Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 96 of 143
Found at i:29812486 original size:35 final size:34
Alignment explanation
Indices: 29812366--29812554 Score: 215
Period size: 34 Copynumber: 5.6 Consensus size: 34
29812356 TGAACAAGTC
* *
29812366 TATGCGAACCCTCATGTTATATAGTGTGACGTAG
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
* * * *
29812400 TATGCGAACCCCCATATCATATAGAAT--CATAG
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
* * *
29812432 TATGTGAACCCTCATGTTATAAAGTATGACATAA
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
* *
29812466 TATGCGAACCCTCCATGTTATATTGAATGACATAG
1 TATGCGAACCCT-CATGTTATATAGTATGACATAG
* *
29812501 TATTCGAACCCTC-TGTTATATAGTATGACATAC
1 TATGCGAACCCTCATGTTATATAGTATGACATAG
*
29812534 TATGTGAACCCT-ATGTTATAT
1 TATGCGAACCCTCATGTTATAT
29812555 GATATGTGAT
Statistics
Matches: 127, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
32 25 0.20
33 35 0.28
34 38 0.30
35 29 0.23
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (34 bp):
TATGCGAACCCTCATGTTATATAGTATGACATAG
Found at i:29812550 original size:101 final size:100
Alignment explanation
Indices: 29812366--29812553 Score: 245
Period size: 101 Copynumber: 1.9 Consensus size: 100
29812356 TGAACAAGTC
** *
29812366 TATGCGAACCCTCATGTTATATAGTGTGACGTAGTATGCGAACCCCCATATCATATAGAATCATA
1 TATGCGAACCCTCATGTTATATAGAATGACATAGTATGCGAACCCCCATATCATATAGAATCATA
*
29812431 GTATGTGAACCCTCATGTTATAAAGTATGACATAA
66 CTATGTGAACCCTCATGTTATAAAGTATGACATAA
* * * * * *
29812466 TATGCGAACCCTCCATGTTATATTGAATGACATAGTATTCGAACCCTC-TGTTATATAGTATGAC
1 TATGCGAACCCT-CATGTTATATAGAATGACATAGTATGCGAACCCCCATATCATATAGAAT--C
29812530 ATACTATGTGAACCCT-ATGTTATA
63 ATACTATGTGAACCCTCATGTTATA
29812554 TGATATGTGA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
100 22 0.29
101 37 0.49
102 16 0.21
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (100 bp):
TATGCGAACCCTCATGTTATATAGAATGACATAGTATGCGAACCCCCATATCATATAGAATCATA
CTATGTGAACCCTCATGTTATAAAGTATGACATAA
Found at i:29812784 original size:20 final size:20
Alignment explanation
Indices: 29812759--29812796 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29812749 GCTTGACAAG
29812759 AATAACATTGAT-TGTTGATA
1 AATAACA-TGATATGTTGATA
29812779 AATAACATGATATGTTGA
1 AATAACATGATATGTTGA
29812797 GTTTATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (20 bp):
AATAACATGATATGTTGATA
Found at i:29817002 original size:124 final size:125
Alignment explanation
Indices: 29816756--29817235 Score: 674
Period size: 123 Copynumber: 3.9 Consensus size: 125
29816746 ATTCTGTTAT
***
29816756 ATTTCTTTTTATTTAATATCTCATATTAAAACAAAAATATTCCTTTAGAGAAAATA-A-ATGGAA
1 ATTTCTTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGA-AAAATATATATGGAA
* * * *
29816819 -ATTTATTAAAACATTATATCATTTTCAAAAAGATATTAACTTCCATATTTTTAATATTCA
65 GGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCA
* *
29816879 ATTTCCTTTTATTTAATATTTCATATTAAAATGGAAATATTCCTTTA-AAAAATATATATGGAAG
1 ATTTCTTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATATGGAAG
* * * *
29816943 GTTTATTAAAACATTATATCCTTTCCAAAATGATAGTAACTTTCATGTTTTTAATATTCA
66 GTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCA
* * *
29817003 ATTTCTTTTTATTTAATATCTCAAATTAAAATGGAAATATTCCTTTAG-AGAA-ATATATGAAAG
1 ATTTCTTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATATGGAAG
*
29817066 GTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCA
66 GTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCA
* * *
29817126 ATTT-TATTTTATTTAATATCTCATATTAAAATGGAATTTTTCCTTTAGAGAAATATAT-T-GAA
1 ATTTCT-TTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATATGGAA
* *
29817188 AG-TTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGT
65 GGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGT
29817236 CACTACAACA
Statistics
Matches: 321, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
121 6 0.02
122 47 0.15
123 161 0.50
124 103 0.32
125 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.43
Consensus pattern (125 bp):
ATTTCTTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATATGGAAG
GTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCA
Found at i:29817546 original size:141 final size:140
Alignment explanation
Indices: 29817266--29817660 Score: 499
Period size: 141 Copynumber: 2.8 Consensus size: 140
29817256 AAGGCAACAT
** * * *
29817266 TTTTGGGACAACACTTTTTTAAGTGTTGCGATAAACTTGCCAACATACACTTTGGCCAACTCTTT
1 TTTTGGGACAACACTTTCCTAAGTGTTGGGATAAACTTGCCGACATACGCTTTGGCCAACTCTTT
* **
29817331 GTATAAGGGTT-AGGATATGCATGCATAAGACAACGCTTATATAAGAGTTGGCTTTGTCCAACAC
66 GTATAAGGGTTGA-GATATGCATGCATAAGACAACGCTTAAATAAGAGTCAGCTTTGTCCAACAC
29817395 TATGCTGACAC
130 TATGCTGACAC
* * **
29817406 TTTTGGGGCTACACTTTCCTAAGTGTTGGGATAAACTTGCCGACATACGCTTTTTCCAACTCTTT
1 TTTTGGGACAACACTTTCCTAAGTGTTGGGATAAACTTGCCGACATACGCTTTGGCCAACTC-TT
* * * * *
29817471 TGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGTTTAAATAAGAGTCAGCTTTGTCCGACAC
65 TGTATAAGGGTTGAGATATGCATGCATAAGACAACGCTTAAATAAGAGTCAGCTTTGTCCAACAC
29817536 TATGAC-GACAC
130 TATG-CTGACAC
* * * ** *
29817547 TTTTGGGCCGACACTTTCCTAAATGTTGGGATAGTCTTTGCCGGCATACGCTTTGGCCAACTCTT
1 TTTTGGGACAACACTTTCCTAAGTGTTGGGATAAAC-TTGCCGACATACGCTTTGGCCAACTCTT
* *
29817612 TGTATAAGGGTTG-GAATATACATGCTTAAGACAACGCTTAAATAAGAGT
65 TGTATAAGGGTTGAG-ATATGCATGCATAAGACAACGCTTAAATAAGAGT
29817661 TGACTTTTTC
Statistics
Matches: 220, Mismatches: 30, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
140 54 0.25
141 141 0.64
142 25 0.11
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (140 bp):
TTTTGGGACAACACTTTCCTAAGTGTTGGGATAAACTTGCCGACATACGCTTTGGCCAACTCTTT
GTATAAGGGTTGAGATATGCATGCATAAGACAACGCTTAAATAAGAGTCAGCTTTGTCCAACACT
ATGCTGACAC
Found at i:29817728 original size:36 final size:36
Alignment explanation
Indices: 29817676--29818160 Score: 538
Period size: 36 Copynumber: 13.4 Consensus size: 36
29817666 TTTTCTAACA
* * *
29817676 CTATGCCAACCTTTTTAAGGTTGCTTTACACAAGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
*
29817712 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAAGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * *
29817748 CTATCCCAATCTTTTTAAAAGGTTTCCTTAG-CAATGT
1 CTATCCCAACCTTTTT--AAGGTTGCCTTAGACAAGGT
*
29817785 CTATCCCAACCTTTTTAAGGTTGCCTTAGATAAGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* *
29817821 CTATCCCAACCTTTTTTAAAGGTTGCCTCAAACAAGGT
1 CTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGT
*
29817859 CTATCCCAACCTTTTTAAGGTTGCCTTAGACATGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * * *
29817895 TTA-CCCAACCTTTTTAAAGTTGTCTTAGAC-TGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
**
29817929 CTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGAC
1 CTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGT
* *
29817967 CTA-CTCCAACCTTTTTAAGGTTACTTTAGACAAGGT
1 CTATC-CCAACCTTTTTAAGGTTGCCTTAGACAAGGT
*
29818003 CTATTCCAACCTTTTTAAGGTTGCCTTAGAC-AGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
*
29818038 CTATCCCAACTTTTTTAAAGGTTGCCTTAGAC-AGGT
1 CTATCCCAACCTTTTT-AAGGTTGCCTTAGACAAGGT
* * * *
29818074 CTATTCCAATCTTTTTTAAAGGTTGTCTTAAACAAGG-
1 CTATCCCAA-CCTTTTT-AAGGTTGCCTTAGACAAGGT
* * *
29818111 C-ATACCCTAACCTTTTTAAAGTTACCTTAGACGA-GT
1 CTAT-CCC-AACCTTTTTAAGGTTGCCTTAGACAAGGT
*
29818147 CTATCCCAGCCTTT
1 CTATCCCAACCTTT
29818161 CAATAAAGGT
Statistics
Matches: 385, Mismatches: 46, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
34 6 0.02
35 69 0.18
36 174 0.45
37 81 0.21
38 55 0.14
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (36 bp):
CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
Found at i:29817804 original size:73 final size:72
Alignment explanation
Indices: 29817676--29818160 Score: 508
Period size: 73 Copynumber: 6.7 Consensus size: 72
29817666 TTTTCTAACA
* * *
29817676 CTATGCCAACCTTTTT-AAGGTTGCTTTACACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTA
1 CTATCCCAACCTTTTTAAAGGTTGCCTTA-GCAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTA
*
29817740 GACAAAGT
65 GACAAGGT
* * *
29817748 CTATCCCAATCTTTTTAAAAGGTTTCCTTAGCAATGTCTATCCCAACCTTTTTAAGGTTGCCTTA
1 CTATCCCAACCTTTTT-AAAGGTTGCCTTAGCAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTA
*
29817813 GATAAGGT
65 GACAAGGT
* *
29817821 CTATCCCAACCTTTTTTAAAGGTTGCCTCAAACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
1 CTATCCCAACC-TTTTTAAAGGTTGCCT-TAGCAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
29817886 AGACATGGT
64 AGACAAGGT
* * *
29817895 TTA-CCCAACCTTTTTAAA-GTTGTCTTAG-ACTGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGCA-AGGTCTATCCCAACC-TTTTT-AAGGTTGCCT
**
29817957 TAGACAAGAC
63 TAGACAAGGT
* * *
29817967 CTA-CTCCAACCTTTTT-AAGGTTACTTTAGACAAGGTCTATTCCAACCTTTTTAAGGTTGCCTT
1 CTATC-CCAACCTTTTTAAAGGTTGCCTTAG-CAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
29818030 AGAC-AGGT
64 AGACAAGGT
* * * *
29818038 CTATCCCAACTTTTTTAAAGGTTGCCTTAG-ACAGGTCTATTCCAATCTTTTTTAAAGGTTGTCT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGCA-AGGTCTATCCCAA-CCTTTTT-AAGGTTGCCT
*
29818102 TAAACAAGG-
63 TAGACAAGGT
* * *
29818111 C-ATACCCTAACCTTTTTAAA-GTTACCTTAG-ACGAGTCTATCCCAGCCTTT
1 CTAT-CCC-AACCTTTTTAAAGGTTGCCTTAGCAAG-GTCTATCCCAACCTTT
29818161 CAATAAAGGT
Statistics
Matches: 350, Mismatches: 43, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
69 1 0.00
70 16 0.05
71 39 0.11
72 84 0.24
73 125 0.36
74 84 0.24
75 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (72 bp):
CTATCCCAACCTTTTTAAAGGTTGCCTTAGCAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAG
ACAAGGT
Found at i:29818096 original size:109 final size:108
Alignment explanation
Indices: 29817676--29818160 Score: 549
Period size: 109 Copynumber: 4.5 Consensus size: 108
29817666 TTTTCTAACA
* * *
29817676 CTATGCCAACCTTTTTAAGGTTGCTTTACACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * *
29817739 AGACAAAGTCTATCCCAATCTTTTTAAAAGGTTTCCTTAG-CAATGT
65 AGACAAGGTCTATCCCAACCTTTTT--AAGG-TTCCTTAGACAAGGT
* *
29817785 CTATCCCAACCTTTTTAAGGTTGCCTTAGATAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTC
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGA-CAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
29817850 AAACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACATGGT
65 AGACAAGGTCTATCCCAACCTTTTTAAGGTT-CCTTAGACAAGGT
* * * *
29817895 TTA-CCCAACCTTTTTAAAGTTGTCTTAGACTGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
** *
29817959 GACAAGACCTA-CTCCAACCTTTTTAAGGTTACTTTAGACAAGGT
66 GACAAGGTCTATC-CCAACCTTTTTAAGGTT-CCTTAGACAAGGT
*
29818003 CTATTCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAA-CTTTTTTAAAGGTTGCCTTA
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
* * * *
29818067 GAC-AGGTCTATTCCAATCTTTTTTAAAGGTTGTCTTAAACAAGG-
66 GACAAGGTCTATCCCAA-CCTTTTT-AAGGTT-CCTTAGACAAGGT
* * *
29818111 C-ATACCCTAACCTTTTTAAAGTTACCTTAGAC-GAGTCTATCCCAGCCTTT
1 CTAT-CCC-AACCTTTTTAAGGTTGCCTTAGACAG-GTCTATCCCAACCTTT
29818161 CAATAAAGGT
Statistics
Matches: 323, Mismatches: 39, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
107 12 0.04
108 105 0.33
109 159 0.49
110 15 0.05
111 32 0.10
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (108 bp):
CTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
GACAAGGTCTATCCCAACCTTTTTAAGGTTCCTTAGACAAGGT
Found at i:29820432 original size:21 final size:18
Alignment explanation
Indices: 29820399--29820441 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
29820389 TTTATTTTTG
*
29820399 TTTATTTACTTAGATTAATT
1 TTTATTTAATTAGA-T-ATT
29820419 TTTAGTTTAATTAGATATT
1 TTTA-TTTAATTAGATATT
29820438 TTTA
1 TTTA
29820442 AGATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTATTTAATTAGATATT
Found at i:29821928 original size:37 final size:38
Alignment explanation
Indices: 29821885--29821960 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
29821875 TCTGGGGTTG
* *
29821885 AACTTTGATT-AATATAT-AAAGATCATACATCTAGAAT
1 AACTTTGATTAAATATATAAAAG-TCAAACATCTAAAAT
*
29821922 AACTTTGATTAAATATGTAAAAGTCAAACATCTAAAAT
1 AACTTTGATTAAATATATAAAAGTCAAACATCTAAAAT
29821960 A
1 A
29821961 TAAATTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 10 0.29
38 20 0.59
39 4 0.12
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.33
Consensus pattern (38 bp):
AACTTTGATTAAATATATAAAAGTCAAACATCTAAAAT
Found at i:29823196 original size:17 final size:17
Alignment explanation
Indices: 29823174--29823212 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
29823164 CGTTAATCGA
29823174 ATATTAATTTAT-AATAT
1 ATATT-ATTTATAAATAT
*
29823191 ATATTATTTTTAAATAT
1 ATATTATTTATAAATAT
29823208 ATATT
1 ATATT
29823213 TATATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTATTTATAAATAT
Found at i:29823598 original size:28 final size:29
Alignment explanation
Indices: 29823559--29823614 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
29823549 AGATTTTTTA
29823559 TTAAAATAATATAAAAATTA-ATTAATTT
1 TTAAAATAATATAAAAATTAGATTAATTT
* *
29823587 TTAAAATGATATAAAATTTAGATTAATT
1 TTAAAATAATATAAAAATTAGATTAATT
29823615 ACATGTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
TTAAAATAATATAAAAATTAGATTAATTT
Found at i:29837301 original size:16 final size:17
Alignment explanation
Indices: 29837280--29837319 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
29837270 TAAATTTATT
*
29837280 AAAAATATTTTAT-AAA
1 AAAAATATTTAATGAAA
29837296 AAAAAT-TTTAATGAAA
1 AAAAATATTTAATGAAA
29837312 AAAAATAT
1 AAAAATAT
29837320 ACATTTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 15 0.71
17 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAAATATTTAATGAAA
Found at i:29837312 original size:15 final size:14
Alignment explanation
Indices: 29837274--29837317 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
29837264 GTTTGATAAA
* *
29837274 TTTATTAAAAATAT
1 TTTATAAAAAAAAT
29837288 TTTATAAAAAAAAT
1 TTTATAAAAAAAAT
29837302 TTTAATGAAAAAAAAT
1 TTT-AT-AAAAAAAAT
29837318 ATACATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 15 0.58
15 2 0.08
16 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TTTATAAAAAAAAT
Found at i:29837603 original size:14 final size:16
Alignment explanation
Indices: 29837573--29837606 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
29837563 TTAACTTACA
29837573 ATTAATATTACATAAT
1 ATTAATATTACATAAT
29837589 ATTAA-ATTA-ATAAT
1 ATTAATATTACATAAT
29837603 ATTA
1 ATTA
29837607 TTCAAGTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAATATTACATAAT
Found at i:29844589 original size:12 final size:12
Alignment explanation
Indices: 29844574--29844598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29844564 AGTCTTAAAT
29844574 TGCATCTTATTA
1 TGCATCTTATTA
29844586 TGCATCTTATTA
1 TGCATCTTATTA
29844598 T
1 T
29844599 AAAATTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TGCATCTTATTA
Found at i:29845375 original size:6 final size:6
Alignment explanation
Indices: 29845356--29845430 Score: 59
Period size: 6 Copynumber: 13.0 Consensus size: 6
29845346 TATTTTAAGA
* * * **
29845356 TTAAAT TT-ATT TTAAAT TTAAAT TT-AAG TTAAGT TTAAAT TTATTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
29845402 TTAAAT TTAAAA TT--AT TCTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT T-TAAAT TTAAAT
29845431 AATTAAAAGC
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
4 2 0.04
5 9 0.17
6 38 0.73
7 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:29845375 original size:23 final size:23
Alignment explanation
Indices: 29845356--29845408 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
29845346 TATTTTAAGA
* *
29845356 TTAAATTTATTTTAAATTTAAAT
1 TTAAATTAAGTTTAAATTTAAAT
* **
29845379 TTAAGTTAAGTTTAAATTTATTT
1 TTAAATTAAGTTTAAATTTAAAT
29845402 TTAAATT
1 TTAAATT
29845409 TAAAATTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAAATTAAGTTTAAATTTAAAT
Found at i:29845425 original size:17 final size:17
Alignment explanation
Indices: 29845339--29845430 Score: 107
Period size: 17 Copynumber: 5.4 Consensus size: 17
29845329 TAAATCATTT
29845339 TTTAAA-TTATTTTAAGA
1 TTTAAATTTATTTTAA-A
29845356 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
** *
29845372 TTTAAATTTAAGTTAAG
1 TTTAAATTTATTTTAAA
29845389 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
29845407 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
29845424 TTTAAAT
1 TTTAAAT
29845431 AATTAAAAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.10
17 44 0.70
18 13 0.21
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:29845485 original size:18 final size:18
Alignment explanation
Indices: 29845442--29845489 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
29845432 ATTAAAAGCT
*
29845442 CAAATTAAAAAAAATGTC
1 CAAATTACAAAAAATGTC
*
29845460 CAAAATTACAAATAATGTC
1 C-AAATTACAAAAAATGTC
29845479 CAAATTACAAA
1 CAAATTACAAA
29845490 CACTTAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (18 bp):
CAAATTACAAAAAATGTC
Found at i:29847224 original size:30 final size:30
Alignment explanation
Indices: 29847181--29847631 Score: 231
Period size: 29 Copynumber: 15.6 Consensus size: 30
29847171 AGAAGGTCCT
* * * *
29847181 GAACTGTCCAAAAATCATATTTTAACCCTC
1 GAACTTTCTAAAAATTACATTTTAACCCTC
* *
29847211 GAACTTTCTAAAAATTACATTGTGACCC-C
1 GAACTTTCTAAAAATTACATTTTAACCCTC
*
29847240 GAACTTT-TAAAAATTACCATTTTACCCCT-
1 GAACTTTCTAAAAATTA-CATTTTAACCCTC
* * *
29847269 GAAC-TTCTAAAAATTCCATTTTTGA-CCTT
1 GAACTTTCTAAAAATTACA-TTTTAACCCTC
* * * **
29847298 AAACTTT-TCATAAATCACATTTT-TGCCTC
1 GAACTTTCT-AAAAATTACATTTTAACCCTC
* ** *
29847327 G-AGTACCCAAAAATTACCATTTTAACCC-C
1 GAACTTTCTAAAAATTA-CATTTTAACCCTC
* * *
29847356 AAAC-TTCAAAAAATTCCATTTTTAA-CC-C
1 GAACTTTCTAAAAATTACA-TTTTAACCCTC
*
29847384 -AAGCTTTCTAAAAATTGCCA-TTT-ACCCTC
1 GAA-CTTTCTAAAAATT-ACATTTTAACCCTC
*
29847413 GAAC-TTC-AAAACATTCCATTTTAACCC-C
1 GAACTTTCTAAAA-ATTACATTTTAACCCTC
*
29847441 AAACTTTCTAAAAATTACCATTTT-ACCCT-
1 GAACTTTCTAAAAATTA-CATTTTAACCCTC
* * * *
29847470 TAAATATCTAAAAATTACATTTTGA-CCTC
1 GAACTTTCTAAAAATTACATTTTAACCCTC
* * * *
29847499 GAATTTTCCAAAAATCACCATTTT-ACTCTC
1 GAACTTTCTAAAAATTA-CATTTTAACCCTC
*
29847529 GAAC-TTCTTAAAATTACATTTTAACCCT-
1 GAACTTTCTAAAAATTACATTTTAACCCTC
* * *
29847557 AAACTTTCCAAAAATTCCATTTTTAACCC-C
1 GAACTTTCTAAAAATTACA-TTTTAACCCTC
*
29847587 GAACTTTCCAAAAA-TACCATTTT-ACCC-C
1 GAACTTTCTAAAAATTA-CATTTTAACCCTC
* *
29847615 -AAGTGTCTAAAAATTAC
1 GAACTTTCTAAAAATTAC
29847632 CGTTATACCT
Statistics
Matches: 326, Mismatches: 59, Indels: 75
0.71 0.13 0.16
Matches are distributed among these distances:
27 21 0.06
28 73 0.22
29 147 0.45
30 85 0.26
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.34
Consensus pattern (30 bp):
GAACTTTCTAAAAATTACATTTTAACCCTC
Found at i:29847419 original size:57 final size:57
Alignment explanation
Indices: 29847335--29847666 Score: 291
Period size: 58 Copynumber: 5.8 Consensus size: 57
29847325 TCGAGTACCC
* * *
29847335 AAAAATTACCATTTTAACCC-CAAACTTCAAAAAATTCCATTTTTAACCCAAGCTTTCT
1 AAAAATTACCATTTT-ACCCTCGAACTTCTAAAAATTCCA-TTTTAACCCAAACTTTCT
*
29847393 AAAAATTGCCA-TTTACCCTCGAACTTC-AAAACATTCCATTTTAACCCCAAACTTTCT
1 AAAAATTACCATTTTACCCTCGAACTTCTAAAA-ATTCCATTTTAA-CCCAAACTTTCT
* * * * * * *
29847450 AAAAATTACCATTTTACCCT-TAAATATCTAAAAATTACATTTTGACCTCGAATTTTCC
1 AAAAATTACCATTTTACCCTCGAACT-TCTAAAAATTCCATTTTAACC-CAAACTTTCT
* * * * *
29847508 AAAAATCACCATTTTACTCTCGAACTTCTTAAAATTACATTTTAACCCTAAACTTTCC
1 AAAAATTACCATTTTACCCTCGAACTTCTAAAAATTCCATTTTAACCC-AAACTTTCT
* * * * *
29847566 AAAAATT-CCATTTTTAACCC-CGAACTTTCCAAAAATACCATTTT-ACCCCAAGTGTCT
1 AAAAATTACCA-TTTT-ACCCTCGAAC-TTCTAAAAATTCCATTTTAACCCAAACTTTCT
* * * *
29847623 AAAAATTACCGTTATACCTTCGAACCTCTAAAAATTGCCATTTT
1 AAAAATTACCATTTTACCCTCGAACTTCTAAAAATT-CCATTTT
29847667 TCTCCCGGGC
Statistics
Matches: 224, Mismatches: 35, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
56 25 0.11
57 73 0.33
58 102 0.46
59 24 0.11
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.34
Consensus pattern (57 bp):
AAAAATTACCATTTTACCCTCGAACTTCTAAAAATTCCATTTTAACCCAAACTTTCT
Found at i:29849469 original size:14 final size:14
Alignment explanation
Indices: 29849450--29849487 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
29849440 AAAAAGTAAG
29849450 TCATTTT-CTAGAAA
1 TCATTTTAC-AGAAA
*
29849464 TCATTTTACGGAAA
1 TCATTTTACAGAAA
29849478 TCATTTTACA
1 TCATTTTACA
29849488 TGCAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (14 bp):
TCATTTTACAGAAA
Found at i:29851225 original size:17 final size:17
Alignment explanation
Indices: 29851203--29851237 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
29851193 GTTAAATTCC
29851203 ACTAAACAAGTTAAGTT
1 ACTAAACAAGTTAAGTT
29851220 ACTAAACAAGTTAAGTT
1 ACTAAACAAGTTAAGTT
29851237 A
1 A
29851238 TATTTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (17 bp):
ACTAAACAAGTTAAGTT
Found at i:29854090 original size:12 final size:12
Alignment explanation
Indices: 29854073--29854103 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
29854063 TGTGGTTTTC
29854073 TAGAAATGGAAA
1 TAGAAATGGAAA
29854085 TAGAAATGGAAA
1 TAGAAATGGAAA
29854097 TGAGAAA
1 T-AGAAA
29854104 CGAATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (12 bp):
TAGAAATGGAAA
Found at i:29865917 original size:88 final size:88
Alignment explanation
Indices: 29865805--29865978 Score: 215
Period size: 88 Copynumber: 2.0 Consensus size: 88
29865795 TGCAATGAAT
* *
29865805 ATCCATAACCCAAATTCTAAACTAAAATATAATTAAATATATTAAAAACTAAAAAATAAATATTA
1 ATCCATAACCAAAATTCTAAACTAAAATATAATAAAATATATTAAAAACTAAAAAATAAATATTA
*
29865870 GGGCTATAAATAAAATAAATCTG
66 GGGCTAAAAATAAAATAAATCTG
* * * * * ** ** *
29865893 ATCCATAACCAAAATT-TCGAACTAATATTTAATAAAATCTGTTAAACCCTAAAATCTAAATCTT
1 ATCCATAACCAAAATTCT-AAACTAAAATATAATAAAATATATTAAAAACTAAAAAATAAATATT
29865957 AGGGCTAAAAATAAAATAAATC
65 AGGGCTAAAAATAAAATAAATC
29865979 CAATTCAAGA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 1 0.01
88 71 0.99
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (88 bp):
ATCCATAACCAAAATTCTAAACTAAAATATAATAAAATATATTAAAAACTAAAAAATAAATATTA
GGGCTAAAAATAAAATAAATCTG
Found at i:29876600 original size:21 final size:20
Alignment explanation
Indices: 29876563--29876601 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29876553 ATGGGAGTGG
* *
29876563 AGTAAAAGTTTTGGGGGAAA
1 AGTAAAAATTTTAGGGGAAA
29876583 AGTAAAAATGTTTAGGGGA
1 AGTAAAAAT-TTTAGGGGA
29876602 TTGGGGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (20 bp):
AGTAAAAATTTTAGGGGAAA
Found at i:29877908 original size:33 final size:33
Alignment explanation
Indices: 29877871--29877943 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
29877861 CTCAAGAAAC
*
29877871 GTTCCAAGCAATT-ATAAAACTGCC-TCGATAGAT
1 GTTCCAA-CAATTGATAAAACTGCCAT-AATAGAT
* *
29877904 GTTCCAACCATTGATAAAACTTCCATAATAGAT
1 GTTCCAACAATTGATAAAACTGCCATAATAGAT
29877937 GTTCCAA
1 GTTCCAA
29877944 TCACTTATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 4 0.11
33 30 0.86
34 1 0.03
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (33 bp):
GTTCCAACAATTGATAAAACTGCCATAATAGAT
Found at i:29882754 original size:21 final size:21
Alignment explanation
Indices: 29882721--29882761 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29882711 TCATGTTCTT
*
29882721 GGTTTTAGGGTTTGAGGTTTG
1 GGTTTTAAGGTTTGAGGTTTG
* *
29882742 GGTTTTAATGTTTGGGGTTT
1 GGTTTTAAGGTTTGAGGTTT
29882762 AGGATTATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (21 bp):
GGTTTTAAGGTTTGAGGTTTG
Found at i:29883139 original size:42 final size:41
Alignment explanation
Indices: 29883053--29883157 Score: 140
Period size: 42 Copynumber: 2.6 Consensus size: 41
29883043 AGGTTTTCTG
* *
29883053 ATTCTTTCTTATTTTAAATATA-TTTTAGGTAAATTTTCTT
1 ATTCTTTCCTATTTTAAATATATTTTTAGGTAAATTTTATT
* *
29883093 ATTCTTTCCTATTTTAAATATATTTTTTTGGTAAGTTTTATT
1 ATTCTTTCCTATTTTAAATATA-TTTTTAGGTAAATTTTATT
* *
29883135 ATTCTTCCCTATTTTAAGTATAT
1 ATTCTTTCCTATTTTAAATATAT
29883158 ACCAATGTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 21 0.37
41 1 0.02
42 35 0.61
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.59
Consensus pattern (41 bp):
ATTCTTTCCTATTTTAAATATATTTTTAGGTAAATTTTATT
Found at i:29886999 original size:33 final size:33
Alignment explanation
Indices: 29886957--29887019 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
29886947 CAAATAGAAT
29886957 GATGAAGTTGCACCGATAAATGTTCCAATCAAA
1 GATGAAGTTGCACCGATAAATGTTCCAATCAAA
* *
29886990 GATGAAGTTGCCCCGATAAATGTTTCAATC
1 GATGAAGTTGCACCGATAAATGTTCCAATC
29887020 CTTGATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (33 bp):
GATGAAGTTGCACCGATAAATGTTCCAATCAAA
Found at i:29887027 original size:33 final size:33
Alignment explanation
Indices: 29886954--29887029 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
29886944 AATCAAATAG
29886954 AATGATGAAGTTGCACCGATAAATGTTCCAATC
1 AATGATGAAGTTGCACCGATAAATGTTCCAATC
* * *
29886987 AAAGATGAAGTTGCCCCGATAAATGTTTCAATC
1 AATGATGAAGTTGCACCGATAAATGTTCCAATC
**
29887020 CTTGATGAAG
1 AATGATGAAG
29887030 CTTCCTTGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (33 bp):
AATGATGAAGTTGCACCGATAAATGTTCCAATC
Found at i:29889501 original size:22 final size:22
Alignment explanation
Indices: 29889453--29889493 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29889443 TTAAATTTAG
29889453 GTTTTAGTTTATTTCTTTCTTA
1 GTTTTAGTTTATTTCTTTCTTA
29889475 GTTTTAGTTT-TTT-TTTCTT
1 GTTTTAGTTTATTTCTTTCTT
29889494 TTGTTTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (22 bp):
GTTTTAGTTTATTTCTTTCTTA
Found at i:29890677 original size:29 final size:29
Alignment explanation
Indices: 29890643--29890703 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
29890633 TCCACCTTGA
* *
29890643 CACGAATTCTCAACTAACAAGTTC-CTCAC
1 CACGAACTCTCAACGAACAAGTTCTC-CAC
29890672 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
29890701 CAC
1 CAC
29890704 TTCCATGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.34, C:0.38, G:0.08, T:0.20
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:29894021 original size:19 final size:19
Alignment explanation
Indices: 29893999--29894043 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29893989 TTATATTAGG
29893999 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
29894018 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
29894037 ATTTAAT
1 ATTTAAT
29894044 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:29898618 original size:105 final size:102
Alignment explanation
Indices: 29898452--29898643 Score: 242
Period size: 105 Copynumber: 1.9 Consensus size: 102
29898442 TGTTAGATTA
* * *
29898452 AGTAATCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAACACATTC-TAC
1 AGTAATCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAACACATTCTTA-
29898516 AAAAAAAAAGAGAAGAAAAAAATTGAGAGCATGTTGGGCTG
65 AAAAAAAAA-A-AAG-AAAAAATTGAGAGCATGTTGGGCTG
* * * * ***
29898557 AGTAATTGGGATGGAGTGCTTGGGTGTCATTTCATTTCGCTTCAAAAGGTCCAATGTATTCTTAA
1 AGTAATCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAACACATTCTTAA
*
29898622 AGAAAAAAAAAGAAAAAATTGA
66 AAAAAAAAAAAGAAAAAATTGA
29898644 CAAAATAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
102 10 0.13
103 3 0.04
104 1 0.01
105 59 0.79
106 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (102 bp):
AGTAATCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAACACATTCTTAA
AAAAAAAAAAAGAAAAAATTGAGAGCATGTTGGGCTG
Found at i:29899227 original size:19 final size:19
Alignment explanation
Indices: 29899205--29899249 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29899195 TTATATTAGG
29899205 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
29899224 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
29899243 ATTTAAT
1 ATTTAAT
29899250 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:29910189 original size:30 final size:29
Alignment explanation
Indices: 29910128--29910384 Score: 212
Period size: 30 Copynumber: 8.6 Consensus size: 29
29910118 AAAAATGAAA
* *
29910128 TTTTGGAAAGTTTGGGGG-CTAAATTTGAAT
1 TTTTGG-AAGTTTGGGGGTC-AAATCTAAAT
29910158 TTTTAGGAAGTTTGGGGGTCAAATCTAAATT
1 TTTT-GGAAGTTTGGGGGTCAAATCTAAA-T
* * * * *
29910189 TTTTGAAAATTTGAGGGTCAAATCCAGAT
1 TTTTGGAAGTTTGGGGGTCAAATCTAAAT
* * *
29910218 TTTTAGAAAGTTTGAGGGTCAAATCCAAAT
1 TTTT-GGAAGTTTGGGGGTCAAATCTAAAT
* * *
29910248 TTTTGGGAAGTTTGAGGGTCAAATTTTAAT
1 TTTT-GGAAGTTTGGGGGTCAAATCTAAAT
* *
29910278 TTTTGGGAAGTTCGGAGGTCAAATCTAAAT
1 TTTT-GGAAGTTTGGGGGTCAAATCTAAAT
* *
29910308 TTTTGGAAGTTTTAGGGGTTAAATCTAAAT
1 TTTTGGAAG-TTTGGGGGTCAAATCTAAAT
** * *
29910338 TTTTGGAAAGTTAAGGGGCCAAAAC-ATAAT
1 TTTTGG-AAGTTTGGGGGTCAAATCTA-AAT
29910368 TTTTGGATAGTTTGGGG
1 TTTTGGA-AGTTTGGGG
29910385 ATTGAAATGC
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
29 12 0.06
30 167 0.88
31 11 0.06
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (29 bp):
TTTTGGAAGTTTGGGGGTCAAATCTAAAT
Found at i:29912099 original size:85 final size:85
Alignment explanation
Indices: 29911954--29912121 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 85
29911944 TTGCTTCATT
* * * **
29911954 GATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCATTGATTTAATCCACTTTTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATAACCGCCTCATTGATTTAACCCACTCCTT
*
29912019 TGTATCTCATTAGGAAGACG
66 TGTATCTCATCAGGAAGACG
* * * * *
29912039 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATAACCTCTTTATTGCTTTGACCCACTCCTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATAACCGCCTCATTGATTTAACCCACTCCTT
29912104 TGTATCTCATCAGGAAGA
66 TGTATCTCATCAGGAAGA
29912122 TGGAGGTTTG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATAACCGCCTCATTGATTTAACCCACTCCTT
TGTATCTCATCAGGAAGACG
Found at i:29912291 original size:209 final size:208
Alignment explanation
Indices: 29911927--29912394 Score: 724
Period size: 209 Copynumber: 2.2 Consensus size: 208
29911917 CCATTGATGC
* * *
29911927 TTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGA
1 TTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATAA
* * * * *
29911992 CCGCCTCATTGATTTAATCCACTTTTTTGTATCTCATTAGGAAGACGGATTTGGTCTACTTCTCT
66 CCGCCTCATTAATTTAATCCACTTCTTTATATCTCATCAGGAAGACGAATTTGGTCTACTTCTCT
* *
29912057 GTATCTCATCAGGAAGATAACCTCTTTATTGCTTTGACCCACTCCTTTGTATCTCATCAGGAAGA
131 GTATCTCATCAAGAAGATAACCTCTTTATTGCTTTGACCCACTCCTCTGTATCTCATCAGGAAGA
29912122 TGGAGGTTTGAAGT
196 TGGAGGTTT-AAGT
29912136 TTCACTCACATCT-AGCTTTGCTTCATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATA
1 TTCACTCACAT-TGAGCTTTGCTTCATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATA
29912200 ACCGCCTCATTAATTTAATCCACTTCTTTATATCTCATCAGGAAGACGAATTTGGTCTACTTCTC
65 ACCGCCTCATTAATTTAATCCACTTCTTTATATCTCATCAGGAAGACGAATTTGGTCTACTTCTC
* * * * *
29912265 TGTATCTTATCAAGAAGATGACCTCTTTATTGTTTTGACTCACTTCTCTGTATCTCATCAGGAAG
130 TGTATCTCATCAAGAAGATAACCTCTTTATTGCTTTGACCCACTCCTCTGTATCTCATCAGGAAG
*
29912330 ATGGGGGTTTAAGT
195 ATGGAGGTTTAAGT
* * *
29912344 TTCACTCACATTGAGCTTTCCTTTATTGATTT-GACATACTTCTTTGTATCT
1 TTCACTCACATTGAGCTTTGCTTCATTGATTTGGTC-TACTTCTTTGTATCT
29912395 TATTAAGAAG
Statistics
Matches: 237, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
207 3 0.01
208 47 0.20
209 186 0.78
210 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (208 bp):
TTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATAA
CCGCCTCATTAATTTAATCCACTTCTTTATATCTCATCAGGAAGACGAATTTGGTCTACTTCTCT
GTATCTCATCAAGAAGATAACCTCTTTATTGCTTTGACCCACTCCTCTGTATCTCATCAGGAAGA
TGGAGGTTTAAGT
Found at i:29912309 original size:85 final size:85
Alignment explanation
Indices: 29912164--29912330 Score: 210
Period size: 85 Copynumber: 2.0 Consensus size: 85
29912154 TGCTTCATTG
* * *
29912164 ATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATAACCGCCTCATTAATTTAATCCACTTCTTT
1 ATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCATTAATTTAATCCACTTCTCT
29912229 ATATCTCATCAGGAAGACGA
66 ATATCTCATCAGGAAGACGA
* * * * * ** *
29912249 ATTTGGTCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGTTTTGA-CTCACTTCTC
1 ATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCATTAATTTAATC-CACTTCTC
*
29912313 TGTATCTCATCAGGAAGA
65 TATATCTCATCAGGAAGA
29912331 TGGGGGTTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
84 1 0.01
85 68 0.99
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCATTAATTTAATCCACTTCTCT
ATATCTCATCAGGAAGACGA
Found at i:29912538 original size:48 final size:48
Alignment explanation
Indices: 29912486--29912577 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
29912476 TATTGAGGTT
*
29912486 CGCTTCATTAATTT-GGCCTACTTCTCTATATCTCATCAGGAAGATGAC
1 CGCTTCATTAATTTAAGCC-ACTTCTCTATATCTCATCAGGAAGATGAC
* * *
29912534 CGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGA
1 CGCTTCATTAATTTAAGCCACTTCTCTATATCTCATCAGGAAGA
29912578 CGAATTTGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 37 0.95
49 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (48 bp):
CGCTTCATTAATTTAAGCCACTTCTCTATATCTCATCAGGAAGATGAC
Found at i:29912558 original size:124 final size:122
Alignment explanation
Indices: 29912248--29912577 Score: 410
Period size: 124 Copynumber: 2.7 Consensus size: 122
29912238 CAGGAAGACG
* *
29912248 AATTTGGTCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGTTTTGACTCACTTCTC
1 AATTTGGCCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGATTTGAC-CACTTCTC
* *
29912313 TGTATCTCATCAGGAAGATGGGGGTTTAAGTTTCACTCACATTGAGCTTTCCTTTATT
65 TGTATCTCATCAGGAAGATGGGGGTTTAAGTTTCACTCACATTGAGCGTTCCTTCATT
* * * * * * ** *
29912371 GATTTGACATACTTCTTTGTATCTTATTAAGAAGATTACCTCTTTATTCCTTTGACCTTCTTCTC
1 AATTTGGCCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGATTTGACC-ACTTCTC
* * *
29912436 TATATCTCATTAGGAAGATGGGGGTTTGAAGTTTCACTCATATTGAG-GTTCGCTTCATT
65 TGTATCTCATCAGGAAGATGGGGGTTT-AAGTTTCACTCACATTGAGCGTTC-CTTCATT
* * * * * *
29912495 AATTTGGCCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTC
1 AATTTGGCCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGATTTGA-CCACTTCTC
29912560 TGTATCTCATCAGGAAGA
65 TGTATCTCATCAGGAAGA
29912578 CGAATTTGGT
Statistics
Matches: 171, Mismatches: 32, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
122 1 0.01
123 81 0.47
124 87 0.51
125 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (122 bp):
AATTTGGCCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGATTTGACCACTTCTCT
GTATCTCATCAGGAAGATGGGGGTTTAAGTTTCACTCACATTGAGCGTTCCTTCATT
Found at i:29912706 original size:332 final size:332
Alignment explanation
Indices: 29912048--29912784 Score: 921
Period size: 332 Copynumber: 2.2 Consensus size: 332
29912038 GGATTTGGTC
* * * *
29912048 TACTTCTCTGTATCTCATCAGGAAGATAACCTCTTTATTGCTTTGACCCACTCCTTTGTATCTCA
1 TACTTCTCTGTATCTCATCAAGAAGATAACCTCTTTATTCCTTTGACCCACTCCTCTATATCTCA
* * *
29912113 TCAGGAAGATGGAGGTTTGAAGTTTCACTCACATCTAGCTTTGCTTCATTGATTTGGTCTACTTC
66 TCAGGAAGATGGAGGTTTGAAGTTTCACTCACATCTAGCTTCGCTTCATTAATTTGGCCTACTTC
* * *
29912178 TTTGTATCTCATCAGGAAGATAACCGCCTCATTAATTTAATCCACTTCTTTATATCTCATCAGGA
131 TCTATATCTCATCAGGAAGATAACCGCCTCATTAATTTAATCCACTTCTCTATATCTCATCAGGA
* * *
29912243 AGACGAATTTGGTCTACTTCTCTGTATCTTATCAAGAAGATGACCTCTTTATTGTTTTGACTCAC
196 AGACGAATTTGGTCAACTTCTCTGTATCTTATCAAGAAAATGAACTCTTTATTGTTTTGACTCAC
* * *
29912308 TTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAGTTTCACTCACATTGAGCTTTCCTTTATTGA
261 TTCTCTGTATCTCATCAGGAAGATAGAGGTTTAAGTTTCACTCACATTGAGCTTTCCTTCATTGA
29912373 TTTGACA
326 TTTGACA
* * * * ** *
29912380 TACTTCTTTGTATCTTATTAAGAAGATTACCTCTTTATTCCTTTGACCTTCTTCTCTATATCTCA
1 TACTTCTCTGTATCTCATCAAGAAGATAACCTCTTTATTCCTTTGACCCACTCCTCTATATCTCA
* * * *
29912445 TTAGGAAGATGGGGGTTTGAAGTTTCACTCATAT-TGAGGTTCGCTTCATTAATTTGGCCTACTT
66 TCAGGAAGATGGAGGTTTGAAGTTTCACTCACATCT-AGCTTCGCTTCATTAATTTGGCCTACTT
* * * *
29912509 CTCTATATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGG
130 CTCTATATCTCATCAGGAAGATAACCGCCTCATTAATTTAATCCACTTCTCTATATCTCATCAGG
*
29912574 AAGACGAATTTGGTCAACTTCTCTGTATCTTAT-TAGAAAAT-AACTGCTTTATT-TCTTTGAC-
195 AAGACGAATTTGGTCAACTTCTCTGTATCTTATCAAGAAAATGAACT-CTTTATTGT-TTTGACT
** * *
29912635 CTACTTCTCTGTATCTCATCAGGAAGATAGAGGTTTGAAGTTTTGCTCATATTG-GACTTTGCTT
258 C-ACTTCTCTGTATCTCATCAGGAAGATAGAGGTTT-AAGTTTCACTCACATTGAG-CTTTCCTT
*
29912699 CATTGATTTGGTC-
320 CATTGATTT-GACA
* * * * * ** * * * *
29912712 TACTCCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
1 TACTTCTCTGTATCTCATCAAGAAGATAACCTCTTTATTCCTTTGACCCACTCCTCTATATCTCA
*
29912777 TCAAGAAG
66 TCAGGAAG
29912785 GAGGATTTGG
Statistics
Matches: 344, Mismatches: 54, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
330 5 0.01
331 53 0.15
332 284 0.83
333 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (332 bp):
TACTTCTCTGTATCTCATCAAGAAGATAACCTCTTTATTCCTTTGACCCACTCCTCTATATCTCA
TCAGGAAGATGGAGGTTTGAAGTTTCACTCACATCTAGCTTCGCTTCATTAATTTGGCCTACTTC
TCTATATCTCATCAGGAAGATAACCGCCTCATTAATTTAATCCACTTCTCTATATCTCATCAGGA
AGACGAATTTGGTCAACTTCTCTGTATCTTATCAAGAAAATGAACTCTTTATTGTTTTGACTCAC
TTCTCTGTATCTCATCAGGAAGATAGAGGTTTAAGTTTCACTCACATTGAGCTTTCCTTCATTGA
TTTGACA
Found at i:29912751 original size:48 final size:47
Alignment explanation
Indices: 29912695--29912872 Score: 155
Period size: 48 Copynumber: 4.0 Consensus size: 47
29912685 ATTGGACTTT
* * *
29912695 GCTTCATTGATTTGGTCTACTCCTCTGTATCTCATCAGGAAGATGACC
1 GCTTCATTGATTTGATCTACTTCTCTGTATCTCATCAAGAAGATGA-C
* *
29912743 GCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAG--GA-
1 GCTTCATTGATTTGATCTACTTCTCTGTATCTCATCAAGAAGATGAC
*
29912787 G-------GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAC
1 GCTTCATTGATTTGATCTACTTCTCTGTATCTCATCAAGAAGATGAC
* * *
29912827 TGCTTTATT-ACTTTGACCAACTTCTCTGTATCTCATC-AGAAAGATG
1 -GCTTCATTGA-TTTGATCTACTTCTCTGTATCTCATCAAG-AAGATG
29912873 GGGGTTTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
37 31 0.29
39 2 0.02
41 1 0.01
44 1 0.01
46 2 0.02
47 3 0.03
48 66 0.62
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (47 bp):
GCTTCATTGATTTGATCTACTTCTCTGTATCTCATCAAGAAGATGAC
Found at i:29912850 original size:85 final size:85
Alignment explanation
Indices: 29912703--29912864 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 85
29912693 TTGCTTCATT
*
29912703 GATTTGGTCTACTCCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCTACTCCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTC
29912768 TGTATCTCATCAAGAAGGAG
66 TGTATCTCATCAAGAAGGAG
* * * *
29912788 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATT-ACTTTGA-CCAACTTC
1 GATTTGGTCTACTCCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGA-TTTAATCC-ACTTC
29912851 TCTGTATCTCATCA
64 TCTGTATCTCATCA
29912865 GAAAGATGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
84 3 0.04
85 67 0.96
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (85 bp):
GATTTGGTCTACTCCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTC
TGTATCTCATCAAGAAGGAG
Found at i:29912958 original size:209 final size:207
Alignment explanation
Indices: 29912380--29912958 Score: 750
Period size: 208 Copynumber: 2.8 Consensus size: 207
29912370 TGATTTGACA
* * * * *
29912380 TACTTCTTTGTATCTTATTAAGAAGATTACCT-CTTTATTCCTTTGACCTTCTTCTCTATATCTC
1 TACTTCTCTGTATCTTA-TAAGAAGA-TAACTGCTTTATTACTTTGACCTACTTCTCTGTATCTC
* * * * *
29912444 ATTAGGAAGATGGGGGTTTGAAGTTTCACTCATATTGAGG-TTCGCTTCATTAATTTGGCCTACT
64 ATCAGGAAGATGGGGGTTTGAAGTTTTACTCATATTG-GGCTTTGCTTCATTGATTTGTCC-ACT
*
29912508 TCTCTATATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAG
127 TCTCTATATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAA
29912573 GAAGACGAATTTGGTC
192 GAAGACGAATTTGGTC
* * * *
29912589 AACTTCTCTGTATCTTATTAGAAAATAACTGCTTTATTTCTTTGACCTACTTCTCTGTATCTCAT
1 TACTTCTCTGTATCTTATAAGAAGATAACTGCTTTATTACTTTGACCTACTTCTCTGTATCTCAT
* * * * * *
29912654 CAGGAAGATAGAGGTTTGAAGTTTTGCTCATATTGGACTTTGCTTCATTGATTTGGTCTACTCCT
66 CAGGAAGATGGGGGTTTGAAGTTTTACTCATATTGGGCTTTGCTTCATTGATTT-GTCCACTTCT
*
29912719 CTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAA
130 CTATATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAA
*
29912784 GGA-GGATTTGGTC
195 -GACGAATTTGGTC
* * *
29912797 TACTTCTCTGTATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCAACTTCTCTGTATCTCA
1 TACTTCTCTGTATCTTAT-AAGAAGATAACTGCTTTATTACTTTGACCTACTTCTCTGTATCTCA
* * * * * *
29912862 TCAGAAAGATGGGGGTTTGAAGTTTTTCTCACATTGGGCTTTACTTTATTGATTTAATCCACTTC
65 TCAGGAAGATGGGGGTTTGAAGTTTTACTCATATTGGGCTTTGCTTCATTGATTT-GTCCACTTC
* * *
29912927 TCTATCTCTCATCAAGAAGGTGACCGCTTCAT
129 TCTATATCTCATCAGGAAGATGACCGCTTCAT
29912959 CATTTTGACG
Statistics
Matches: 320, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
207 5 0.02
208 174 0.54
209 141 0.44
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (207 bp):
TACTTCTCTGTATCTTATAAGAAGATAACTGCTTTATTACTTTGACCTACTTCTCTGTATCTCAT
CAGGAAGATGGGGGTTTGAAGTTTTACTCATATTGGGCTTTGCTTCATTGATTTGTCCACTTCTC
TATATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAG
ACGAATTTGGTC
Found at i:29913481 original size:198 final size:198
Alignment explanation
Indices: 29913169--29913665 Score: 510
Period size: 198 Copynumber: 2.5 Consensus size: 198
29913159 GCCTCAATCT
* * * * ** **
29913169 TTCCCTTCATATCTTCATGGTATCGGATTCGTCGTCGCGGCCTCAATATTTCCCATTGCATCTTC
1 TTCCCTTCATATCTTCATGGTATTGGATTCGCCGTTGCGGCATCAATCCTTCCCATCACATCTTC
* * * * * *
29913234 TAAGGTACTGGGTTTGCCATTGCAACCTTAACCTTTTCCTTCATATCTTCATGGTACCGGATTCG
66 TAAGGTACCGAGTTCGCCATTGCAACCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTCG
* * * * * * * * * * * *
29913299 CAGTTATGGCTTCAATCCTTCCTATCACATTTTTTAAGGTACCGGGTTTGTTGTTGC-GGCATTA
131 CAGTTACGGCCTAAATCCTTCCCATCACATCTTCTAACGTACCAGGTTCGCTATTGCAGGC-TCA
29913363 ACCA
195 ACCA
* * *
29913367 TTCCCTTCATCTCTTCATGGTATTGGATACACCGTTGCGGCATCAATCCTTCCCATCACATCTTC
1 TTCCCTTCATATCTTCATGGTATTGGATTCGCCGTTGCGGCATCAATCCTTCCCATCACATCTTC
* * ** *
29913432 TAAGGTACCGAGTTCGCTATTGTAGTCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTTG
66 TAAGGTACCGAGTTCGCCATTGCAACCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTCG
** * *
29913497 TTGTTACGGCCTAAATCCTTCCCATCACATCTTCTAACGTATCAGGTTCGCTATTGCAGTCTCAA
131 CAGTTACGGCCTAAATCCTTCCCATCACATCTTCTAACGTACCAGGTTCGCTATTGCAGGCTCAA
*
29913562 CCT
196 CCA
* * * * * * *
29913565 TTCCCTTCATATTTTCATGGTACTGAATTCGCCATTGCGGCTTAAATCCTTCCCATCACATCTTA
1 TTCCCTTCATATCTTCATGGTATTGGATTCGCCGTTGCGGCATCAATCCTTCCCATCACATCTTC
* * * * * *
29913630 TAAGGTATCTAGTTCGTCGTTGCGACCTTAACCTTT
66 TAAGGTACCGAGTTCGCCATTGCAACCTCAACCTTT
29913666 CCCATCACAT
Statistics
Matches: 239, Mismatches: 59, Indels: 2
0.80 0.20 0.01
Matches are distributed among these distances:
198 237 0.99
199 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.37
Consensus pattern (198 bp):
TTCCCTTCATATCTTCATGGTATTGGATTCGCCGTTGCGGCATCAATCCTTCCCATCACATCTTC
TAAGGTACCGAGTTCGCCATTGCAACCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTCG
CAGTTACGGCCTAAATCCTTCCCATCACATCTTCTAACGTACCAGGTTCGCTATTGCAGGCTCAA
CCA
Found at i:29913645 original size:99 final size:99
Alignment explanation
Indices: 29913161--29913645 Score: 436
Period size: 99 Copynumber: 4.9 Consensus size: 99
29913151 CCATTACGGC
* * * **
29913161 CTCAATCTTTCCCTTCATATCTTCATGGTA-TCGGATTCGTCGTCGCGGCCTCAATATTTCCCAT
1 CTCAACCTTTCCCTTCATATCTTCATGGTACT-GGATTCGCCGTTGCGGCCTCAATCCTTCCCAT
** * * * * **
29913225 TGCATCTTCTAAGGTACTGGGTTTGCCATTGCAAC
65 CACATCTTCTAAGGTACCGAGTTCGCTATTGCAGT
* * * * ** * *
29913260 CTTAACCTTTTCCTTCATATCTTCATGGTACCGGATTCGCAGTTATGGCTTCAATCCTTCCTATC
1 CTCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTTGCGGCCTCAATCCTTCCCATC
* * * * * * *
29913325 ACATTTTTTAAGGTACCGGGTTTGTTGTTGC-GG
66 ACATCTTCTAAGGTACCGAGTTCGCTATTGCAGT
* * * * * * *
29913358 CATTAACCATTCCCTTCATCTCTTCATGGTATTGGATACACCGTTGCGGCATCAATCCTTCCCAT
1 C-TCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTTGCGGCCTCAATCCTTCCCAT
*
29913423 CACATCTTCTAAGGTACCGAGTTCGCTATTGTAGT
65 CACATCTTCTAAGGTACCGAGTTCGCTATTGCAGT
* ** * ** * *
29913458 CTCAACCTTTACCTTCATATCTTCATGGTACCAGATTTGTTGTTACGGCCTAAATCCTTCCCATC
1 CTCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTTGCGGCCTCAATCCTTCCCATC
* *
29913523 ACATCTTCTAACGTATC-AGGTTCGCTATTGCAGT
66 ACATCTTCTAAGGTACCGA-GTTCGCTATTGCAGT
* * * * *
29913557 CTCAACCTTTCCCTTCATATTTTCATGGTACTGAATTCGCCATTGCGGCTTAAATCCTTCCCATC
1 CTCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTTGCGGCCTCAATCCTTCCCATC
* * *
29913622 ACATCTTATAAGGTATCTAGTTCG
66 ACATCTTCTAAGGTACCGAGTTCG
29913646 TCGTTGCGAC
Statistics
Matches: 307, Mismatches: 74, Indels: 10
0.79 0.19 0.03
Matches are distributed among these distances:
98 2 0.01
99 302 0.98
100 3 0.01
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.37
Consensus pattern (99 bp):
CTCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTTGCGGCCTCAATCCTTCCCATC
ACATCTTCTAAGGTACCGAGTTCGCTATTGCAGT
Found at i:29913801 original size:99 final size:99
Alignment explanation
Indices: 29913678--29914269 Score: 627
Period size: 99 Copynumber: 6.0 Consensus size: 99
29913668 CATCACATCT
* * * *
29913678 TACAAGGCTCATCGTTGCAATCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTT
1 TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTT
29913743 ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
66 ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
* **
29913777 TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTATCAAATTCGCCGTT
1 TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTT
** * * *
29913842 GTGACCTCAATCTTTCCCATGACATCTTCTAAGG
66 ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
** * * * * * **
29913876 TACTGGGTTCGCTGTTACGGTCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTT
1 TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTT
*
29913941 GA-GGCCTAAATCCTTCCCATCACATCTTCTAAGG
66 -ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
* ** * * * *
29913975 TATC-GGGTTCACTATTGC-GATTTCAACCTTTTCCTTCATATCTTCATGGTACCAGATTC-AC-
1 TA-CAAGGTTCACCGTTGCAG-TCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCG
* * *
29914036 TTACGGCTTAAATCCTTCCTATCACATCTTCTAAGG
64 TTACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
** ** ** * *
29914072 TACTGGGTTCGTCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTT
1 TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTT
** * *
29914137 GTGGCCTCAATCTTTCCCATCATATCTTCTAAGG
66 ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
* * * ** * *
29914171 TACAAGGTTCACCGTTTCAGCCTCAACCTTTCCCTTTATATCTTCATGGTATTGGATTCGTCATT
1 TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTT
* * **
29914236 GCGACCTCAATATTTCCCATCACATCTTCTAAGG
66 ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
29914270 CATCAGCTTC
Statistics
Matches: 412, Mismatches: 73, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
96 2 0.00
97 77 0.19
98 3 0.01
99 329 0.80
100 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (99 bp):
TACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTT
ACGGCCTCAATCCTTCCCATCACATCTTCTAAGG
Found at i:29913806 original size:142 final size:142
Alignment explanation
Indices: 29913550--29913820 Score: 357
Period size: 142 Copynumber: 1.9 Consensus size: 142
29913540 AGGTTCGCTA
* * * * * *
29913550 TTGCAGTCTCAACCTTTCCCTTCATATTTTCATGGTACTGAATTCGCCATTGCGGCTTAAATCCT
1 TTGCAATCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCACCATTACGGCCTAAATCCT
* ** *
29913615 TCCCATCACATCTTATAAGGTATCTAGTTCGTCGTTGCGACCTTAACCTTTCCCATCACATCTTA
66 TCCCATCACATCTTATAAGGTATCAAGTTCACCGTTGCGACCTCAACCTTTCCCATCACATCTTA
29913680 CAAGGCTCATCG
131 CAAGGCTCATCG
* * *
29913692 TTGCAATCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCT
1 TTGCAATCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCACCATTACGGCCTAAATCCT
* * * *
29913757 TCCCATCACATCTTCTAAGGTA-CAAGGTTCACCGTTGC-AGTCTCAACCTTTCCCTTCATATCT
66 TCCCATCACATCTTATAAGGTATCAA-GTTCACCGTTGCGA-CCTCAACCTTTCCCATCACATCT
29913820 T
129 T
29913821 CATGGTATCA
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 3 0.03
142 107 0.97
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (142 bp):
TTGCAATCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCACCATTACGGCCTAAATCCT
TCCCATCACATCTTATAAGGTATCAAGTTCACCGTTGCGACCTCAACCTTTCCCATCACATCTTA
CAAGGCTCATCG
Found at i:29913906 original size:241 final size:241
Alignment explanation
Indices: 29913457--29913908 Score: 606
Period size: 241 Copynumber: 1.9 Consensus size: 241
29913447 GCTATTGTAG
****
29913457 TCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTTGTTGTTACGGCCTAAATCCTTCCCAT
1 TCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTCACCGTTACGGCCTAAATCCTTCCCAT
* * *
29913522 CACATCTTCTAACGTATCAGGTTCGCTATTGCAGTCTCAACCTTTCCCTTCATATTTTCATGGTA
66 CACATCTTCTAACGTATCAGGTTCACCATTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTA
* * * *
29913587 CTGAATTCGCCATTGCGGCTTAAATCCTTCCCATCACATCTTATAAGGTATCTAGTTCGTCGTTG
131 CTAAATTCGCCATTGCGACCTAAATCCTTCCCATCACATCTTATAAGGTATCTAGTTCGTCGTTA
*
29913652 CGACCTTAACCTTTCCCATCACATCTTACAAGGCTCATCGTTGCAA
196 CGACCTCAACCTTTCCCATCACATCTTACAAGGCTCATCGTTGCAA
* * *
29913698 TCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCTTCCCAT
1 TCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTCACCGTTACGGCCTAAATCCTTCCCAT
* *
29913763 CACATCTTCTAAGGTA-CAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGT
66 CACATCTTCTAACGTATC-AGGTTCACCATTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGT
* * * * * * *
29913827 A-TCAAATTCGCCGTTGTGACCTCAATCTTTCCCATGACATCTTCTAAGGTA-CTGGGTTCG-CT
130 ACT-AAATTCGCCATTGCGACCTAAATCCTTCCCATCACATCTTATAAGGTATCT-AGTTCGTC-
**
29913889 GTTACGGTCTCAACCTTTCC
192 GTTACGACCTCAACCTTTCC
29913909 TTTCATATCT
Statistics
Matches: 181, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
240 5 0.03
241 176 0.97
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.35
Consensus pattern (241 bp):
TCTCAACCTTTACCTTCATATCTTCATGGTACCAGATTCACCGTTACGGCCTAAATCCTTCCCAT
CACATCTTCTAACGTATCAGGTTCACCATTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTA
CTAAATTCGCCATTGCGACCTAAATCCTTCCCATCACATCTTATAAGGTATCTAGTTCGTCGTTA
CGACCTCAACCTTTCCCATCACATCTTACAAGGCTCATCGTTGCAA
Found at i:29914005 original size:340 final size:340
Alignment explanation
Indices: 29913362--29913994 Score: 831
Period size: 340 Copynumber: 1.9 Consensus size: 340
29913352 TTGCGGCATT
* ** *
29913362 AACCATTCCCTTCATCTCTTCATGGTATTGGATACACCGTTGCGGCATCAATCCTTCCCATCACA
1 AACCATTCCCTTCATATCTTCATGGTACCGGATACACCGTTACGGCATCAATCCTTCCCATCACA
* * * * *
29913427 TCTTCTAAGGTACCGAGTTCGCTATTGTAGTCTCAACCTTTACCTTCATATCTTCATGGTACCAG
66 TCTTCTAAGGTACAGAGTTCACCATTGCAGTCTCAACCTTTACCTTCATATCTTCATGGTACCAA
* ** * *
29913492 ATTTGTTGTTACGGCCTAAATCCTTCCCATCACATCTTCTAACGTATCAGGTTCGCTATTGCAGT
131 ATTCGCCGTTACGACCTAAATCCTTCCCATCACATCTTCTAACGTATCAGGTTCGCTATTACAGT
* * * *
29913557 CTCAACCTTTCCCTTCATATTTTCATGGTACTGAATTCGCCATTGCGGCTTAAATCCTTCCCATC
196 CTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGCCATTGAGGCCTAAATCCTTCCCATC
* * *
29913622 ACATCTTATAAGGTATCTAGTTCGTCGTTGCGACCTTAACCTTTCCCATCACATCTTACAAGGCT
261 ACATCTTATAAGGTATCGAGTTCCTCATTGCGACCTTAACCTTTCCCATCACATCTTACAAGGCT
29913687 CATCGTTGCAATCTC
326 CATCGTTGCAATCTC
* * *
29913702 AACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCTTCCCATCACA
1 AACCATTCCCTTCATATCTTCATGGTACCGGATACACCGTTACGGCATCAATCCTTCCCATCACA
* * *
29913767 TCTTCTAAGGTACA-AGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTATCA
66 TCTTCTAAGGTACAGA-GTTCACCATTGCAGTCTCAACCTTTACCTTCATATCTTCATGGTACCA
** * * * * * * *
29913831 AATTCGCCGTTGTGACCTCAATCTTTCCCATGACATCTTCTAAGGTA-CTGGGTTCGCTGTTACG
130 AATTCGCCGTTACGACCTAAATCCTTCCCATCACATCTTCTAACGTATC-AGGTTCGCTATTACA
* * ***
29913895 GTCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTTGAGGCCTAAATCCTTCCCA
194 GTCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGCCATTGAGGCCTAAATCCTTCCCA
* *
29913960 TCACATCTTCTAAGGTATCGGGTTCACT-ATTGCGA
259 TCACATCTTATAAGGTATCGAGTTC-CTCATTGCGA
29913995 TTTCAACCTT
Statistics
Matches: 247, Mismatches: 43, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
339 2 0.01
340 244 0.99
341 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (340 bp):
AACCATTCCCTTCATATCTTCATGGTACCGGATACACCGTTACGGCATCAATCCTTCCCATCACA
TCTTCTAAGGTACAGAGTTCACCATTGCAGTCTCAACCTTTACCTTCATATCTTCATGGTACCAA
ATTCGCCGTTACGACCTAAATCCTTCCCATCACATCTTCTAACGTATCAGGTTCGCTATTACAGT
CTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGCCATTGAGGCCTAAATCCTTCCCATC
ACATCTTATAAGGTATCGAGTTCCTCATTGCGACCTTAACCTTTCCCATCACATCTTACAAGGCT
CATCGTTGCAATCTC
Found at i:29914199 original size:196 final size:198
Alignment explanation
Indices: 29913699--29914269 Score: 695
Period size: 196 Copynumber: 2.9 Consensus size: 198
29913689 TCGTTGCAAT
*
29913699 CTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTT-ACGGCCTCAATCCTTCCCAT
1 CTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGA-GGCCTCAATCCTTCCCAT
29913763 CACATCTTCTAAGGTACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTA
65 CACATCTTCTAAGGTACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTA
* * ** * * *
29913828 TCAAATTCGCCGTTGTGACCTCAATCTTTCCCATGACATCTTCTAAGGTACTGGGTTCGCTGTTA
130 CCAAATTCGACGTTACGACCTAAATCCTTCCCATCACATCTTCTAAGGTACTGGGTTCGCTGTTA
*
29913893 CGGT
195 CGGC
* ** *
29913897 CTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTTGAGGCCTAAATCCTTCCCATC
1 CTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGAGGCCTCAATCCTTCCCATC
* ** * *
29913962 ACATCTTCTAAGGTATC-GGGTTCACTATTGC-GATTTCAACCTTTTCCTTCATATCTTCATGGT
66 ACATCTTCTAAGGTA-CAAGGTTCACCGTTGCAG-TCTCAACCTTTCCCTTCATATCTTCATGGT
* * * *
29914025 ACCAGATTC-AC-TTACGGCTTAAATCCTTCCTATCACATCTTCTAAGGTACTGGGTTCG-TCGT
129 ACCAAATTCGACGTTACGACCTAAATCCTTCCCATCACATCTTCTAAGGTACTGGGTTCGCT-GT
**
29914087 TGTGGC
193 TACGGC
* * *
29914093 CTCAACCTTTCCCTTCATATCTTCATGGTACTGGATTCGCCGTTGTGGCCTCAATCTTTCCCATC
1 CTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGAGGCCTCAATCCTTCCCATC
* * * * *
29914158 ATATCTTCTAAGGTACAAGGTTCACCGTTTCAGCCTCAACCTTTCCCTTTATATCTTCATGGTAT
66 ACATCTTCTAAGGTACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTAC
*** * * * * **
29914223 TGGATTCGTCATTGCGACCTCAATATTTCCCATCACATCTTCTAAGG
131 CAAATTCGACGTTACGACCTAAATCCTTCCCATCACATCTTCTAAGG
29914270 CATCAGCTTC
Statistics
Matches: 314, Mismatches: 51, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
195 2 0.01
196 158 0.50
197 4 0.01
198 148 0.47
199 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (198 bp):
CTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGAGGCCTCAATCCTTCCCATC
ACATCTTCTAAGGTACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTAC
CAAATTCGACGTTACGACCTAAATCCTTCCCATCACATCTTCTAAGGTACTGGGTTCGCTGTTAC
GGC
Found at i:29914255 original size:295 final size:297
Alignment explanation
Indices: 29913700--29914269 Score: 797
Period size: 295 Copynumber: 1.9 Consensus size: 297
29913690 CGTTGCAATC
* *
29913700 TCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCTTCCCATCA
1 TCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCGTTACGGCCTAAATCCTTCCCATCA
*
29913765 CATCTTCTAAGGTACAAGGTTCACCGTTGCAGTCTCAACCTTTCCCTTCATATCTTCATGGTATC
66 CATCTTCTAAGGTACAAGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
* ** * * *
29913830 AAATTCGCCGTTGTGACCTCAATCTTTCCCATGACATCTTCTAAGGTACTGGGTTCGCTGTTACG
131 AAATTCGCCGTTGTGACCTCAATCTTTCCCATCACATCTTCTAAGGTACAAGGTTCACCGTTACA
* ** * *
29913895 GTCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTTGAGGCCTAAATCCTTCCCA
196 GCCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTCATTGAGACCTAAATACTTCCCA
29913960 TCACATCTTCTAAGGTATCGGGTTCACTATTGCGATT
261 TCACATCTTCTAAGGTATCGGGTTCACTATTGCGATT
* * *
29913997 TCAACCTTTTCCTTCATATCTTCATGGTACCAGATTCA-C-TTACGGCTTAAATCCTTCCTATCA
1 TCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCGTTACGGCCTAAATCCTTCCCATCA
** ** **
29914060 CATCTTCTAAGGTACTGGGTTCGTCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTA-C
66 CATCTTCTAAGGTACAAGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
** * * *
29914124 TGGATTCGCCGTTGTGGCCTCAATCTTTCCCATCATATCTTCTAAGGTACAAGGTTCACCGTTTC
131 -AAATTCGCCGTTGTGACCTCAATCTTTCCCATCACATCTTCTAAGGTACAAGGTTCACCGTTAC
** * * *
29914189 AGCCTCAACCTTTCCCTTT-ATATCTTCATGGTATTGGATTCGTCATTGCGACCTCAATATTTCC
195 AGCCTCAACCTTT-CCTTTCATATCTTCATGGTACCGGATTCGTCATTGAGACCTAAATACTTCC
29914253 CATCACATCTTCTAAGG
259 CATCACATCTTCTAAGG
29914270 CATCAGCTTC
Statistics
Matches: 238, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
294 1 0.00
295 195 0.82
296 6 0.03
297 36 0.15
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (297 bp):
TCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCGTTACGGCCTAAATCCTTCCCATCA
CATCTTCTAAGGTACAAGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
AAATTCGCCGTTGTGACCTCAATCTTTCCCATCACATCTTCTAAGGTACAAGGTTCACCGTTACA
GCCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTCATTGAGACCTAAATACTTCCCA
TCACATCTTCTAAGGTATCGGGTTCACTATTGCGATT
Found at i:29920288 original size:60 final size:60
Alignment explanation
Indices: 29920223--29920351 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 60
29920213 AAGGAGAAAC
* * *
29920223 GGGGTCAAAAATGAAA-TTTTAGAAAGTTTCAGGGG-TAAATTCAAATTTTTA-AGAAGTTCG
1 GGGGTCAAAAAT-AAATTTTTAGAAAATTT-AGGGGTTAAATCCAAAATTTTAGA-AAGTTCG
** * *
29920283 GGGGTCAAATCTAAATTTTTGGAAAATTTAGGGGTTAAATCCAAAATTTTAGAAAGTTTG
1 GGGGTCAAAAATAAATTTTTAGAAAATTTAGGGGTTAAATCCAAAATTTTAGAAAGTTCG
*
29920343 AGGGTCAAA
1 GGGGTCAAA
29920352 TTCAAATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 8 0.14
60 49 0.84
61 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (60 bp):
GGGGTCAAAAATAAATTTTTAGAAAATTTAGGGGTTAAATCCAAAATTTTAGAAAGTTCG
Found at i:29920352 original size:60 final size:60
Alignment explanation
Indices: 29920239--29920500 Score: 178
Period size: 60 Copynumber: 4.4 Consensus size: 60
29920229 AAAAATGAAA
* * * *
29920239 TTTTAGAAAGTTTCAGGGG-TAAATTCAAATTTTTA-AGAAGTTCGGGGGTCAAATCTAAAT
1 TTTTGGAAAGTTT-AGGGGTTAAATCCAAAATTTTAGA-AAGTTCGAGGGTCAAATCTAAAT
* *
29920299 TTTTGGAAAATTTAGGGGTTAAATCCAAAATTTTAGAAAGTTTGAGGGTCAAAT-TCAAAT
1 TTTTGGAAAGTTTAGGGGTTAAATCCAAAATTTTAGAAAGTTCGAGGGTCAAATCT-AAAT
* * * * ** * * * * * * *
29920359 TTTTGG-AAGTTCAAGAGTCAAATCTGAATTTTTGGGAAGTTCGAGGATTAAATTTGAAT
1 TTTTGGAAAGTTTAGGGGTTAAATCCAAAATTTTAGAAAGTTCGAGGGTCAAATCTAAAT
* * * ** *
29920418 TTTTGG-AAGTTTTAGTGGTCAAATTC-AAATGTTTAGAAAGTTTAAGGGTCAAAAC-ATAAT
1 TTTTGGAAAG-TTTAGGGGTTAAATCCAAAAT-TTTAGAAAGTTCGAGGGTCAAATCTA-AAT
* *
29920478 TTTTGGATAGTTTAAGGGTTAAA
1 TTTTGGAAAGTTTAGGGGTTAAA
29920501 ACACAATTTC
Statistics
Matches: 154, Mismatches: 40, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
59 55 0.36
60 96 0.62
61 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (60 bp):
TTTTGGAAAGTTTAGGGGTTAAATCCAAAATTTTAGAAAGTTCGAGGGTCAAATCTAAAT
Found at i:29920369 original size:119 final size:118
Alignment explanation
Indices: 29920236--29920500 Score: 266
Period size: 119 Copynumber: 2.2 Consensus size: 118
29920226 GTCAAAAATG
* * * *
29920236 AAATTTTAGAAAGTTTCAGGGGTAAAT-TCAAATTTTTAAGAAGTTCGGGGGTCAAATCTAAATT
1 AAATTTTTGGAAGTTTCAGGGGTAAATCT-AAATTTTTAAGAAGTTCGAGGATCAAATCTAAATT
* * *
29920300 TTTGGAAAATTTAGGGGTTAAATCCAAAAT-TTTAGAAAGTTTGAGGGTCAAATTC
65 TTTGGAAAATTTAGGGGTCAAATCC-AAATGTTTAGAAAGTTTAAGGGTCAAA-AC
* * * ** * * *
29920355 AAATTTTTGGAAG-TTCAAGAGTCAAATCTGAATTTTTGGGAAGTTCGAGGATTAAATTTGAATT
1 AAATTTTTGGAAGTTTCAGGGGT-AAATCTAAATTTTTAAGAAGTTCGAGGATCAAATCTAAATT
** * *
29920419 TTTGGAAGTTTTAGTGGTCAAATTCAAATGTTTAGAAAGTTTAAGGGTCAAAAC
65 TTTGGAAAATTTAGGGGTCAAATCCAAATGTTTAGAAAGTTTAAGGGTCAAAAC
* *
29920473 ATAATTTTTGGATAGTTTAAGGGTTAAA
1 A-AATTTTTGGA-AGTTTCAGGGGTAAA
29920501 ACACAATTTC
Statistics
Matches: 117, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
118 13 0.11
119 93 0.79
120 6 0.05
121 5 0.04
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (118 bp):
AAATTTTTGGAAGTTTCAGGGGTAAATCTAAATTTTTAAGAAGTTCGAGGATCAAATCTAAATTT
TTGGAAAATTTAGGGGTCAAATCCAAATGTTTAGAAAGTTTAAGGGTCAAAAC
Found at i:29920442 original size:30 final size:29
Alignment explanation
Indices: 29920327--29920442 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 29
29920317 TTAAATCCAA
* * * **
29920327 AATTTTAGAAAGTTTGAGGGTCAAATTCA
1 AATTTTTGGAAGTTCGAGGGTCAAATTTG
* * *
29920356 AATTTTTGGAAGTTCAAGAGTCAAATCTG
1 AATTTTTGGAAGTTCGAGGGTCAAATTTG
* *
29920385 AATTTTTGGGAAGTTCGAGGATTAAATTTG
1 AATTTTT-GGAAGTTCGAGGGTCAAATTTG
**
29920415 AATTTTTGGAAGTTTTAGTGGTCAAATT
1 AATTTTTGGAAGTTCGAG-GGTCAAATT
29920443 CAAATGTTTA
Statistics
Matches: 68, Mismatches: 17, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
29 37 0.54
30 31 0.46
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (29 bp):
AATTTTTGGAAGTTCGAGGGTCAAATTTG
Found at i:29920468 original size:30 final size:29
Alignment explanation
Indices: 29920236--29920496 Score: 125
Period size: 30 Copynumber: 8.8 Consensus size: 29
29920226 GTCAAAAATG
*
29920236 AAATTTTAGAAAGTTTCAGGGGT-AAATTC
1 AAATTTTAGAAAGTTT-AAGGGTCAAATTC
***
29920265 AAATTTTTA-AGAAGTTCGGGGGTCAAA-TC
1 AAA-TTTTAGA-AAGTTTAAGGGTCAAATTC
* * * * *
29920294 TAAATTTTTGGAAAATTTAGGGGTTAAATCC
1 -AAA-TTTTAGAAAGTTTAAGGGTCAAATTC
*
29920325 AAAATTTTAGAAAGTTTGAGGGTCAAATTC
1 -AAATTTTAGAAAGTTTAAGGGTCAAATTC
* * * * *
29920355 AAATTTTTGGAAGTTCAAGAGTCAAATCTG
1 AAATTTTAGAAAGTTTAAGGGTCAAAT-TC
* * * ** * * *
29920385 AATTTTTGGGAAGTTCGAGGATTAAATTT
1 AAATTTTAGAAAGTTTAAGGGTCAAATTC
* * * *
29920414 GAATTTTTGGAAGTTTTAGTGGTCAAATTC
1 AAATTTTAGAAAGTTTAAG-GGTCAAATTC
*
29920444 AAATGTTTAGAAAGTTTAAGGGTCAAA-AC
1 AAAT-TTTAGAAAGTTTAAGGGTCAAATTC
* *
29920473 ATAATTTTTGGATAGTTTAAGGGT
1 A-AA-TTTTAGAAAGTTTAAGGGT
29920497 TAAAACACAA
Statistics
Matches: 178, Mismatches: 43, Indels: 21
0.74 0.18 0.09
Matches are distributed among these distances:
29 50 0.28
30 110 0.62
31 18 0.10
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (29 bp):
AAATTTTAGAAAGTTTAAGGGTCAAATTC
Found at i:29932205 original size:16 final size:16
Alignment explanation
Indices: 29932182--29932253 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
29932172 TGTTTGGTTC
29932182 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
29932198 GGTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
* * *
29932214 ACTGTAATGGCATATA
1 GCTGTAATGGAATAGA
*
29932230 GTTGTAATGGAATAG-
1 GCTGTAATGGAATAGA
29932245 GACTGTAAT
1 G-CTGTAAT
29932254 CAGTAATTCA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 1 0.02
16 43 0.98
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:29932236 original size:32 final size:32
Alignment explanation
Indices: 29932183--29932253 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
29932173 GTTTGGTTCG
29932183 CTGTAATGGAATAGAGGTGTAATGGAATAAAA
1 CTGTAATGGAATAGAGGTGTAATGGAATAAAA
* * * **
29932215 CTGTAATGGCATATAGTTGTAATGGAATAGGA
1 CTGTAATGGAATAGAGGTGTAATGGAATAAAA
29932247 CTGTAAT
1 CTGTAAT
29932254 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.30
Consensus pattern (32 bp):
CTGTAATGGAATAGAGGTGTAATGGAATAAAA
Found at i:29941751 original size:7 final size:7
Alignment explanation
Indices: 29941739--29941780 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
29941729 CAATTTATTC
29941739 TTTTTCT
1 TTTTTCT
29941746 TTTTTCT
1 TTTTTCT
29941753 TTTTTCT
1 TTTTTCT
*
29941760 TTCTTCT
1 TTTTTCT
29941767 TTTTCTCAT
1 TTTT-TC-T
29941776 TTTTT
1 TTTTT
29941781 TGTTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 23 0.74
8 3 0.10
9 5 0.16
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:29942529 original size:24 final size:25
Alignment explanation
Indices: 29942497--29942547 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
29942487 TTGGACGCTC
*
29942497 TTTCCTGTCATGGTGCTTCTT-CAT
1 TTTCCTGTCATGGTGCCTCTTCCAT
* * *
29942521 TTTCTTGTCTTTGTGCCTCTTCCAT
1 TTTCCTGTCATGGTGCCTCTTCCAT
29942546 TT
1 TT
29942548 CTTATCCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.06, C:0.25, G:0.14, T:0.55
Consensus pattern (25 bp):
TTTCCTGTCATGGTGCCTCTTCCAT
Found at i:29957357 original size:22 final size:22
Alignment explanation
Indices: 29957314--29957358 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29957304 TGATTAATAC
* *
29957314 TGTCAATGCAATCAGAATTAAA
1 TGTCAAAGCAATCAGAAGTAAA
29957336 TGTCAAAGCAAT-AGAAAGTAAA
1 TGTCAAAGCAATCAG-AAGTAAA
29957358 T
1 T
29957359 CTAAGTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (22 bp):
TGTCAAAGCAATCAGAAGTAAA
Found at i:29958454 original size:21 final size:21
Alignment explanation
Indices: 29958430--29958471 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29958420 ATACATCGAC
*
29958430 TGCTTGTGGCGACATTAGTAG
1 TGCTTGCGGCGACATTAGTAG
*
29958451 TGCTTGCGGTGACATTAGTAG
1 TGCTTGCGGCGACATTAGTAG
29958472 AAAAAGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.33
Consensus pattern (21 bp):
TGCTTGCGGCGACATTAGTAG
Found at i:29967355 original size:68 final size:68
Alignment explanation
Indices: 29967276--29967411 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
29967266 GTGGTTTTAG
29967276 GGTCATAACTTTGATGAGTCGGGCCGTAAATATTAATTATTTAATATTTATGATGTCATTAGTAT
1 GGTCATAACTTTGATGAGTCGGGCCGTAAATATTAATTATTTAATATTTATGATGTCATTAGTAT
29967341 CGT
66 CGT
*
29967344 GGTCATAACTTTGATGAGTTGGGCCGTAAATATTAATTATTTAATATTTATGATGTCATTAGTAT
1 GGTCATAACTTTGATGAGTCGGGCCGTAAATATTAATTATTTAATATTTATGATGTCATTAGTAT
29967409 CGT
66 CGT
29967412 ATTAAAATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (68 bp):
GGTCATAACTTTGATGAGTCGGGCCGTAAATATTAATTATTTAATATTTATGATGTCATTAGTAT
CGT
Found at i:29968423 original size:27 final size:27
Alignment explanation
Indices: 29968385--29968462 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
29968375 CTAAATATTT
29968385 TGTTTCTGGCTCGTACA-AGCGATACTC
1 TGTTTCTGGCTCGTA-AGAGCGATACTC
29968412 TGTTTCTGGCTCGTAAGAGCGATACTC
1 TGTTTCTGGCTCGTAAGAGCGATACTC
* *
29968439 CGTATT-TGGCTCGTAAGAGTGATA
1 TGT-TTCTGGCTCGTAAGAGCGATA
29968463 TTTTCGATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 44 0.94
28 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (27 bp):
TGTTTCTGGCTCGTAAGAGCGATACTC
Found at i:29968569 original size:27 final size:27
Alignment explanation
Indices: 29968539--29968596 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
29968529 TGGCTCGGAG
*
29968539 GAGCAATAATCTGCTT-TGGGCTCAAAT
1 GAGCAATAATCTG-TTCTGGACTCAAAT
* *
29968566 GAGCAATACTCTGTTCTGGACTCGAAT
1 GAGCAATAATCTGTTCTGGACTCAAAT
29968593 GAGC
1 GAGC
29968597 TACATCTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (27 bp):
GAGCAATAATCTGTTCTGGACTCAAAT
Found at i:29971386 original size:23 final size:24
Alignment explanation
Indices: 29971352--29971398 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
29971342 TTAATGTATT
29971352 ATATATTT-AAAAATTATATAAAA
1 ATATATTTAAAAAATTATATAAAA
29971375 ATAT-TTTCAAAAAAATTATATAAA
1 ATATATTT--AAAAAATTATATAAA
29971399 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 4 0.19
25 14 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTTAAAAAATTATATAAAA
Found at i:29971932 original size:18 final size:19
Alignment explanation
Indices: 29971893--29971933 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29971883 AAATTACAAA
* *
29971893 AAAATTCAAAATAATTTTT
1 AAAACTCAAAATAATTTAT
29971912 AAAACTCAAAAT-ATTTAT
1 AAAACTCAAAATAATTTAT
29971930 AAAA
1 AAAA
29971934 ATTTCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAACTCAAAATAATTTAT
Found at i:29971962 original size:39 final size:38
Alignment explanation
Indices: 29971930--29972005 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
29971920 AAATATTTAT
*
29971930 AAAAATTTCAAATTTTTAAAAAAATTCTAAAATATATAAA
1 AAAAAGTT-AAATTTTTAAAAAAA-TCTAAAATATATAAA
* *
29971970 AAAAAGTTAATTTTTTTAAAAAATCTAAAATA-ATAA
1 AAAAAGTTAAATTTTTAAAAAAATCTAAAATATATAA
29972006 TTTTGGACGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 4 0.12
38 9 0.27
39 13 0.39
40 7 0.21
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (38 bp):
AAAAAGTTAAATTTTTAAAAAAATCTAAAATATATAAA
Found at i:29971972 original size:38 final size:36
Alignment explanation
Indices: 29971919--29972005 Score: 86
Period size: 39 Copynumber: 2.3 Consensus size: 36
29971909 TTTAAAACTC
* *
29971919 AAAATATTTATAAAAATTTCAAATTTTTAAAAAAATTCT
1 AAAATATATA-AAAAAGTT-AAATTTTTAAAAAAA-TCT
* *
29971958 AAAATATATAAAAAAAAGTTAATTTTTTTAAAAAATCT
1 AAAATATAT--AAAAAAGTTAAATTTTTAAAAAAATCT
29971996 AAAATA-ATAA
1 AAAATATATAA
29972006 TTTTGGACGG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 2 0.05
37 2 0.05
38 9 0.21
39 21 0.50
40 7 0.17
41 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (36 bp):
AAAATATATAAAAAAGTTAAATTTTTAAAAAAATCT
Found at i:29972715 original size:22 final size:21
Alignment explanation
Indices: 29972668--29972718 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
29972658 ATTATAATTG
* *
29972668 TTTTGTTTGCTATTTTAATTTC
1 TTTTG-TTGCTATTTTAAGTTA
*
29972690 TTTTGTTGTTATTTTAAAGTTA
1 TTTTGTTGCTATTTT-AAGTTA
29972712 TTTTGTT
1 TTTTGTT
29972719 ATTAGTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.69
Consensus pattern (21 bp):
TTTTGTTGCTATTTTAAGTTA
Found at i:29974544 original size:26 final size:27
Alignment explanation
Indices: 29974487--29974557 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 27
29974477 ACAGTGATGT
*
29974487 CGCCTCTCAATAAGGCACCTTTGGTGC
1 CGCCTCTCAACAAGGCACCTTTGGTGC
*
29974514 CGCCTCTCAACAAGGC-CCTTTTGTGC
1 CGCCTCTCAACAAGGCACCTTTGGTGC
* * *
29974540 TGCCTCTGAACATGGCAC
1 CGCCTCTCAACAAGGCAC
29974558 ATTCTGTGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 22 0.58
27 16 0.42
ACGTcount: A:0.18, C:0.35, G:0.21, T:0.25
Consensus pattern (27 bp):
CGCCTCTCAACAAGGCACCTTTGGTGC
Found at i:29976430 original size:11 final size:10
Alignment explanation
Indices: 29976414--29976467 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
29976404 CCATTTTAAG
29976414 TTTAAATTTA
1 TTTAAATTTA
29976424 TTTTAAATTTAA
1 -TTTAAATTT-A
* *
29976436 ATTAATTTTAA
1 TTTAAATTT-A
29976447 GTTTAAATTTA
1 -TTTAAATTTA
29976458 TTTAAATTTA
1 TTTAAATTTA
29976468 AAATAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 10 0.27
11 19 0.51
12 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:29976440 original size:5 final size:6
Alignment explanation
Indices: 29976408--29976469 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
29976398 CTAAACCCAT
* * * *
29976408 TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA -TTAAT TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
29976454 TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
29976470 ATAAATAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 4 0.09
5 8 0.17
6 34 0.74
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:29976444 original size:34 final size:33
Alignment explanation
Indices: 29976406--29976469 Score: 119
Period size: 34 Copynumber: 1.9 Consensus size: 33
29976396 AACTAAACCC
29976406 ATTTTAAGTTTAAATTTATTTTAAATTTAAATTA
1 ATTTTAAGTTTAAATTTA-TTTAAATTTAAATTA
29976440 ATTTTAAGTTTAAATTTATTTAAATTTAAA
1 ATTTTAAGTTTAAATTTATTTAAATTTAAA
29976470 ATAAATAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (33 bp):
ATTTTAAGTTTAAATTTATTTAAATTTAAATTA
Found at i:29976471 original size:17 final size:17
Alignment explanation
Indices: 29976406--29976469 Score: 94
Period size: 17 Copynumber: 3.8 Consensus size: 17
29976396 AACTAAACCC
*
29976406 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
29976423 ATTTTAAATTTAAATTA
1 ATTTTAAATTTAAATTT
*
29976440 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
29976457 A-TTTAAATTTAAA
1 ATTTTAAATTTAAA
29976470 ATAAATAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
16 11 0.26
17 31 0.74
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:29978164 original size:30 final size:29
Alignment explanation
Indices: 29978128--29978238 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 29
29978118 CTATTTTGTC
*
29978128 TAAAAATCACATTTTGACCCCCGAACTTCT
1 TAAAAATCACATTTTAACCCCCGAACTT-T
*
29978158 TAAAAATCACATTTTAACCCCCGTACTTT
1 TAAAAATCACATTTTAACCCCCGAACTTT
**
29978187 TCAAAAATCACATTTTAACCCTTGAACTTT
1 T-AAAAATCACATTTTAACCCCCGAACTTT
*
29978217 CTAAAAATAACATTTTAACCCC
1 -TAAAAATCACATTTTAACCCC
29978239 TCTTCCAAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
29 2 0.03
30 69 0.96
31 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (29 bp):
TAAAAATCACATTTTAACCCCCGAACTTT
Found at i:29985968 original size:29 final size:30
Alignment explanation
Indices: 29985894--29985977 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
29985884 TAGAAAGCAA
* *
29985894 TTTGA-CCTCAAATTTTCC-AAAAGTTCGAT
1 TTTGACCCT-AAATTTTCCAAAAATTTCAAT
*
29985923 TTTAGTCCC-AAATTTTCCAAAAATTTCAAT
1 TTT-GACCCTAAATTTTCCAAAAATTTCAAT
29985953 TTTGACCCTAAA-TTTCTCAAAAATT
1 TTTGACCCTAAATTTTC-CAAAAATT
29985978 ACATTTTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 20 0.43
30 24 0.52
31 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (30 bp):
TTTGACCCTAAATTTTCCAAAAATTTCAAT
Found at i:29985995 original size:29 final size:29
Alignment explanation
Indices: 29985936--29985995 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
29985926 AGTCCCAAAT
* *
29985936 TTTCCAAAAATTTCAATTTTGACCCTAAA
1 TTTCCAAAAATTACAATTTTCACCCTAAA
* *
29985965 TTTCTCAAAAATTAC-ATTTTCATCCTGAA
1 TTTC-CAAAAATTACAATTTTCACCCTAAA
29985994 TT
1 TT
29985996 CTCCGAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTCCAAAAATTACAATTTTCACCCTAAA
Found at i:29987266 original size:27 final size:28
Alignment explanation
Indices: 29987235--29987298 Score: 112
Period size: 29 Copynumber: 2.3 Consensus size: 28
29987225 GCAATGAGAA
29987235 TTTTAATC-AAATATTAATCTAACATTT
1 TTTTAATCAAAATATTAATCTAACATTT
29987262 TTTTAATCAAAAATATTAATCTAACATTT
1 TTTTAATC-AAAATATTAATCTAACATTT
29987291 TTTTAATC
1 TTTTAATC
29987299 TAACATTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 8 0.23
29 27 0.77
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTAATCAAAATATTAATCTAACATTT
Found at i:29987269 original size:16 final size:16
Alignment explanation
Indices: 29987248--29987313 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
29987238 TAATCAAATA
29987248 TTAATCTAACATTTTT
1 TTAATCTAACATTTTT
** *
29987264 TTAATC-AA-A-AATA
1 TTAATCTAACATTTTT
29987277 TTAATCTAACATTTTT
1 TTAATCTAACATTTTT
*
29987293 TTAATCTAACATTCTT
1 TTAATCTAACATTTTT
29987309 TTAAT
1 TTAAT
29987314 TTTAATTGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
13 7 0.17
14 3 0.08
15 3 0.08
16 27 0.68
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATCTAACATTTTT
Found at i:29989428 original size:41 final size:41
Alignment explanation
Indices: 29989371--29989766 Score: 419
Period size: 41 Copynumber: 9.7 Consensus size: 41
29989361 GTTTTGGACA
* *
29989371 GAAAA-CGCCGCAAAAGGT-AGAGCAATAGCGGCGTTTATG
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG
* * *
29989410 AGAAAAGCGCCGCTAAAGGTTAGAACAATAGTGGCGCTTATG
1 -GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG
** *
29989452 GAAAAGCATCGCTAAAGGTCAGAGCAATAGCGACGCTTATAG
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-G
* * *
29989494 G-AAAGCGCCGTTAAAGGTCAGAGCAATAGCGGTGCTTCTTG
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTT-ATG
* *
29989535 GAAAA-CGCCGCTAAAGGTCAAAGCAATAGCGGTGCTTATG
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG
* *
29989575 GGAAAGCGCC-CTTAAAGGTCAGAGCAATAGCGGCGCTTCT-
1 GAAAAGCGCCGC-TAAAGGTCAGAGCAATAGCGGCGCTTATG
* * * *
29989615 TAGAAAGCGTCGCTAAAGGTCAGAGCAATAGTGACGCTTATG
1 GA-AAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG
* * * *
29989657 GGAAAGCGTCGCTAAAAGTCAGAGCAATAGCGGCGCTTCTTG
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTT-ATG
* ** * *
29989699 G-AAAGCGCCGCTAAAGATCAGATTAATAGCGGCGCTTCTT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG
* *
29989739 GAAAAGCACCGTTAAAGGTCAGAGCAAT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAAT
29989767 GGGGACGCTT
Statistics
Matches: 297, Mismatches: 47, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
40 14 0.05
41 255 0.86
42 28 0.09
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.19
Consensus pattern (41 bp):
GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG
Found at i:29989521 original size:82 final size:83
Alignment explanation
Indices: 29989383--29989836 Score: 474
Period size: 82 Copynumber: 5.5 Consensus size: 83
29989373 AAACGCCGCA
* * * * * *
29989383 AAAGGT-AGAGCAATAGCGGCGTTTATGAGAAAAGCGCCGCTAAAGGTTAGAACAATAGTGGCGC
1 AAAGGTCAGAGCAATAGCGACGCTTAT-AGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGC
* *
29989447 TT-ATGGAAAAGCATCGCT
65 TTCTTGGAAAAGCGTCGCT
* *
29989465 AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGTTAAAGGTCAGAGCAATAGCGGTGCT
1 AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCT
*
29989530 TCTTGGAAAA-CGCCGCT
66 TCTTGGAAAAGCGTCGCT
* ** *
29989547 AAAGGTCAAAGCAATAGCGGTGCTTATGGGAAAGCGCC-CTTAAAGGTCAGAGCAATAGCGGCGC
1 AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGC-TAAAGGTCAGAGCAATAGCGGCGC
*
29989611 TTCTTAG-AAAGCGTCGCT
65 TTCTTGGAAAAGCGTCGCT
* * * *
29989629 AAAGGTCAGAGCAATAGTGACGCTTATGGGAAAGCGTCGCTAAAAGTCAGAGCAATAGCGGCGCT
1 AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCT
*
29989694 TCTTGG-AAAGCGCCGCT
66 TCTTGGAAAAGCGTCGCT
* ** * * * * * * *
29989711 AAAGATCAGATTAATAGCGGCGCTTCTTGAAAAGCACCGTTAAAGGTCAGAGCAAT-GGGGACGC
1 AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGG-CGC
*
29989775 TTCTTGG-AAAGCGTCGCA
65 TTCTTGGAAAAGCGTCGCT
* * ** * **
29989793 AAAGATTAGAGCTTTAGCGACGCTTGTAACAAAGCGCCGCTAAA
1 AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGCTAAA
29989837 AGTGGATTTT
Statistics
Matches: 312, Mismatches: 54, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
81 6 0.02
82 280 0.90
83 26 0.08
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (83 bp):
AAAGGTCAGAGCAATAGCGACGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCT
TCTTGGAAAAGCGTCGCT
Found at i:29989776 original size:41 final size:41
Alignment explanation
Indices: 29989371--29989836 Score: 406
Period size: 41 Copynumber: 11.4 Consensus size: 41
29989361 GTTTTGGACA
* * * *
29989371 GAAAA-CGCCGCAAAAGGT-AGAGCAATAGCGGCGTTTATGA
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCT-T
* * * * *
29989411 GAAAAGCGCCGCTAAAGGTTAGAACAATAGTGGCGCTTATG
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
** * * *
29989452 GAAAAGCATCGCTAAAGGTCAGAGCAATAGCGACGCTTATA
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
* * *
29989493 GGAAAGCGCCGTTAAAGGTCAGAGCAATAGCGGTGCTTCTT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
* * * *
29989534 GGAAAA-CGCCGCTAAAGGTCAAAGCAATAGCGGTGCTTATG
1 -GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
*
29989575 GGAAAGCGCC-CTTAAAGGTCAGAGCAATAGCGGCGCTTCTT
1 GAAAAGCGCCGC-TAAAGGTCAGAGCAATAGCGGCGCTTCTT
* * * * *
29989616 -AGAAAGCGTCGCTAAAGGTCAGAGCAATAGTGACGCTTATG
1 GA-AAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
* * *
29989657 GGAAAGCGTCGCTAAAAGTCAGAGCAATAGCGGCGCTTCTT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
* * **
29989698 GGAAAGCGCCGCTAAAGATCAGATTAATAGCGGCGCTTCTT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
* * *
29989739 GAAAAGCACCGTTAAAGGTCAGAGCAAT-GGGGACGCTTCTT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGG-CGCTTCTT
* * * * * ** * *
29989780 GGAAAGCGTCGCAAAAGATTAGAGCTTTAGCGACGCTT-GT
1 GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
*
29989820 AACAAAGCGCCGCTAAA
1 GA-AAAGCGCCGCTAAA
29989837 AGTGGATTTT
Statistics
Matches: 345, Mismatches: 70, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
40 14 0.04
41 307 0.89
42 24 0.07
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.19
Consensus pattern (41 bp):
GAAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTT
Found at i:29990256 original size:16 final size:18
Alignment explanation
Indices: 29990212--29990257 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
29990202 CCCTTAAACC
29990212 CTCTCTCCCTTT-TCTCT
1 CTCTCTCCCTTTCTCTCT
* *
29990229 CTCTTTCTCTTTCTCT-T
1 CTCTCTCCCTTTCTCTCT
29990246 C-CTCTCCCTTTC
1 CTCTCTCCCTTTC
29990258 ACCACCCCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (18 bp):
CTCTCTCCCTTTCTCTCT
Found at i:29994962 original size:43 final size:42
Alignment explanation
Indices: 29994879--29995018 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 42
29994869 TTTGTTAATA
* *
29994879 TTAGTGGCGTTTGTGGGAAAGTGCTGTTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTGGAAAAGTGCTGTTAAAGATCATGTTCT
* * *
29994921 TTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGATCGTGTTCT
1 TTAGCGGCGTTTGTGG-AAAAGTGCTGTTAAAGATCATGTTCT
* * * *
29994964 TTAGCGGCTTTTGTAGTAAAAGTGGTGCTAAAGATCATGGTT-T
1 TTAGCGGCGTTTGT-GGAAAAGTGCTGTTAAAGATCAT-GTTCT
29995007 TTAGCGGCGTTT
1 TTAGCGGCGTTT
29995019 ATGGTCTTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 15 0.18
43 63 0.77
44 4 0.05
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (42 bp):
TTAGCGGCGTTTGTGGAAAAGTGCTGTTAAAGATCATGTTCT
Found at i:29995028 original size:19 final size:19
Alignment explanation
Indices: 29995000--29995041 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
29994990 GCTAAAGATC
* *
29995000 ATGGTTTTTAGCGGCGTTT
1 ATGGTCTTTAGCGGCATTT
29995019 ATGGTCTTTAGCGGCATTT
1 ATGGTCTTTAGCGGCATTT
29995038 ATGG
1 ATGG
29995042 GGAAAGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.12, G:0.31, T:0.43
Consensus pattern (19 bp):
ATGGTCTTTAGCGGCATTT
Found at i:29995114 original size:43 final size:43
Alignment explanation
Indices: 29995019--29995164 Score: 188
Period size: 42 Copynumber: 3.4 Consensus size: 43
29995009 AGCGGCGTTT
* *
29995019 ATGGTCTTTAGCGGCATTTATGGGGAAAG-ACCGCTAAAGAAC
1 ATGGTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGAAC
* *
29995061 ATGGTCTTTAGCGGTGTTTGTGGGGAAAGCACCGTTAAAGAAC
1 ATGGTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGAAC
* * **
29995104 ATGGTCTTTAGCAGCGATTGT-GGGAAAGCGTCGCTAAAGAAC
1 ATGGTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGAAC
* *
29995146 ATGTTCTATAGCGGCGTTT
1 ATGGTCTTTAGCGGCGTTT
29995165 TTCATCATAA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 59 0.66
43 30 0.34
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (43 bp):
ATGGTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGAAC
Found at i:30003844 original size:18 final size:18
Alignment explanation
Indices: 30003823--30003857 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30003813 AATTAAAAAC
*
30003823 AAATAAAGCAAGAAAAGT
1 AAATAAAGAAAGAAAAGT
*
30003841 AAATAAATAAAGAAAAG
1 AAATAAAGAAAGAAAAG
30003858 GAGCTTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.14, T:0.11
Consensus pattern (18 bp):
AAATAAAGAAAGAAAAGT
Found at i:30008228 original size:18 final size:19
Alignment explanation
Indices: 30008205--30008242 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30008195 GCAACTAAAT
*
30008205 TAACAAAA-AGAAATGCAA
1 TAACAAAATAAAAATGCAA
30008223 TAACAAAATAAAAATGCAA
1 TAACAAAATAAAAATGCAA
30008242 T
1 T
30008243 GACAGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.66, C:0.11, G:0.08, T:0.16
Consensus pattern (19 bp):
TAACAAAATAAAAATGCAA
Found at i:30027944 original size:43 final size:42
Alignment explanation
Indices: 30027883--30027984 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
30027873 AACAAGACAG
* *
30027883 AGGAAGCTACGTGGAAAAAGCCACATT-CAAGAAACGACAAAGA
1 AGGAAGCTACGTGGAAAAAACCAC-TTCCAA-AAAAGACAAAGA
* *
30027926 AGGAAGCAACGTGGAAAAAACCACTTCCAAAAAAGATAAAGA
1 AGGAAGCTACGTGGAAAAAACCACTTCCAAAAAAGACAAAGA
*
30027968 AGGAAGCTACGTAGAAA
1 AGGAAGCTACGTGGAAA
30027985 CCACCCACTA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.10
Consensus pattern (42 bp):
AGGAAGCTACGTGGAAAAAACCACTTCCAAAAAAGACAAAGA
Found at i:30028641 original size:42 final size:43
Alignment explanation
Indices: 30028554--30028655 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
30028544 TAGTGGGTGG
* *
30028554 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGGTAGTGGTTT
1 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGATAGTGGCTT
*
30028597 TTTCCACGTAGCTTCCTT-TTTGTCGTTTCTTGA-ATGTGGCTT
1 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGATA-GTGGCTT
* * *
30028639 TTTTCACATGGCTTCCT
1 TTTCCACGTAGCTTCCT
30028656 CTGTCTTGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 33 0.63
43 18 0.35
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.50
Consensus pattern (43 bp):
TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGATAGTGGCTT
Found at i:30028641 original size:43 final size:43
Alignment explanation
Indices: 30028554--30028643 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
30028544 TAGTGGGTGG
*
30028554 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGGTAGTGGTTT
1 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGATAGTGGTTT
*
30028597 TTTCCACGTAGCTTCCTT-TTTGTCGTTTCTTGA-ATGTGGCTTT
1 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGATA-GTGG-TTT
30028640 TTTC
1 TTTC
30028644 ACATGGCTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 1 0.02
42 17 0.40
43 25 0.58
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.52
Consensus pattern (43 bp):
TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGATAGTGGTTT
Found at i:30031572 original size:80 final size:80
Alignment explanation
Indices: 30031477--30031643 Score: 334
Period size: 80 Copynumber: 2.1 Consensus size: 80
30031467 AATTTAGAGG
30031477 GATAATGGCTGAAGATCCCAGTTTACATTTTGAAATGGTTTTTACAATTATGCGATACTTTTAGG
1 GATAATGGCTGAAGATCCCAGTTTACATTTTGAAATGGTTTTTACAATTATGCGATACTTTTAGG
30031542 TTTAATGGTATTACT
66 TTTAATGGTATTACT
30031557 GATAATGGCTGAAGATCCCAGTTTACATTTTGAAATGGTTTTTACAATTATGCGATACTTTTAGG
1 GATAATGGCTGAAGATCCCAGTTTACATTTTGAAATGGTTTTTACAATTATGCGATACTTTTAGG
30031622 TTTAATGGTATTACT
66 TTTAATGGTATTACT
30031637 GATAATG
1 GATAATG
30031644 CCATTCGTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 87 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (80 bp):
GATAATGGCTGAAGATCCCAGTTTACATTTTGAAATGGTTTTTACAATTATGCGATACTTTTAGG
TTTAATGGTATTACT
Found at i:30052679 original size:6 final size:6
Alignment explanation
Indices: 30052604--30052681 Score: 66
Period size: 6 Copynumber: 11.8 Consensus size: 6
30052594 AATTAGTACA
*
30052604 TTTAGT TTTATAT TTTATTT ATTTATTT ATTTATT TTTATAT TTTCATT
1 TTTATT TTTAT-T TTTA-TT -TTTA-TT -TTTATT TTTAT-T TTT-ATT
* *
30052653 TTCATT TTCATT TTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTAT
30052682 GCACCGTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
6 34 0.53
7 15 0.23
8 15 0.23
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:30054315 original size:22 final size:22
Alignment explanation
Indices: 30054273--30054315 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30054263 TAAATAAATT
* *
30054273 AATTAAAATAACTAATTTTTTA
1 AATTAAAATAAATAATCTTTTA
30054295 AATTATAAATAAAT-ATCTTTT
1 AATTA-AAATAAATAATCTTTT
30054316 CTTCTTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTAAAATAAATAATCTTTTA
Found at i:30054440 original size:7 final size:6
Alignment explanation
Indices: 30054416--30054467 Score: 50
Period size: 7 Copynumber: 7.8 Consensus size: 6
30054406 TTTGGGTTCG
*
30054416 GGTTTA GGTTTTG GGTTTA GTGTTTAA GGTTTA GGTTTA GGGTTTA TGGTTT
1 GGTTTA GG-TTTA GGTTTA G-GTTT-A GGTTTA GGTTTA -GGTTTA -GGTTT
30054468 TGAGATCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 13 0.33
7 24 0.62
8 2 0.05
ACGTcount: A:0.13, C:0.00, G:0.35, T:0.52
Consensus pattern (6 bp):
GGTTTA
Found at i:30054452 original size:20 final size:20
Alignment explanation
Indices: 30054415--30054467 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
30054405 ATTTGGGTTC
*
30054415 GGGTTT-AGGTTTTGGGTTTA
1 GGGTTTAAGG-TTTAGGTTTA
*
30054435 GTGTTTAAGGTTTAGGTTTA
1 GGGTTTAAGGTTTAGGTTTA
*
30054455 GGGTTTATGGTTT
1 GGGTTTAAGGTTT
30054468 TGAGATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (20 bp):
GGGTTTAAGGTTTAGGTTTA
Found at i:30054974 original size:17 final size:18
Alignment explanation
Indices: 30054939--30054975 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
30054929 AGATGCTAAA
30054939 AACGTGCTGTTTAAAACG
1 AACGTGCTGTTTAAAACG
30054957 AACGTGCTGTTT-AAACG
1 AACGTGCTGTTTAAAACG
30054974 AA
1 AA
30054976 AAAACGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (18 bp):
AACGTGCTGTTTAAAACG
Found at i:30056337 original size:18 final size:18
Alignment explanation
Indices: 30056314--30056354 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
30056304 ACTCAAACTC
*
30056314 CTTTTCTTTATTTATTTA
1 CTTTTCTTGATTTATTTA
* *
30056332 CTTTTCTTGCTTTATTTG
1 CTTTTCTTGATTTATTTA
30056350 CTTTT
1 CTTTT
30056355 AATTGTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.05, T:0.71
Consensus pattern (18 bp):
CTTTTCTTGATTTATTTA
Found at i:30058676 original size:27 final size:25
Alignment explanation
Indices: 30058627--30058676 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
30058617 CTTTCAGTTG
30058627 CATTGACATTTAACTTTTATAATTA
1 CATTGACATTTAACTTTTATAATTA
30058652 CATTGACAATTTTAACTATTT-TAAT
1 CATTGAC-A-TTTAACT-TTTATAAT
30058677 GTGTAGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
26 1 0.05
27 11 0.50
28 3 0.14
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (25 bp):
CATTGACATTTAACTTTTATAATTA
Found at i:30068784 original size:13 final size:13
Alignment explanation
Indices: 30068766--30068797 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
30068756 AATGTTGAAT
30068766 GAGAAAAGAAAAA
1 GAGAAAAGAAAAA
30068779 GAGAAAAGAAAAA
1 GAGAAAAGAAAAA
30068792 GA-AAAA
1 GAGAAAA
30068798 AACTGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
GAGAAAAGAAAAA
Found at i:30071004 original size:52 final size:52
Alignment explanation
Indices: 30070923--30071099 Score: 218
Period size: 52 Copynumber: 3.4 Consensus size: 52
30070913 TTCCCATTTA
* *
30070923 ATACTCACGATGACACAAAGTCGTCGAACCTTAAATTCGTAAAAGGA-TCTAT
1 ATACTCACGATGACACATAGTCATCGAACCTTAAATTCGTAAAAGGATTC-AT
* *
30070975 ATGCTCACGATGACACATAGTCATCGAACCTCTTAA-TCTGTAAAA-GATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCT-TAAATTC-GTAAAAGGATTCAT
* * *
30071027 ATACTCACGATGACACATAGTCATCAAACCTCATAATCCGT-AAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTA-AATTCGTAAAAGGATTCAT
*
30071079 ATACTCACGATGACATATAGT
1 ATACTCACGATGACACATAGT
30071100 TATAGGAACT
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
51 3 0.03
52 94 0.86
53 12 0.11
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACCTTAAATTCGTAAAAGGATTCAT
Found at i:30072903 original size:16 final size:17
Alignment explanation
Indices: 30072882--30072921 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30072872 TAATTAATCC
* *
30072882 TTCAATTATATTAA-AT
1 TTCAATTAAATAAACAT
30072898 TTCAATTAAATAAACAT
1 TTCAATTAAATAAACAT
30072915 TTCAATT
1 TTCAATT
30072922 TAGCCTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
TTCAATTAAATAAACAT
Found at i:30074289 original size:2 final size:2
Alignment explanation
Indices: 30074282--30074307 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30074272 AATAGTCAAT
30074282 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
30074308 CTTTTCAAAC
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):
TA
Found at i:30076401 original size:52 final size:52
Alignment explanation
Indices: 30076290--30076580 Score: 338
Period size: 52 Copynumber: 5.6 Consensus size: 52
30076280 TTCCCATTTA
* ** * *
30076290 ATACTCACGATGACACAAAGTCATCAAACCTTA-AATCCGTAAAAGGA-TCTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGAATTC-AT
* * **
30076342 ATGCTCACGATGACACATAGTCATCGGACCTCTTAATCCGTAAATTATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
* * *
30076394 ATACTCACGATGACACATAGCCATCTGACCTCATAATCCGTAAGGAATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
* *
30076446 ATACTCACAATGACACATAGCCATCGGACCTCATAATCCGTAAATG-ATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAA-GAATTCAT
* * *
30076498 ATACTCACGGTGACACATAATCATCGGACCTC-TAATTTCGTAAAGAATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAA-TCCGTAAAGAATTCAT
* * *
30076550 ATAATCACGATGACACATAGTAATCGAACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
30076581 TTTTCATTTA
Statistics
Matches: 206, Mismatches: 28, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
51 4 0.02
52 192 0.93
53 10 0.05
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
Found at i:30081900 original size:52 final size:52
Alignment explanation
Indices: 30081826--30082058 Score: 292
Period size: 52 Copynumber: 4.5 Consensus size: 52
30081816 TTCCCATTTA
* * * * *
30081826 ATACACACGATGACACAAAGTCATCAGACCTTA-AATTCGTAAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGT-AAAGGATTCAT
* * * *
30081878 ATGCTCACGATTACACGTAGTCATCGGACCTCTTAA-TCTGTAAAGGATT-AT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTC-GTAAAGGATTCAT
* *
30081929 ATACTCACGATGACACATAGCCATCGAACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
* * * *
30081981 ATGCTCACGATGCCACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
30082033 ATACTCACGATGACACATAGTCATCG
1 ATACTCACGATGACACATAGTCATCG
30082059 AACATTTTTC
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
51 42 0.27
52 108 0.70
53 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
Found at i:30082010 original size:103 final size:104
Alignment explanation
Indices: 30081826--30082061 Score: 352
Period size: 103 Copynumber: 2.3 Consensus size: 104
30081816 TTCCCATTTA
* * * * *
30081826 ATACACACGATGACACAAAGTCATC-AGACCTTAAATTCGTAAAAGGATTTATATGCTCACGATT
1 ATACTCACGATGACACATAGTCATCGA-ACCTCAAATTCGTAAAAGGATTCATATGCTCACGATG
* *
30081890 ACACGTAGTCATCGGACCTCTTAATCTGTAAAGGATT-AT
65 ACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
30081929 ATACTCACGATGACACATAGCCATCGAACCTCATAATTCGT-AAAGGATTCATATGCTCACGATG
1 ATACTCACGATGACACATAGTCATCGAACCTCA-AATTCGTAAAAGGATTCATATGCTCACGATG
*
30081993 CCACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
65 ACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
30082033 ATACTCACGATGACACATAGTCATCGAAC
1 ATACTCACGATGACACATAGTCATCGAAC
30082062 ATTTTTCATT
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
103 82 0.68
104 38 0.32
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (104 bp):
ATACTCACGATGACACATAGTCATCGAACCTCAAATTCGTAAAAGGATTCATATGCTCACGATGA
CACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:30095072 original size:30 final size:30
Alignment explanation
Indices: 30095031--30095089 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
30095021 AGCTATTTGG
30095031 GGTACAATCAAATTGCTATTGAAGATTCTA
1 GGTACAATCAAATTGCTATTGAAGATTCTA
*
30095061 GGTATAATCAAATTGCTATTGAAGATTCT
1 GGTACAATCAAATTGCTATTGAAGATTCT
30095090 GGAAAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (30 bp):
GGTACAATCAAATTGCTATTGAAGATTCTA
Found at i:30103063 original size:18 final size:18
Alignment explanation
Indices: 30103032--30103066 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30103022 GAGAGAAAAA
*
30103032 TTTTTAAAGGAAAAGACT
1 TTTTTAAAAGAAAAGACT
*
30103050 TTTTTAAAATAAAAGAC
1 TTTTTAAAAGAAAAGAC
30103067 AAATGAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (18 bp):
TTTTTAAAAGAAAAGACT
Found at i:30103560 original size:11 final size:11
Alignment explanation
Indices: 30103527--30103564 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
30103517 TATTTAAATA
30103527 ATTT-TTATTT
1 ATTTATTATTT
30103537 AATTTATTA-TT
1 -ATTTATTATTT
30103548 ATTTATTATTT
1 ATTTATTATTT
30103559 ATTTAT
1 ATTTAT
30103565 GTGTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.32
11 14 0.56
12 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:30104539 original size:21 final size:21
Alignment explanation
Indices: 30104515--30104584 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
30104505 CAAACTCCTT
*
30104515 CCGATACAAGTGATAGTTCTA
1 CCGATACAAGTGATACTTCTA
30104536 CCGATACAAGTGACT-CTTCTA
1 CCGATACAAGTGA-TACTTCTA
* **
30104557 CTGATACAAGTCTTACTTCTA
1 CCGATACAAGTGATACTTCTA
30104578 CCGATAC
1 CCGATAC
30104585 TAAAAATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (21 bp):
CCGATACAAGTGATACTTCTA
Found at i:30120610 original size:10 final size:10
Alignment explanation
Indices: 30120583--30120617 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
30120573 TTATAAAAAA
*
30120583 TTTCTTTTTT
1 TTTCTTTCTT
*
30120593 TTTTTTTCTT
1 TTTCTTTCTT
30120603 TTTCTTTCTT
1 TTTCTTTCTT
30120613 TTTCT
1 TTTCT
30120618 CAATTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:30121213 original size:20 final size:19
Alignment explanation
Indices: 30121166--30121213 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
30121156 TTTTTCTGAA
30121166 AATAA-TTTCTGGAAAATG
1 AATAATTTTCTGGAAAATG
* *
30121184 AATTACTTTTCTGGAAAAGTT
1 AA-TAATTTTCTGGAAAA-TG
30121205 AATAATTTT
1 AATAATTTT
30121214 TGGTGTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 17 0.71
21 3 0.12
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
AATAATTTTCTGGAAAATG
Found at i:30123979 original size:7 final size:7
Alignment explanation
Indices: 30123932--30123966 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
30123922 AGTTGAAAAC
30123932 GAGAAAG
1 GAGAAAG
*
30123939 GGGAAAG
1 GAGAAAG
30123946 GAGAAAG
1 GAGAAAG
30123953 GAGAAAG
1 GAGAAAG
30123960 GAGAAAG
1 GAGAAAG
30123967 AAGGAAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (7 bp):
GAGAAAG
Found at i:30145259 original size:16 final size:16
Alignment explanation
Indices: 30145227--30145264 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
30145217 TCAGTCACAT
30145227 AAAAAAAAGAAGTAAAG
1 AAAAAAAAGAAG-AAAG
30145244 AAAAGAAAAGAA-AAAG
1 AAAA-AAAAGAAGAAAG
30145260 AAAAA
1 AAAAA
30145265 TATTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 8 0.40
17 4 0.20
18 7 0.35
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAGAAAG
Found at i:30146834 original size:24 final size:24
Alignment explanation
Indices: 30146807--30146865 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
30146797 ACAATCAATT
30146807 CATTTTATACTACATTTGCAGTGA
1 CATTTTATACTACATTTGCAGTGA
* ** *
30146831 CATTTTATATTATTTTTGCATTGA
1 CATTTTATACTACATTTGCAGTGA
30146855 CAATTTT-TACT
1 C-ATTTTATACT
30146866 CTTAACCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
CATTTTATACTACATTTGCAGTGA
Done.