAT
TCTTTTATGCTGAC
Found at i:887314 original size:45 final size:45
Alignment explanation
Indices: 887257--887474 Score: 301
Period size: 45 Copynumber: 4.8 Consensus size: 45
887247 CTCTAACATA
*
887257 TTTTCAGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * * *
887302 TTTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
** * * * *
887347 TTTTCTGTTGATAATATACACATATACATTTCAACTCTAGCATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * * *
887392 TTTTCTGTTGATAATGCCCCCATATTCATTTCAACTCTAGTATAT
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
887437 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTAT
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTAT
887475 GGCATCCTTT
Statistics
Matches: 152, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 152 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (45 bp):
TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
Found at i:887371 original size:90 final size:90
Alignment explanation
Indices: 887257--887511 Score: 323
Period size: 90 Copynumber: 2.8 Consensus size: 90
887247 CTCTAACATA
* *
887257 TTTTCAGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGTACC
887322 CATATACATTTCAAC-CATAGTATAC
66 CATATACATTTCAACTC-TAGTATAC
** * * * * **
887347 TTTTCTGTTGATAATATACACATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGCCCC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGTACC
* *
887412 CATATTCATTTCAACTCTAGTATAT
66 CATATACATTTCAACTCTAGTATAC
* * * ***
887437 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGTACC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGTACC
*
887502 CATATGCATT
66 CATATACATT
887512 ATTCTTTTAT
Statistics
Matches: 137, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
90 136 0.99
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (90 bp):
TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGTACC
CATATACATTTCAACTCTAGTATAC
Found at i:887496 original size:135 final size:134
Alignment explanation
Indices: 887245--887511 Score: 338
Period size: 135 Copynumber: 2.0 Consensus size: 134
887235 ATGTATTTTA
887245 AACTCTAACATATTTTCAGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGT
1 AACTCTAACATATTTTCAGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGT
* * * ***
887310 TGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATATACACATATACA
66 TGATAATGCACCCATATACATTTCAACCATAGCATACCTTTCTGCCAATAATATACACATATACA
887375 TTTC
131 TTTC
* * * * * * *
887379 AACTCTAGCATACTTTTCTGTTGATAATGCCCCCATATTCATTTCAACTCTAGTATATTTTTCTG
1 AACTCTAACATA-TTTTCAGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATG
* * * * * *
887444 TTGATAATGCACCCATATGCATTTCAACTATGGCAT-CCTTTCATGCCAATAATGTACCCATATG
65 TTGATAATGCACCCATATACATTTCAACCATAGCATACCTTTC-TGCCAATAATATACACATATA
887508 CATT
129 CATT
887512 ATTCTTTTAT
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
134 16 0.14
135 96 0.86
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (134 bp):
AACTCTAACATATTTTCAGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGT
TGATAATGCACCCATATACATTTCAACCATAGCATACCTTTCTGCCAATAATATACACATATACA
TTTC
Found at i:887585 original size:79 final size:79
Alignment explanation
Indices: 887454--887599 Score: 240
Period size: 79 Copynumber: 1.8 Consensus size: 79
887444 TTGATAATGC
* * *
887454 ACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGTACCCATATGCATTATTCTTT
1 ACCCATATACATTTCAACTATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTT
887519 TATGCTAACAATAT
66 TATGCTAACAATAT
*
887533 ACCCATATACATTTTC-GCTATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTT
1 ACCCATATACA-TTTCAACTATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTT
887597 TTA
65 TTA
887600 CATTCGTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
79 58 0.94
80 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (79 bp):
ACCCATATACATTTCAACTATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTT
TATGCTAACAATAT
Found at i:888121 original size:22 final size:20
Alignment explanation
Indices: 888071--888143 Score: 94
Period size: 19 Copynumber: 3.5 Consensus size: 20
888061 GATGTTTATT
*
888071 GTATCGATACCCTTACCATAG
1 GTATCGATACCCTTACTAT-G
888092 GTATCGATACCACTATACTATG
1 GTATCGATACC-CT-TACTATG
*
888114 ATATCGATACCCTTA-TATG
1 GTATCGATACCCTTACTATG
888133 GTATCGATACC
1 GTATCGATACC
888144 ACTTCATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 14 0.30
20 2 0.04
21 13 0.28
22 13 0.28
23 5 0.11
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCTTACTATG
Found at i:890637 original size:23 final size:22
Alignment explanation
Indices: 890593--890661 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
890583 AGGGTTTTAC
*
890593 GTGGTCCTTCGGGATAATTCTAT
1 GTGGTCCTTCGGGA-CATTCTAT
* *
890616 GTGGTGCTTCGGGACATCTCTAC
1 GTGGTCCTTCGGGACAT-TCTAT
*
890639 GTGGTCCTTTGGGACATTTCTAT
1 GTGGTCCTTCGGGACA-TTCTAT
890662 ATGGCACTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.92
24 1 0.03
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (22 bp):
GTGGTCCTTCGGGACATTCTAT
Found at i:890671 original size:23 final size:23
Alignment explanation
Indices: 890645--890712 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
890635 CTACGTGGTC
890645 CTTTGG-GACATTTCTATATGGCA
1 CTTTGGTG-CATTTCTATATGGCA
* *
890668 CTTTGGTGCATATTCTACACGGCA
1 CTTTGGTGCAT-TTCTATATGGCA
* *
890692 CTTAGGTGCAATTCTATATGG
1 CTTTGGTGCATTTCTATATGG
890713 AAGTTTCGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (23 bp):
CTTTGGTGCATTTCTATATGGCA
Found at i:891369 original size:23 final size:23
Alignment explanation
Indices: 891336--891509 Score: 77
Period size: 25 Copynumber: 7.3 Consensus size: 23
891326 TTACATATGT
* *
891336 AAAAAATAAGAGAGTGAAAAGAG
1 AAAAAAGAAGAGAGAGAAAAGAG
* * *
891359 AAAAAAGAAGA-AGAAAAAATAT
1 AAAAAAGAAGAGAGAGAAAAGAG
*
891381 AGAAAAAGAAGAAGAAAGAAAAGAG
1 A-AAAAAGAAG-AGAGAGAAAAGAG
* * *
891406 AAGAAAGAA-A-AGATAAAAGAT
1 AAAAAAGAAGAGAGAGAAAAGAG
* * * * *
891427 AAAAGAAAAAGAAAATAAAAAAGAA
1 AAAA-AAGAAG-AGAGAGAAAAGAG
* *
891452 AAAGAAAGAA-AGAAAGAAAGAAAG
1 AAA-AAAGAAGAGAGAGAAA-AGAG
* *
891476 AAAGAAAGAAAGAAAGAAAGAAAGAG
1 AAA-AAAG-AAGAGAGAGA-AAAGAG
891502 AAAAAAGA
1 AAAAAAGA
891510 GAAAGAAAAT
Statistics
Matches: 111, Mismatches: 28, Indels: 23
0.69 0.17 0.14
Matches are distributed among these distances:
21 11 0.10
22 13 0.12
23 25 0.23
24 20 0.18
25 29 0.26
26 11 0.10
27 2 0.02
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (23 bp):
AAAAAAGAAGAGAGAGAAAAGAG
Found at i:891374 original size:20 final size:19
Alignment explanation
Indices: 891351--891518 Score: 105
Period size: 20 Copynumber: 8.3 Consensus size: 19
891341 ATAAGAGAGT
891351 GAAAAGAGAAAAAAGAAGAA
1 GAAAA-AGAAAAAAGAAGAA
891371 GAAAAA-ATATAGAAA-AAGAA
1 GAAAAAGA-A-A-AAAGAAGAA
*
891391 GAAGAAAGAAAAGAGAAGAA
1 GAA-AAAGAAAAAAGAAGAA
* *
891411 -AGAAAAGATAAAAGATAAAA
1 GA-AAAAGAAAAAAGA-AGAA
891431 GAAAAAGAAAATAA-AA-AA
1 GAAAAAGAAAA-AAGAAGAA
891449 GAAAAAGAAAGAAAGAAAGAAA
1 GAAAAAGAAA-AAAG-AAG-AA
891471 GAAAGAAAGAAAGAAAGAAAGAAA
1 G-AA-AAAGAAA-AAAG-AAG-AA
*
891495 GAAAGAGAAAAAAG-AGAAA
1 GAAAAAGAAAAAAGAAG-AA
891514 GAAAA
1 GAAAA
891519 TAAATCAAGT
Statistics
Matches: 124, Mismatches: 7, Indels: 35
0.75 0.04 0.21
Matches are distributed among these distances:
18 15 0.12
19 26 0.21
20 35 0.28
21 14 0.11
22 10 0.08
23 4 0.03
24 20 0.16
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (19 bp):
GAAAAAGAAAAAAGAAGAA
Found at i:891375 original size:12 final size:11
Alignment explanation
Indices: 891360--891518 Score: 78
Period size: 12 Copynumber: 13.4 Consensus size: 11
891350 TGAAAAGAGA
891360 AAAAAGAAGAAG
1 AAAAAGAA-AAG
*
891372 AAAAA-ATATAG
1 AAAAAGA-AAAG
891383 AAAAAGAAGAAG
1 AAAAAGAA-AAG
*
891395 AAAGAA-AAGAG
1 AAA-AAGAAAAG
891406 AAGAAAGAAAAG
1 AA-AAAGAAAAG
891418 ATAAAAGATAAAAG
1 A-AAAAG--AAAAG
*
891432 AAAAAGAAAATA
1 AAAAAGAAAA-G
891444 AAAAAGAAAA-
1 AAAAAGAAAAG
*
891454 AGAAAG-AAAG
1 AAAAAGAAAAG
891464 AAAGAA-AGAAAG
1 AAA-AAGA-AAAG
891476 AAAGAA-AGAAAG
1 AAA-AAGA-AAAG
891488 AAAGAAAGAAAGAG
1 -AA-AAAGAAA-AG
891502 AAAAAAGAGAAAG
1 -AAAAAGA-AAAG
891515 AAAA
1 AAAA
891519 TAAATCAAGT
Statistics
Matches: 121, Mismatches: 7, Indels: 38
0.73 0.04 0.23
Matches are distributed among these distances:
9 3 0.02
10 7 0.06
11 21 0.17
12 54 0.45
13 21 0.17
14 15 0.12
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:891384 original size:14 final size:13
Alignment explanation
Indices: 891357--891518 Score: 92
Period size: 13 Copynumber: 12.5 Consensus size: 13
891347 GAGTGAAAAG
891357 AGAAAAAAGAAGA
1 AGAAAAAAGAAGA
* *
891370 AGAAAAAA-TA-T
1 AGAAAAAAGAAGA
891381 AG-AAAAAGAAGA
1 AGAAAAAAGAAGA
*
891393 AGAAAGAA-AAG-
1 AGAAAAAAGAAGA
*
891404 AGAAGAAAGAA-A
1 AGAAAAAAGAAGA
* *
891416 AGATAAAAGATAAA
1 AGAAAAAAGA-AGA
891430 AG-AAAAAGAA-A
1 AGAAAAAAGAAGA
* *
891441 ATAAAAAAGAAAA
1 AGAAAAAAGAAGA
891454 AGAAAGAAAGAAAGAA
1 AGAAA-AAAG-AAG-A
891470 AGAAAGAAAGAAAGAA
1 AGAAA-AAAG-AAG-A
891486 AGAAAGAAAGAA-A
1 AGAAA-AAAGAAGA
891499 GAGAAAAAAG-AGAA
1 -AGAAAAAAGAAG-A
891513 AGAAAA
1 AGAAAA
891519 TAAATCAAGT
Statistics
Matches: 121, Mismatches: 13, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
10 5 0.04
11 11 0.09
12 26 0.21
13 35 0.29
14 13 0.11
15 4 0.03
16 27 0.22
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
AGAAAAAAGAAGA
Found at i:891409 original size:5 final size:4
Alignment explanation
Indices: 891392--891517 Score: 108
Period size: 4 Copynumber: 32.5 Consensus size: 4
891382 GAAAAAGAAG
* *
891392 AAGA AAGAA AAGA GAAGA AAGAA AAGA TA-A AAGA TA-A AAG- AA-A AAGA
1 AAGA AAG-A AAGA -AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
891439 AA-A TAAAA AAG- AA-A AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
891485 AAGA AAGA AAGA AAGA GAA-A AA-A GAGA AAGA AA
1 AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AA
891518 ATAAATCAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
3 17 0.17
4 70 0.69
5 15 0.15
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:897654 original size:135 final size:134
Alignment explanation
Indices: 897356--897833 Score: 566
Period size: 134 Copynumber: 3.6 Consensus size: 134
897346 GGAGTTATCA
* * * *
897356 ATATT-CCTAGAGTAACGGAGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACGGTGGAA
1 ATATTCCCT-GAGTAACTGTGGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGGAA
* * * * * ** *
897420 TGAATCAACATCCCTCGATCTGATTTTCCCTCATGAAGAAGCAAAACAGATCCCCCGTTTTCAAG
65 TGAATCAACGTCCCTAGATCTGATTTTCCCTTAGGAAAAAGCGGAACAGATCCCTCGTTTTCAAG
897485 ATTTG
130 ATTTG
* * * * *
897490 ATATTCCCTTAGTAA-TAGTGGAATAAGTCTGTCTCGATTCAATCTTCATTGAAGAACAGTGGCA
1 ATATTCCCTGAGTAACT-GTGGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGGAA
* * ** * **
897554 TAAATCAATGTCCCTAGATCTGATTTCTCCCTTAGGAAAAAATGGAACAGATTCCTCACTTTCAA
65 TGAATCAACGTCCCTAGATCTGATTT-TCCCTTAGGAAAAAGCGGAACAGATCCCTCGTTTTCAA
*
897619 GATTAG
129 GATTTG
* *
897625 ATATTCCCTGAGTAACTTTGGAACAAGTCTGCTTCGATTCAATCTTCCTTGAAGAACAGTGGAAT
1 ATATTCCCTGAGTAACTGTGGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGGAAT
* * * *
897690 GATTCAACGTGCCC-ATATCTGATTTTCCCTTAGCAAAAAGCGGAACAAATCCCTCGTTTTCAAG
66 GAATCAACGT-CCCTAGATCTGATTTTCCCTTAGGAAAAAGCGGAACAGATCCCTCGTTTTCAAG
897754 ATTTG
130 ATTTG
* * * * * *
897759 ATATTCCCTGAGTAACAGTAGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTAGAAT
1 ATATTCCCTGAGTAACTGTGGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGGAAT
897824 GAATCAACGT
66 GAATCAACGT
897834 ATCTCAATCT
Statistics
Matches: 286, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
134 174 0.61
135 108 0.38
136 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (134 bp):
ATATTCCCTGAGTAACTGTGGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGGAAT
GAATCAACGTCCCTAGATCTGATTTTCCCTTAGGAAAAAGCGGAACAGATCCCTCGTTTTCAAGA
TTTG
Found at i:898044 original size:7 final size:6
Alignment explanation
Indices: 898013--898065 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
898003 TAAACCAATA
* * *
898013 TATTAT TATTAT TATTCTT TATTTT TATTTT TATTTT TATTTT CATTTT
1 TATTTT TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT
898062 TATT
1 TATT
898066 ATTTTGCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:901311 original size:31 final size:31
Alignment explanation
Indices: 901276--901343 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
901266 TTACAATACA
* *
901276 GTCCCCTAACATTTAGTCTATTTGCAATATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
*
901307 GTCCCCCAACATTTAGTCCATTTGTAATATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
901338 GTCCCC
1 GTCCCC
901344 AATGTAACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCATTTGCAATATG
Found at i:903337 original size:31 final size:31
Alignment explanation
Indices: 903252--903344 Score: 132
Period size: 31 Copynumber: 3.0 Consensus size: 31
903242 GTCGGGGATC
* ** *
903252 ATATTACAAACAGACTAAATGTTAAGGGATT
1 ATATTGCAAACAGACTAAATGTTGGGGGACT
*
903283 ATATTGCAAACTGACTAAATGTTGGGGGACT
1 ATATTGCAAACAGACTAAATGTTGGGGGACT
*
903314 ATATTGCAAACGGACTAAATGTTGGGGGACT
1 ATATTGCAAACAGACTAAATGTTGGGGGACT
903345 GTTTTGTAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (31 bp):
ATATTGCAAACAGACTAAATGTTGGGGGACT
Found at i:909386 original size:2 final size:2
Alignment explanation
Indices: 909379--909404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
909369 TCATAAATAA
909379 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
909405 GATCCTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:911903 original size:23 final size:23
Alignment explanation
Indices: 911877--911925 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
911867 TCGAGGGATC
911877 CTACGCGGTCC-TTCGGGACAATT
1 CTACGCGG-CCTTTCGGGACAATT
* *
911900 CTACGTGGCCTTTCGGGATAATT
1 CTACGCGGCCTTTCGGGACAATT
911923 CTA
1 CTA
911926 TGTGGTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (23 bp):
CTACGCGGCCTTTCGGGACAATT
Found at i:916274 original size:23 final size:22
Alignment explanation
Indices: 916248--916370 Score: 99
Period size: 23 Copynumber: 5.3 Consensus size: 22
916238 GAGTCGAGGG
*
916248 ATTCTATTCGGTCCTTCGGGACA
1 ATTCTATT-GGTCCTTCGGGATA
*
916271 ATTCTACGTGGTCCTTCGGGATA
1 ATTCTA-TTGGTCCTTCGGGATA
916294 ATTCTATGTGGTCCTTCGGGATA
1 ATTCTAT-TGGTCCTTCGGGATA
*
916317 AATCTA-TGTGTCACTTCGGTG-TA
1 ATTCTATTG-GTC-CTTCGG-GATA
*
916340 TATTCTACTTGG-CACTTCGGTGAAA
1 -ATTCTA-TTGGTC-CTTCGG-GATA
916365 ATTCTA
1 ATTCTA
916371 CGCGGTAGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
21 2 0.02
22 3 0.04
23 53 0.62
24 23 0.27
25 2 0.02
26 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (22 bp):
ATTCTATTGGTCCTTCGGGATA
Found at i:916334 original size:46 final size:46
Alignment explanation
Indices: 916248--916335 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
916238 GAGTCGAGGG
*
916248 ATTCTATTCGGTCCTTCGGGACAATTCTACGTGGTCCTTCGGGATA
1 ATTCTATTCGGTCCTTCGGGACAAATCTACGTGGTCCTTCGGGATA
* *
916294 ATTCTATGT-GGTCCTTCGGGATAAATCTATGT-GTCACTTCGG
1 ATTCTAT-TCGGTCCTTCGGGACAAATCTACGTGGTC-CTTCGG
916336 TGTATATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.08
46 33 0.89
47 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (46 bp):
ATTCTATTCGGTCCTTCGGGACAAATCTACGTGGTCCTTCGGGATA
Found at i:917129 original size:21 final size:21
Alignment explanation
Indices: 917105--917144 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
917095 TCAAAGGAAT
917105 GAGAA-AAAAAAGATGAAAAGA
1 GAGAAGAAAAAAG-TGAAAAGA
*
917126 GAGAAGAAAATAGTGAAAA
1 GAGAAGAAAAAAGTGAAAA
917145 TTCTCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (21 bp):
GAGAAGAAAAAAGTGAAAAGA
Found at i:925253 original size:32 final size:32
Alignment explanation
Indices: 925212--925297 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 32
925202 GTGTTTGAGA
**
925212 GCCTACCCAAGAAAGATTCTCGAGGCCATGGG
1 GCCTACCCAAGAAAGATTCTCGAGGCCATAAG
* * *
925244 GCCTACCCAAGAAAAATAC-C-AGGGCCCTAAG
1 GCCTACCCAAGAAAGATTCTCGA-GGCCATAAG
925275 GCCTACCCAAGAAAGA-TCTCGAG
1 GCCTACCCAAGAAAGATTCTCGAG
925298 ACCGCAGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.05
31 24 0.55
32 18 0.41
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.13
Consensus pattern (32 bp):
GCCTACCCAAGAAAGATTCTCGAGGCCATAAG
Found at i:925310 original size:31 final size:31
Alignment explanation
Indices: 925209--925316 Score: 85
Period size: 31 Copynumber: 3.5 Consensus size: 31
925199 CTTGTGTTTG
* *
925209 AGAGCCTACCCAAGAAAGATTCTCGAGGCCAT
1 AGAGCCTACCCAAGAAAGA-TCTCGAGACCAA
* * * * * *
925241 GGGGCCTACCCAAGAAAAATAC-CAGGGCCCTA
1 AGAGCCTACCCAAGAAAGAT-CTC-GAGACCAA
**
925273 AG-GCCTACCCAAGAAAGATCTCGAGACCGC
1 AGAGCCTACCCAAGAAAGATCTCGAGACCAA
925303 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
925317 GGTCACCTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
30 7 0.12
31 30 0.51
32 22 0.37
ACGTcount: A:0.34, C:0.31, G:0.23, T:0.11
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAGATCTCGAGACCAA
Found at i:927377 original size:23 final size:24
Alignment explanation
Indices: 927336--927380 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
927326 TTCGATCAAA
* *
927336 GTCAACGTTCAACGGGTTGACTTG
1 GTCAAAGTTCAACGAGTTGACTTG
927360 GTCAAAGTT-AACGAGTTGACT
1 GTCAAAGTTCAACGAGTTGACT
927381 CAGTGAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (24 bp):
GTCAAAGTTCAACGAGTTGACTTG
Found at i:927390 original size:13 final size:13
Alignment explanation
Indices: 927372--927413 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
927362 CAAAGTTAAC
927372 GAGTTGACTCAGT
1 GAGTTGACTCAGT
*
927385 GAGTTGACTCAGCC
1 GAGTTGACTCAG-T
*
927399 AAGTTGACTCAGT
1 GAGTTGACTCAGT
927412 GA
1 GA
927414 CTGGATCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (13 bp):
GAGTTGACTCAGT
Found at i:929722 original size:31 final size:31
Alignment explanation
Indices: 929621--929728 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 31
929611 TTTGGGCCTA
* *
929621 AGAGCCTTCCCAAGAAAGATTCTCGGGGCCAC
1 AGAGCCTACCCAAGAAAGA-TCTCGGGGCCGC
* * * ** *
929653 AGGGCCTATCCAAGAAAAATCTTAGGACCGC
1 AGAGCCTACCCAAGAAAGATCTCGGGGCCGC
* * *
929684 AGGGCCTACCCAAGAAAGATCTCGGGGTCGT
1 AGAGCCTACCCAAGAAAGATCTCGGGGCCGC
*
929715 AGAGCCTATCCAAG
1 AGAGCCTACCCAAG
929729 GGTCATCTTA
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
31 44 0.75
32 15 0.25
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.16
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAGATCTCGGGGCCGC
Found at i:933145 original size:199 final size:199
Alignment explanation
Indices: 932792--933186 Score: 650
Period size: 199 Copynumber: 2.0 Consensus size: 199
932782 TGGGGTGTGA
*
932792 CAATTTAGTCCCGGATTCTTTTATTTTTGAGTTATTTCAATTCAACACCATATGATTATTTTATT
1 CAATTTAGTCCCCGATTCTTTTATTTTTGAGTTATTTCAATTCAACACCATATGATTATTTTATT
* * ** * *
932857 TTTTATTTGGTTTTCTTTTATGCTTACTTTTTTATTTAGCAATTTAATTTTATGTCATTTATTTT
66 TTTGATTTGGTCTTCTTTTATAATTACCTTTTTATTTAGCAATTTAATTTTATGTCATTCATTTT
* *
932922 AAATATTTAATTTGCATGCCCTTTAAATTCTGCAATTTATATTTATATCCTTTTATTGTTCATTT
131 AAATATTTAATTCGCATGCCCTTTAAATTCTGCAATTTATATTTATA-CCCTTTATTGTTCATTT
932987 TATTT
195 TATTT
*
932992 CAATTTAG-CCCCGATTCTTTTATTTTTGAGTTATTTCAATTCAGCACCATATGATTATTTTA-T
1 CAATTTAGTCCCCGATTCTTTTATTTTTGAGTTATTTCAATTCAACACCATATGATTATTTTATT
933055 TTTGATTTGGTCTTCTTTTATAATTACCTTTTTATTTAAGCAATTTAATTTTATGTCATTCATTT
66 TTTGATTTGGTCTTCTTTTATAATTACCTTTTTATTT-AGCAATTTAATTTTATGTCATTCATTT
* *
933120 TTAATATTTAATTCGCATGCCCTTTAAATTCTGCAATTTATATTTATACCCTTTGTTGTTCATTT
130 TAAATATTTAATTCGCATGCCCTTTAAATTCTGCAATTTATATTTATACCCTTTATTGTTCATTT
933185 TA
195 TA
933187 ATTGATTGTG
Statistics
Matches: 182, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
198 50 0.27
199 124 0.68
200 8 0.04
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.54
Consensus pattern (199 bp):
CAATTTAGTCCCCGATTCTTTTATTTTTGAGTTATTTCAATTCAACACCATATGATTATTTTATT
TTTGATTTGGTCTTCTTTTATAATTACCTTTTTATTTAGCAATTTAATTTTATGTCATTCATTTT
AAATATTTAATTCGCATGCCCTTTAAATTCTGCAATTTATATTTATACCCTTTATTGTTCATTTT
ATTT
Found at i:938671 original size:23 final size:22
Alignment explanation
Indices: 938632--938676 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
938622 TTATTATATT
*
938632 TTTAATATTTTGTATTTAATTTA
1 TTTAATATTTTGAATTT-ATTTA
938655 TTTAAGTATTTT-AATTTATTTA
1 TTTAA-TATTTTGAATTTATTTA
938677 ATATTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 9 0.45
24 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTAATATTTTGAATTTATTTA
Found at i:938683 original size:17 final size:18
Alignment explanation
Indices: 938646--938684 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
938636 ATATTTTGTA
938646 TTTAATTTATTTAAGTAT
1 TTTAATTTATTTAAGTAT
938664 TTTAATTTATTTAA-TAT
1 TTTAATTTATTTAAGTAT
938681 TTTA
1 TTTA
938685 CTTATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTTATTTAAGTAT
Found at i:941062 original size:35 final size:33
Alignment explanation
Indices: 941022--941106 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
941012 GTATTTCAGT
941022 TAATTTTGTT-TATTACCATTTAATATTAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-T--TTATTG
*
941057 TAATTTGGTTATCATTTACCATTTAATATTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATATTTATTG
* *
941092 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
941107 TAAAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATATTTATTG
Found at i:942118 original size:9 final size:9
Alignment explanation
Indices: 942104--942188 Score: 62
Period size: 10 Copynumber: 8.8 Consensus size: 9
942094 GGCTGCTGGA
942104 AACCGGTTT
1 AACCGGTTT
942113 AACCGGTTTT
1 AACCGG-TTT
942123 CAACCGGTTCT
1 -AACCGGTT-T
*
942134 GACCGGTTT
1 AACCGGTTT
*
942143 CAACCGGTTCG
1 -AACCGGTT-T
942154 AACCGGTTT
1 AACCGGTTT
* *
942163 GACCGGTCT
1 AACCGGTTT
*
942172 GACTCGGTTT
1 AAC-CGGTTT
*
942182 GACCGGT
1 AACCGGT
942189 CTGACCCGAC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
9 21 0.33
10 35 0.56
11 7 0.11
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
AACCGGTTT
Found at i:942129 original size:20 final size:21
Alignment explanation
Indices: 942104--942162 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
942094 GGCTGCTGGA
942104 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
942124 AACCGGTTCTGACCGG-TTTC
1 AACCGGTTCTAACCGGTTTTC
*
942144 AACCGGTTCGAACCGGTTT
1 AACCGGTTCTAACCGGTTT
942163 GACCGGTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:942141 original size:30 final size:29
Alignment explanation
Indices: 942105--942169 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
942095 GCTGCTGGAA
942105 ACCGGTTT-AACCGGTTTTC-AACCGGTTCTG
1 ACCGGTTTCAACCGG--TTCGAACCGGTT-TG
942135 ACCGGTTTCAACCGGTTCGAACCGGTTTG
1 ACCGGTTTCAACCGGTTCGAACCGGTTTG
942164 ACCGGT
1 ACCGGT
942170 CTGACTCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.33
30 16 0.48
31 6 0.18
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (29 bp):
ACCGGTTTCAACCGGTTCGAACCGGTTTG
Found at i:942169 original size:19 final size:19
Alignment explanation
Indices: 942125--942194 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
942115 CCGGTTTTCA
*
942125 ACCGGTTCTGACCGGTTTCA
1 ACCGGTTCTGACCGGTTT-G
942145 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTG-ACCGGTTTG
942164 ACCGG-TCTGACTCGGTTTG
1 ACCGGTTCTGAC-CGGTTTG
942183 ACCGG-TCTGACC
1 ACCGGTTCTGACC
942195 CGACCCGACC
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
18 5 0.11
19 25 0.54
20 16 0.35
ACGTcount: A:0.14, C:0.30, G:0.29, T:0.27
Consensus pattern (19 bp):
ACCGGTTCTGACCGGTTTG
Found at i:942193 original size:9 final size:9
Alignment explanation
Indices: 942155--942194 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
942145 ACCGGTTCGA
*
942155 ACCGGTTTG
1 ACCGGTCTG
942164 ACCGGTCTG
1 ACCGGTCTG
*
942173 ACTCGGTTTG
1 AC-CGGTCTG
942183 ACCGGTCTG
1 ACCGGTCTG
942192 ACC
1 ACC
942195 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:942201 original size:5 final size:5
Alignment explanation
Indices: 942191--942248 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
942181 TGACCGGTCT
* *
942191 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
942240 GACCC GACC
1 GACCC GACC
942249 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:942217 original size:22 final size:22
Alignment explanation
Indices: 942191--942255 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
942181 TGACCGGTCT
942191 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
942213 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
942235 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
942256 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:942257 original size:7 final size:7
Alignment explanation
Indices: 942245--942282 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
942235 GACCCGACCC
942245 GACCGTT
1 GACCGTT
942252 GACCGTT
1 GACCGTT
942259 GACCGTT
1 GACCGTT
942266 GACCGTT
1 GACCGTT
942273 GACCGTT
1 GACCGTT
942280 GAC
1 GAC
942283 TTTCTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:949479 original size:10 final size:9
Alignment explanation
Indices: 949444--949542 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
949434 GCTGCTGGAA
*
949444 ACCGGTTTA
1 ACCGGTTTG
*
949453 ACCGGTTTTCA
1 ACCGG-TTT-G
949464 ACCGGTTCTG
1 ACCGGTT-TG
949474 ACCGGTTTG
1 ACCGGTTTG
*
949483 ACCGGTTTCA
1 ACCGGTTT-G
*
949493 ACCGGTTCG
1 ACCGGTTTG
949502 AACCGGTTTG
1 -ACCGGTTTG
*
949512 ACCGGTCTG
1 ACCGGTTTG
949521 ACTCGGTTTG
1 AC-CGGTTTG
*
949531 ACCGGTCTG
1 ACCGGTTTG
949540 ACC
1 ACC
949543 CGACCCGACC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 34 0.45
10 35 0.46
11 7 0.09
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:949488 original size:19 final size:19
Alignment explanation
Indices: 949445--949542 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
949435 CTGCTGGAAA
* * *
949445 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
949465 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
949484 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
949504 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
949522 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
949541 CC
1 CC
949543 CGACCCGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.09
19 39 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:949506 original size:29 final size:30
Alignment explanation
Indices: 949443--949517 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
949433 GGCTGCTGGA
*
949443 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
949474 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
949502 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
949518 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:949527 original size:29 final size:28
Alignment explanation
Indices: 949444--949542 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
949434 GCTGCTGGAA
* *
949444 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
949474 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* *
949502 AACCGGTTTGACCGGTCT-GACTCGGTTTG
1 -ACCGGTTTGACCGGTCTCAAC-CGGTTCG
*
949531 ACCGGTCTGACC
1 ACCGGTTTGACC
949543 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 14 0.23
29 35 0.56
30 13 0.21
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:949549 original size:5 final size:5
Alignment explanation
Indices: 949539--949596 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
949529 TGACCGGTCT
* *
949539 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
949588 GACCC GACC
1 GACCC GACC
949597 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:949565 original size:22 final size:22
Alignment explanation
Indices: 949539--949603 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
949529 TGACCGGTCT
949539 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
949561 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
949583 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
949604 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:949605 original size:7 final size:7
Alignment explanation
Indices: 949593--949623 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
949583 GACCCGACCC
949593 GACCGTT
1 GACCGTT
949600 GACCGTT
1 GACCGTT
949607 GACCGTT
1 GACCGTT
949614 GACCGTT
1 GACCGTT
949621 GAC
1 GAC
949624 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:953811 original size:12 final size:12
Alignment explanation
Indices: 953794--953824 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
953784 TTCCAACATG
953794 AATCTTCCTCGA
1 AATCTTCCTCGA
953806 AATCTTCCTCGA
1 AATCTTCCTCGA
953818 AATCTTC
1 AATCTTC
953825 GTTATCAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (12 bp):
AATCTTCCTCGA
Found at i:954981 original size:20 final size:20
Alignment explanation
Indices: 954947--955004 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
954937 TTTTATTTTA
* *
954947 TAATTATATATTATTTAAAT
1 TAATTATAAAATATTTAAAT
* ***
954967 TAATTATAAACTATTTTTTT
1 TAATTATAAAATATTTAAAT
954987 TAATTATAAAATATTTAA
1 TAATTATAAAATATTTAA
955005 TTTTTATATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTATAAAATATTTAAAT
Found at i:955015 original size:40 final size:41
Alignment explanation
Indices: 954924--955016 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 41
954914 TAATTAAAAC
* * * *
954924 ATTTATATAAATTTTTTATTTTATAATTATATATTATTTAA
1 ATTTATATAAACTATTTATTTTATAATTATAAAATATTTAA
*
954965 ATTAATTATAAACTATTT-TTTT-TAATTATAAAATATTTAA
1 ATTTA-TATAAACTATTTATTTTATAATTATAAAATATTTAA
*
955005 TTTTTATATAAA
1 -ATTTATATAAA
955017 TTAGAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
40 22 0.51
41 11 0.26
42 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (41 bp):
ATTTATATAAACTATTTATTTTATAATTATAAAATATTTAA
Found at i:959316 original size:41 final size:40
Alignment explanation
Indices: 959259--959355 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 40
959249 TATCAAAAAG
*
959259 CATAACATTTTAGGTTGGACGAACTTAAAATG-T-TATTTTCT
1 CATAACATTTTCGGTT-G--GAACTTAAAATGTTATATTTTCT
* * *
959300 CTTAATATTTTCGGTT-GAACTTAAAATGTTATATTTTTT
1 CATAACATTTTCGGTTGGAACTTAAAATGTTATATTTTCT
959339 CATAACATTTTCGGTTG
1 CATAACATTTTCGGTTG
959356 AATTTTCGGC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
37 12 0.26
38 1 0.02
39 21 0.45
41 13 0.28
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.46
Consensus pattern (40 bp):
CATAACATTTTCGGTTGGAACTTAAAATGTTATATTTTCT
Found at i:959325 original size:37 final size:39
Alignment explanation
Indices: 959279--959357 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
959269 TAGGTTGGAC
* *
959279 GAACTTAAAATG-T-TATTTTCTCTTAATATTTTCGGTT
1 GAACTTAAAATGTTATATTTTCTCATAACATTTTCGGTT
*
959316 GAACTTAAAATGTTATATTTTTTCATAACATTTTCGGTT
1 GAACTTAAAATGTTATATTTTCTCATAACATTTTCGGTT
959355 GAA
1 GAA
959358 TTTTCGGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 12 0.32
38 1 0.03
39 24 0.65
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.48
Consensus pattern (39 bp):
GAACTTAAAATGTTATATTTTCTCATAACATTTTCGGTT
Found at i:959425 original size:39 final size:39
Alignment explanation
Indices: 959374--959462 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
959364 GCTTACAATA
* *
959374 AAAAAATATTATATTCTTCATAATACTTTAGATTATAAT
1 AAAAAATGTTATATTATTCATAATACTTTAGATTATAAT
* * * *
959413 AAAAAATGTTATATTATTCGTAATATTTTAGGTTGTAAT
1 AAAAAATGTTATATTATTCATAATACTTTAGATTATAAT
959452 -AAAAATGTTAT
1 AAAAAATGTTAT
959463 GAGTAACCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 11 0.25
39 33 0.75
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (39 bp):
AAAAAATGTTATATTATTCATAATACTTTAGATTATAAT
Found at i:961455 original size:21 final size:21
Alignment explanation
Indices: 961361--961455 Score: 52
Period size: 21 Copynumber: 4.6 Consensus size: 21
961351 GCGAAATAAA
*
961361 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * * *
961381 AATCGCAAATC-AGTTCCCAT
1 AATCGCAACGCGATTTTCCAG
* ** *
961401 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
961421 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
961443 AATCGCAACGCGA
1 AATCGCAACGCGA
961456 ATATGAAAAT
Statistics
Matches: 53, Mismatches: 18, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.02
20 24 0.45
21 26 0.49
22 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:961468 original size:20 final size:20
Alignment explanation
Indices: 961443--961757 Score: 228
Period size: 20 Copynumber: 15.7 Consensus size: 20
961433 GATTTTCCAG
* *
961443 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
961463 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
961483 AAT-GCAACGCG-ATTC-TA
1 AATCGCAACGCGAATACGTA
* * *
961500 ACTATCGCAACGAGTATCCGTAA
1 A--ATCGCAACGCGAATACGT-A
* * * *
961523 AATCTCAACGTGTATCCGTA
1 AATCGCAACGCGAATACGTA
961543 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* * *
961564 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
961584 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* ** *
961604 AATCGCAACACCTATCCGTA
1 AATCGCAACGCGAATACGTA
*
961624 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
961644 AATCGCAACGTGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
961664 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * * *
961684 AATTGCAATGCGTATCCATA
1 AATCGCAACGCGAATACGTA
961704 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
961725 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
961745 AATCGCAACGCGA
1 AATCGCAACGCGA
961758 TTTTTAAAGC
Statistics
Matches: 232, Mismatches: 49, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.01
18 1 0.00
19 11 0.05
20 162 0.70
21 52 0.22
22 1 0.00
23 2 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:961548 original size:41 final size:40
Alignment explanation
Indices: 961443--961754 Score: 351
Period size: 40 Copynumber: 7.8 Consensus size: 40
961433 GATTTTCCAG
* ** * * * **
961443 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
961483 AAT-GCAACGCG-ATTC-TAACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGTATCCGTAA--ATCGCAACGAGAATACGT-A
* * *
961523 AATCTCAACGTGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
*
961564 AATCGCAATGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* *
961604 AATCGCAACACCTATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* *
961644 AATCGCAACGTGTATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
961684 AATTGCAATGCGTATCCATAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
961725 AATCGCAACGCGTATCCGTAAATCGCAACG
1 AATCGCAACGCGTATCCGTAAATCGCAACG
961755 CGATTTTTAA
Statistics
Matches: 230, Mismatches: 35, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 20 0.09
40 114 0.50
41 86 0.37
42 3 0.01
43 3 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:961570 original size:121 final size:121
Alignment explanation
Indices: 961443--961754 Score: 303
Period size: 121 Copynumber: 2.6 Consensus size: 121
961433 GATTTTCCAG
* * * * *
961443 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAAT-GCAAC-GCGATTC-TAACTAT
1 AATCGCAACGCGAATACGAAAATCGCAACGAGAACACATAAATCGCAACACCGATCCGTAA--AT
* * *
961505 CGCAACGAGTATCCGTAAAATCTCAACGTGTATCCGTAAATCGCAACGACAATACGTAA
64 CGCAACGAGAATACGT-AAATCGCAACGTGTATCCGTAAATCGCAACGACAATACGTAA
* * * * * * *
961564 AATCGCAATGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACACCTATCCGTAAATCG
1 AATCGCAACGCGAATACGAAAATCGCAACGAGAACACATAAATCGCAACACCGATCCGTAAATCG
* *
961629 CAACGAGAATACGTAAATCGCAACGTGTATCTGTAAATCGCAACGAGAATACGT-A
66 CAACGAGAATACGTAAATCGCAACGTGTATCCGTAAATCGCAACGACAATACGTAA
* * * * * * * *
961684 AATTGCAATGCGTAT-CCATAAATCGCAACGACAATACGTAAAATCGCAAC-GCGTATCCGTAAA
1 AATCGCAACGCGAATACGA-AAATCGCAACGAGAACACAT-AAATCGCAACACCG-ATCCGTAAA
961747 TCGCAACG
63 TCGCAACG
961755 CGATTTTTAA
Statistics
Matches: 162, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
119 1 0.01
120 35 0.22
121 98 0.60
122 21 0.13
123 4 0.02
124 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (121 bp):
AATCGCAACGCGAATACGAAAATCGCAACGAGAACACATAAATCGCAACACCGATCCGTAAATCG
CAACGAGAATACGTAAATCGCAACGTGTATCCGTAAATCGCAACGACAATACGTAA
Found at i:961620 original size:40 final size:41
Alignment explanation
Indices: 961503--961754 Score: 357
Period size: 40 Copynumber: 6.2 Consensus size: 41
961493 GATTCTAACT
* * * *
961503 ATCGCAACGAGTATCCGTAAAATCTCAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
961544 ATCGCAACGACAATACGTAAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
961585 ATCGCAACGAGAATACGT-AAATCGCAACACCTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
961625 ATCGCAACGAGAATACGT-AAATCGCAACGTGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
961665 ATCGCAACGAGAATACGT-AAATTGCAATGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
961705 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
961746 ATCGCAACG
1 ATCGCAACG
961755 CGATTTTTAA
Statistics
Matches: 187, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 107 0.57
41 80 0.43
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:961629 original size:161 final size:161
Alignment explanation
Indices: 961462--961754 Score: 414
Period size: 161 Copynumber: 1.8 Consensus size: 161
961452 GCGAATATGA
* * * *
961462 AAATCGCAACGCGAACATATAAAT-GCAACGCG-AT-TCTAACTATCGCAACGAGTATCCGTAAA
1 AAATCGCAACGAGAACACATAAATCGCAACGCGTATCTCTAA--ATCGCAACGAGAATACGT-AA
* * *
961524 ATCT-CAACGTGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAATGCGTATCCGTAAATC
63 AT-TGCAACGCGTATCCATAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATC
961588 GCAACGAGAATACGTAAATCGCAACACCTATCCGT
127 GCAACGAGAATACGTAAATCGCAACACCTATCCGT
* * * *
961623 AAATCGCAACGAGAATACGTAAATCGCAACGTGTATCTGTAAATCGCAACGAGAATACGTAAATT
1 AAATCGCAACGAGAACACATAAATCGCAACGCGTATCTCTAAATCGCAACGAGAATACGTAAATT
*
961688 GCAATGCGTATCCATAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAA
66 GCAACGCGTATCCATAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAA
961753 CG
131 CG
961755 CGATTTTTAA
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
160 1 0.01
161 86 0.74
162 23 0.20
163 2 0.02
164 4 0.03
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (161 bp):
AAATCGCAACGAGAACACATAAATCGCAACGCGTATCTCTAAATCGCAACGAGAATACGTAAATT
GCAACGCGTATCCATAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAA
CGAGAATACGTAAATCGCAACACCTATCCGT
Found at i:962375 original size:21 final size:21
Alignment explanation
Indices: 962314--962391 Score: 92
Period size: 20 Copynumber: 3.9 Consensus size: 21
962304 TTCTAAACTT
*
962314 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
962334 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
962354 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
962375 AAAATCGCAACG-CGAAA
1 AAAATCGCAACGACGAAA
962392 CCAAAATCGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.64
21 18 0.36
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:962401 original size:40 final size:40
Alignment explanation
Indices: 962314--962402 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
962304 TTCTAAACTT
**
962314 AAAATCGCAACATGAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACATGAAAATGAAAATCGCAACACGAAAACC
** *
962354 ACTATCGCAACGA-GAGAAATGAAAATCGCAACGCG-AAACC
1 AAAATCGCAAC-ATGA-AAATGAAAATCGCAACACGAAAACC
962394 AAAATCGCA
1 AAAATCGCA
962403 TTGAGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
40 21 0.52
41 19 0.47
ACGTcount: A:0.51, C:0.21, G:0.17, T:0.11
Consensus pattern (40 bp):
AAAATCGCAACATGAAAATGAAAATCGCAACACGAAAACC
Found at i:962439 original size:19 final size:18
Alignment explanation
Indices: 962415--962473 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
962405 GAGATTTTCA
962415 TGCGATTTTAATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
*
962434 TGCGA--TTCTTT--CGT
1 TGCGATTTTATTTCGCGT
962448 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
962467 TGCGATT
1 TGCGATT
962474 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 8 0.24
16 5 0.15
17 5 0.15
19 15 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:962450 original size:14 final size:14
Alignment explanation
Indices: 962431--962486 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
962421 TTTAATTTCG
962431 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
962445 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
962462 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTTT
962478 CGTTGCGAT
1 CGTTGCGAT
962487 AGTCATTTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 17 0.47
16 5 0.14
17 6 0.17
19 8 0.22
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:962462 original size:33 final size:33
Alignment explanation
Indices: 962415--962535 Score: 143
Period size: 33 Copynumber: 3.5 Consensus size: 33
962405 GAGATTTTCA
*
962415 TGCGATTTTAATTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTTTCGT
*
962448 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTTTCGT
**
962481 TGCGATAGTCATTTCCGCGTTGCGATAGTCATTCTCTCGT
1 TGCGATTTTCATTT-CGCGTTGCGAT--TC--T-T-TCGT
962521 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
962536 AACCAAAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
33 43 0.58
34 11 0.15
36 2 0.03
38 1 0.01
39 1 0.01
40 16 0.22
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTTTCGT
Found at i:962533 original size:20 final size:20
Alignment explanation
Indices: 962471--962526 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
962461 TCGCGTTGCG
962471 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
962491 ATT-TCCGCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
962511 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
962527 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Done.