Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 173 of 187
Found at i:52871511 original size:48 final size:49
Alignment explanation
Indices: 52871414--52871512 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
52871404 AGCACAATGG
*
52871414 AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAATGGGGACAAGGT
1 AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAAGGGGGACAAGGT
52871463 AGGTACCATTCTTAACAAGACTAGA-GACAAGCAAAAGGGGGACAAGGT
1 AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAAGGGGGACAAGGT
52871511 AG
1 AG
52871513 ATTTTATAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 24 0.49
49 25 0.51
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.15
Consensus pattern (49 bp):
AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAAGGGGGACAAGGT
Found at i:52876495 original size:39 final size:38
Alignment explanation
Indices: 52876398--52876513 Score: 153
Period size: 38 Copynumber: 3.0 Consensus size: 38
52876388 TATTATAGTT
*
52876398 TGAGTCTTTAATTATGTCTTAATTTGAACATTATTAATA
1 TGAGT-TTTAATTATGTCATAATTTGAACATTATTAATA
*
52876437 TGAGTTTTAATTATATCATAATTTGAACATTATTAATA
1 TGAGTTTTAATTATGTCATAATTTGAACATTATTAATA
* * *
52876475 TGGGTTTTTAATTATGTCATAGTTCGAACATGT-TTAATA
1 TGAG-TTTTAATTATGTCATAATTTGAACAT-TATTAATA
52876514 CTTGTTTTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 34 0.49
39 34 0.49
40 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (38 bp):
TGAGTTTTAATTATGTCATAATTTGAACATTATTAATA
Found at i:52882852 original size:24 final size:24
Alignment explanation
Indices: 52882825--52882872 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
52882815 ACTCTGTTAG
52882825 TTGTCA-TAGTCGAGTTATAGTCTT
1 TTGTCATTA-TCGAGTTATAGTCTT
*
52882849 TTGTCATTATTGAGTTATAGTCTT
1 TTGTCATTATCGAGTTATAGTCTT
52882873 ACACCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (24 bp):
TTGTCATTATCGAGTTATAGTCTT
Found at i:52886771 original size:29 final size:29
Alignment explanation
Indices: 52886738--52886795 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
52886728 AAATTAAGTA
*
52886738 TAAATTCAAGATATTTTCCATTAAACCAG
1 TAAATTCAAGAAATTTTCCATTAAACCAG
52886767 TAAATTCAAGAAATTTTCCATTAAACCAG
1 TAAATTCAAGAAATTTTCCATTAAACCAG
52886796 CCCCCAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAATTCAAGAAATTTTCCATTAAACCAG
Found at i:52889418 original size:25 final size:24
Alignment explanation
Indices: 52889384--52889468 Score: 107
Period size: 25 Copynumber: 3.5 Consensus size: 24
52889374 TCCTATACAT
52889384 GTATGCTCATACTAGCTCTGAATCG
1 GTATGCTCATACTAGCTCT-AATCG
52889409 GTATGCTCATACTAGCTCTAAATCG
1 GTATGCTCATACTAGCTCT-AATCG
* * * *
52889434 GTATGCTCTTACGAGCTGTAAACG
1 GTATGCTCATACTAGCTCTAATCG
*
52889458 GTAAGCTCATA
1 GTATGCTCATA
52889469 TGAGCTGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 13 0.25
25 40 0.75
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (24 bp):
GTATGCTCATACTAGCTCTAATCG
Found at i:52889489 original size:25 final size:24
Alignment explanation
Indices: 52889404--52889502 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 24
52889394 ACTAGCTCTG
* * *
52889404 AATCGGTATGCTCATACTAGCTCTA
1 AATCGGTAAGCTCATACGAGCT-GA
* *
52889429 AATCGGTATGCTCTTACGAGCTGTA
1 AATCGGTAAGCTCATACGAGCTG-A
*
52889454 AA-CGGTAAGCTCATATGAGCTGA
1 AATCGGTAAGCTCATACGAGCTGA
*
52889477 ATATCGGTAAGCTCATGCGAGCTGA
1 A-ATCGGTAAGCTCATACGAGCTGA
52889502 A
1 A
52889503 GATCTATAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.03
24 18 0.29
25 43 0.68
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGA
Found at i:52889512 original size:25 final size:25
Alignment explanation
Indices: 52889438--52889515 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
52889428 AAATCGGTAT
* *
52889438 GCTCTTACGAGCTGTAA-A-CGGTAA
1 GCTCATACGAGCTG-AAGATCGATAA
* * *
52889462 GCTCATATGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAAGATCGATAA
* *
52889487 GCTCATGCGAGCTGAAGATCTATAA
1 GCTCATACGAGCTGAAGATCGATAA
52889512 GCTC
1 GCTC
52889516 TCTTGATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.04
24 13 0.29
25 30 0.67
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGAAGATCGATAA
Found at i:52897967 original size:28 final size:28
Alignment explanation
Indices: 52897836--52897990 Score: 136
Period size: 28 Copynumber: 5.6 Consensus size: 28
52897826 AACATGCCAG
* * * *
52897836 GAAAAAGAAAGCCTTTGTAGTGATCTAA
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
* *
52897864 GAAAAAGGGAGCCTTTGTGGCGATCTAC
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
*
52897892 GAAAAATGG--GCCTTTGTGGTGA-CTTAT
1 GAAAAA-GGAAGCCTTTGTGGCGATC-TAT
* ** * *
52897919 AAAAAAGGAAGTGTTTGTGGCAACCTAT
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
*
52897947 GAAAAAGGAAGCCTTTGTGGCAATCTAT
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
* *
52897975 GAAAATGAAAGCCTTT
1 GAAAAAGGAAGCCTTT
52897991 TATGGTGATT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 19 0.18
28 79 0.76
29 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (28 bp):
GAAAAAGGAAGCCTTTGTGGCGATCTAT
Found at i:52904880 original size:29 final size:29
Alignment explanation
Indices: 52904821--52905205 Score: 303
Period size: 29 Copynumber: 13.2 Consensus size: 29
52904811 GCACCGATTA
* * *
52904821 ATGAAAA-GGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * ** *
52904849 ATGAAAATGAATGGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
*
52904878 ATGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
*
52904907 ATGAAAAGGGATGGTGATGACCATCGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * *
52904936 ATGAAAAGGGATAGT-TTCGACTATCGACT
1 ATGAAAAGGGATGGTGAT-GACCATCGACT
* * *
52904965 ATGAAAAGGGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* ** *
52904994 ATGAAAAGGGATAGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * *
52905023 ATGAAAAGGGATAGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * ** * *
52905052 AT-AAAATGGGATAGCT-TTTTCTATTGACT
1 ATGAAAA-GGGAT-GGTGATGACCATCGACT
* *
52905081 ATGAAAAGGGATGGCGATGACCATCAACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * *
52905110 ATGAAAACGGATTGTGATGACCATCGATT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * * *
52905139 AATGAAAAAGGCTGGT-TTCGACCATCGAAT
1 -ATGAAAAGGGATGGTGAT-GACCATCGACT
* * * *
52905169 ATGCAAAAGGGATGGTGACGAACAACGAAT
1 ATG-AAAAGGGATGGTGATGACCATCGACT
52905199 ATGAAAA
1 ATGAAAA
52905206 TGAATGGTTT
Statistics
Matches: 276, Mismatches: 70, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
28 13 0.05
29 214 0.78
30 49 0.18
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGATGACCATCGACT
Found at i:52909060 original size:17 final size:18
Alignment explanation
Indices: 52909030--52909063 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
52909020 AGCAACTCAT
52909030 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
52909048 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
52909064 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:52912360 original size:30 final size:30
Alignment explanation
Indices: 52912326--52912448 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 30
52912316 AATAACATTA
*
52912326 ACCATCGATTAATGAAAAGGGATGGTGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
* * *
52912356 ACCATCAACT-ATGAAAAGGGGTGGCGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
***
52912385 ACCATCAATTAATGAAAAGGGATGGTTTTG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
* **
52912415 ACCATCGA-GGATGAAAAGGGATGGTGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
52912444 ACCAT
1 ACCAT
52912449 TGTTTAGTAC
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
29 47 0.62
30 29 0.38
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (30 bp):
ACCATCAATTAATGAAAAGGGATGGTGACG
Found at i:52912418 original size:59 final size:59
Alignment explanation
Indices: 52912326--52912448 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 59
52912316 AATAACATTA
* * *
52912326 ACCATCGATTAATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGGTGGCGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACGACCATCAACGATGAAAAGGGATGGCGACG
*** * * *
52912385 ACCATCAATTAATGAAAAGGGATGGTTTTGACCATCGAGGATGAAAAGGGATGGTGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACGACCATCAACGATGAAAAGGGATGGCGACG
52912444 ACCAT
1 ACCAT
52912449 TGTTTAGTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (59 bp):
ACCATCAATTAATGAAAAGGGATGGTGACGACCATCAACGATGAAAAGGGATGGCGACG
Found at i:52917779 original size:40 final size:39
Alignment explanation
Indices: 52917735--52917856 Score: 145
Period size: 40 Copynumber: 3.1 Consensus size: 39
52917725 ATATTATTTA
* * *
52917735 ATTCATGATTACCAAAGTACAAACAGGGGCATGTACGTGC
1 ATTCAGGA-TACCAAAGTACAAACAGGGGCACGTATGTGC
* *
52917775 ATTCAGGGATGCCAAAGTACAAACAGGGGCACATATGTGC
1 ATTCA-GGATACCAAAGTACAAACAGGGGCACGTATGTGC
* **
52917815 ATTCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCA-GGATACCAAAGTACAAACAGGGGCACGTATGTGC
52917855 AT
1 AT
52917857 CCATTGAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 69 0.97
41 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (39 bp):
ATTCAGGATACCAAAGTACAAACAGGGGCACGTATGTGC
Found at i:52921176 original size:16 final size:18
Alignment explanation
Indices: 52921142--52921196 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 18
52921132 CAAAAGGAGA
52921142 TTTAGAGGTTTTAAGGAT
1 TTTAGAGGTTTTAAGGAT
52921160 TTTAG-GGTTTT-AGGAT
1 TTTAGAGGTTTTAAGGAT
52921176 TTTA-AGAG-TTTAGAGGAT
1 TTTAGAG-GTTTTA-AGGAT
52921194 TTT
1 TTT
52921197 GAAAGAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 13 0.39
17 7 0.21
18 13 0.39
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (18 bp):
TTTAGAGGTTTTAAGGAT
Found at i:52928524 original size:34 final size:34
Alignment explanation
Indices: 52928481--52928548 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
52928471 AAAAGTACCG
52928481 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
1 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
52928515 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
1 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
52928549 CCGGGGCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (34 bp):
TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
Found at i:52931865 original size:44 final size:44
Alignment explanation
Indices: 52931802--52931890 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
52931792 CTTGTAACGC
* *
52931802 ATAGGTTTTTGCAAGTGTACACAGTCGTTATCAATTAATAAGTA
1 ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
52931846 ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
1 ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
52931890 A
1 A
52931891 GTATCAAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (44 bp):
ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
Found at i:52936149 original size:24 final size:24
Alignment explanation
Indices: 52936118--52936174 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
52936108 CATCGATTTC
52936118 CTCTCCATCTCAAATTCGGGTGAT
1 CTCTCCATCTCAAATTCGGGTGAT
*
52936142 CTCTCCATCTCAAATTCGGTTGAT
1 CTCTCCATCTCAAATTCGGGTGAT
52936166 CTCTCCATC
1 CTCTCCATC
52936175 CAGGATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (24 bp):
CTCTCCATCTCAAATTCGGGTGAT
Found at i:52937744 original size:27 final size:27
Alignment explanation
Indices: 52937714--52937844 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
52937704 TTTCATCTCC
** *
52937714 TAGGGGTATAACAATCATTTTACCCAA
1 TAGGGGTATTTCAATCATTTTACCCTA
**
52937741 TAGGGGTATTTCGGTCATTTT-CCCTA
1 TAGGGGTATTTCAATCATTTTACCCTA
*
52937767 TGGGGGTATTTCAATCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCCTA
***
52937794 TAGGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCCTA
* **
52937821 TGGGGGTATTTCGGTCATTTTACC
1 TAGGGGTATTTCAATCATTTTACC
52937845 TATTTTAGGG
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.25
27 67 0.75
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTCAATCATTTTACCCTA
Found at i:52937847 original size:53 final size:53
Alignment explanation
Indices: 52937716--52937844 Score: 195
Period size: 53 Copynumber: 2.4 Consensus size: 53
52937706 TCATCTCCTA
** *
52937716 GGGGTATAACAATCATTTTACCCAATAGGGGTATTTCGGTCATTTTCCCTATG
1 GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTCCCTATG
*
52937769 GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTT-CCCTATG
**
52937823 GGGGTATTTCGGTCATTTTACC
1 GGGGTATTTCAATCATTTTACC
52937845 TATTTTAGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 42 0.61
54 27 0.39
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (53 bp):
GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTCCCTATG
Found at i:52951917 original size:39 final size:39
Alignment explanation
Indices: 52951833--52951978 Score: 133
Period size: 38 Copynumber: 3.8 Consensus size: 39
52951823 TAAACACATG
* * *
52951833 TATTAAAGATGTCTAAACTAGGACAT-ATTTAAAA-CAT
1 TATTAAAGATGTCTAAACTATGACATAATTAAAAACCCT
52951870 ATATTTAAA-ATGTCCTAAACTATGACATAATTAAAAACCCT
1 -TA-TTAAAGATGT-CTAAACTATGACATAATTAAAAACCCT
* * * *
52951911 TATTAAAGATGT-TAGATTATGACATAATT-AAAACTCA
1 TATTAAAGATGTCTAAACTATGACATAATTAAAAACCCT
* *
52951948 TATTAATGATGT-TCAAATTATGACATAATTA
1 TATTAAAGATGTCT-AAACTATGACATAATTA
52951979 TAGACTTAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
37 18 0.20
38 36 0.39
39 23 0.25
40 13 0.14
41 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (39 bp):
TATTAAAGATGTCTAAACTATGACATAATTAAAAACCCT
Found at i:52954560 original size:112 final size:112
Alignment explanation
Indices: 52954363--52954591 Score: 386
Period size: 112 Copynumber: 2.0 Consensus size: 112
52954353 GCATAACCAA
* * *
52954363 CCACTCGTACAAACCGTGCTTTGTCTTAAATTTCATTTTCCACTAATCTCCTTCTCGCATTCATA
1 CCACTCGTACAAACCGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCAGA
*
52954428 TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGGCT
66 TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
* *
52954475 CCACTCGTACAAACTGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCGGA
1 CCACTCGTACAAACCGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCAGA
**
52954540 TCTGGTGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
66 TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
52954587 CCACT
1 CCACT
52954592 TAGTTCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (112 bp):
CCACTCGTACAAACCGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCAGA
TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
Found at i:52955173 original size:22 final size:21
Alignment explanation
Indices: 52955137--52955196 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
52955127 TCTCTTTATT
*
52955137 CTTTTCCCTTGTTTTTACCTCTTG
1 CTTTT-CCTTTTTTTTA-CT-TTG
*
52955161 C-TTTCCTTTTTTTTAGTTTG
1 CTTTTCCTTTTTTTTACTTTG
52955181 CTTTTCCTTTTCTTTT
1 CTTTTCCTTTT-TTTT
52955197 TCAATCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
22 14 0.44
23 3 0.09
24 1 0.03
ACGTcount: A:0.03, C:0.23, G:0.07, T:0.67
Consensus pattern (21 bp):
CTTTTCCTTTTTTTTACTTTG
Found at i:52958417 original size:38 final size:39
Alignment explanation
Indices: 52958370--52958458 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
52958360 TGTCCTAAAC
* *
52958370 TATGACATAATTAAAAACCCTTATTAAA-GATG-TCATAT
1 TATGACATAATTAAAAACCCATA-TAAATGATGTTCAAAT
*
52958408 TATGACATAATT-AAAACTCATATAAATGATGTTCAAAT
1 TATGACATAATTAAAAACCCATATAAATGATGTTCAAAT
52958446 TATGACATAATTA
1 TATGACATAATTA
52958459 TAGACTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 4 0.09
37 12 0.27
38 29 0.64
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (39 bp):
TATGACATAATTAAAAACCCATATAAATGATGTTCAAAT
Found at i:52960940 original size:21 final size:21
Alignment explanation
Indices: 52960914--52960957 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52960904 AAGATTTTCC
52960914 ATAAAACTCTATTTACAAGTT
1 ATAAAACTCTATTTACAAGTT
* * *
52960935 ATAAAACTTTGTTTTCAAGTT
1 ATAAAACTCTATTTACAAGTT
52960956 AT
1 AT
52960958 GTTTTAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (21 bp):
ATAAAACTCTATTTACAAGTT
Found at i:52965906 original size:17 final size:17
Alignment explanation
Indices: 52965886--52965920 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52965876 TGATTCAATA
*
52965886 TCTAGCGTTTCTTGGTT
1 TCTAGAGTTTCTTGGTT
*
52965903 TCTAGAGTTTCTTTGTT
1 TCTAGAGTTTCTTGGTT
52965920 T
1 T
52965921 AGGCCTAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.57
Consensus pattern (17 bp):
TCTAGAGTTTCTTGGTT
Found at i:52966837 original size:31 final size:31
Alignment explanation
Indices: 52966796--52966868 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
52966786 GTTTCAAAAA
* * *
52966796 TTTTCATTTAAATCATTAAACTATT-TACAAT
1 TTTTTATTTAAATCACTAAACTATTCGA-AAT
* *
52966827 TTTTTATTTAAGTCACTAAATTATTCGAAAT
1 TTTTTATTTAAATCACTAAACTATTCGAAAT
52966858 TTTTTATTTAA
1 TTTTTATTTAA
52966869 GTTGCGCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTTATTTAAATCACTAAACTATTCGAAAT
Found at i:52970001 original size:9 final size:9
Alignment explanation
Indices: 52969987--52970023 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
52969977 TATAGTTTGA
52969987 TATTCGAAT
1 TATTCGAAT
52969996 TATTCGAAT
1 TATTCGAAT
*
52970005 TATTCGAGT
1 TATTCGAAT
52970014 TATTCGAAT
1 TATTCGAAT
52970023 T
1 T
52970024 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:52973186 original size:24 final size:26
Alignment explanation
Indices: 52973159--52973209 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
52973149 ATATACATAT
*
52973159 ACATGTAGATATTT-ATA-TTTTATA
1 ACATATAGATATTTCATATTTTTATA
* *
52973183 ACATATATATTTTTCATATTTTTATA
1 ACATATAGATATTTCATATTTTTATA
52973209 A
1 A
52973210 TTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (26 bp):
ACATATAGATATTTCATATTTTTATA
Found at i:52973776 original size:108 final size:108
Alignment explanation
Indices: 52973489--52973897 Score: 536
Period size: 108 Copynumber: 3.8 Consensus size: 108
52973479 TCTAATTGAT
* * * * *
52973489 GCAATATTTAGCGTTTGGAAACTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGGTCTTTCTCGT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
** * *
52973554 TCAACCAAACGGCTTAATATCTTTTTCAAAAATTT-CAAAATAAG
66 TCAACCAAATAGCTAAATAT-TCTTTC-AAAATTTACAAAATAAG
* * * *
52973598 GTAATGTTCTACGTTTGGAAATTCGAGAAAACATGCCCTAAAGTGCTGGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
52973663 TTCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
65 TTCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
* * *
52973707 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTGTCGATTTTTCTCGT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
* *
52973772 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATAAG
66 TCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
* * * * *
52973815 GCAATGTTTTGTGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
* * *
52973878 TTAACCAAATTGCCAAATAT
66 TCAACCAAATAGCTAAATAT
52973898 CCTCTTGAAT
Statistics
Matches: 269, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
106 25 0.09
108 133 0.49
109 59 0.22
110 52 0.19
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (108 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
TCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
Found at i:52985723 original size:46 final size:43
Alignment explanation
Indices: 52985627--52985877 Score: 176
Period size: 41 Copynumber: 5.8 Consensus size: 43
52985617 TTAAAATAAA
* * * *
52985627 AGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT--CGCATC
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGATGAAGAATC
*
52985668 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACTGAAGAATTTC
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGA-TGAAGAA--TC
* * * *
52985714 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGA-TGAAG-AATC
* * * * * *
52985758 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGAT--CGCATC
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGATGAAGAATC
* * * * *
52985799 A-AGTCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCA-G
1 AGA-TCTTATCTCTCTGAGGTTACAGTGGAGTAGA-TGAAG-AATC
*
52985843 AGATCTTATCT-TCTTGAGATTACAGTGGAGTAGAT
1 AGATCTTATCTCTC-TGAGGTTACAGTGGAGTAGAT
52985878 CGCATCAAGT
Statistics
Matches: 174, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.02
41 63 0.36
42 2 0.01
43 3 0.02
44 61 0.35
45 3 0.02
46 38 0.22
47 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGATGAAGAATC
Found at i:52985781 original size:44 final size:44
Alignment explanation
Indices: 52985538--52985898 Score: 260
Period size: 44 Copynumber: 8.4 Consensus size: 44
52985528 GGTGAATATT
* * * * *
52985538 AGAGATCTTATCTCCCCGAGATTACGGCGGAGCAGATCGAAGAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
** * * * * *
52985582 A-CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTC
* * * * * *
52985625 AAAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTC
* * * * *
52985668 AG-G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACTGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--TC
** * *
52985712 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
* * *
52985756 AGAGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
* * *
52985799 A-AG-TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
* * * * *
52985841 AGAGATCTTATCTTCTTGAGATTACAGTGGAGTAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
52985884 A-AG-TCTTATCTCCCT
1 AGAGATCTTATCTCCCT
52985899 AAGCAGTAGT
Statistics
Matches: 248, Mismatches: 58, Indels: 25
0.75 0.18 0.08
Matches are distributed among these distances:
41 73 0.29
42 8 0.03
43 37 0.15
44 95 0.38
45 1 0.00
46 34 0.14
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
Found at i:52985781 original size:131 final size:131
Alignment explanation
Indices: 52985589--52985838 Score: 358
Period size: 131 Copynumber: 1.9 Consensus size: 131
52985579 GACACTATCC
* * *
52985589 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAAGATCTTATCTCCCTGAAGTTACAGTA
* * * * *
52985654 GAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACTGAAGAATTTCAGATC
66 GAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGACTGAAGAATTTCAGATC
52985719 T
131 T
* * * * *
52985720 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAAGATCTTATCTCCCTGAAG-TTACAGT
*
52985784 AGAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAG
65 AGAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGACTGAAG
52985839 CCAGAGATCT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
130 2 0.02
131 102 0.98
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAAGATCTTATCTCCCTGAAGTTACAGTA
GAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGACTGAAGAATTTCAGATC
T
Found at i:52985816 original size:85 final size:85
Alignment explanation
Indices: 52985717--52985898 Score: 319
Period size: 85 Copynumber: 2.1 Consensus size: 85
52985707 GAATTTCAGA
*
52985717 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
52985782 GTAGAGCAGATCGCATCAAG
66 GTAGAGCAGATCGCATCAAG
* *
52985802 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTTCTTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
* *
52985867 GTGGAGTAGATCGCATCAAG
66 GTAGAGCAGATCGCATCAAG
52985887 TCTTATCTCCCT
1 TCTTATCTCCCT
52985899 AAGCAGTAGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
GTAGAGCAGATCGCATCAAG
Found at i:52988227 original size:108 final size:108
Alignment explanation
Indices: 52987956--52988354 Score: 527
Period size: 108 Copynumber: 3.7 Consensus size: 108
52987946 ATATTTAGCA
* * * * *
52987956 TTTGGAAACTCTAGAAACATGCCCTAAGGTGCTGGGTGTCGGTCTTTCTCGTTCAACCAAA-CGA
1 TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG-
* * ** *
52988020 CTTAATATCTTTTTCAAAAATTT-CAAAATAAGATAATGTTCTGCG
65 CTAAATATC-CTTTC-AAAATTTACAAAATAAGGCAATGTTTTGCG
*
52988065 TTTGGAAATTCGAGAAAACATGCCCTAAAGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
52988130 CTAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
65 CTAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
* *
52988174 TTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
1 TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
* *
52988239 TAAATATCCTTTCAAAAATTACAAAATAAGGCAATGTTTTGCA
66 TAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
* * * * * * *
52988282 TTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTAGGTTTCGA--TTTCTCGTTTAACCAAATTGC
1 TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
*
52988345 CAAATATCCT
66 TAAATATCCT
52988355 CTTGAATTTT
Statistics
Matches: 265, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
106 28 0.11
108 135 0.51
109 49 0.18
110 52 0.20
111 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (108 bp):
TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
TAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
Found at i:52993762 original size:7 final size:7
Alignment explanation
Indices: 52993751--52993782 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
52993741 ACTGCTACAC
*
52993751 TGCTCTC
1 TGCTCTT
52993758 TGCTCTT
1 TGCTCTT
52993765 TGCTCTT
1 TGCTCTT
52993772 TGCTCTT
1 TGCTCTT
52993779 TGCT
1 TGCT
52993783 GGTTCCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.31, G:0.16, T:0.53
Consensus pattern (7 bp):
TGCTCTT
Found at i:52993804 original size:21 final size:21
Alignment explanation
Indices: 52993780--52993821 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
52993770 TTTGCTCTTT
52993780 GCTGGTTCCCTCTGCTGCTAC
1 GCTGGTTCCCTCTGCTGCTAC
*
52993801 GCTGGTTCTCTCTGCTGCTAC
1 GCTGGTTCCCTCTGCTGCTAC
52993822 ACTACTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.36, G:0.24, T:0.36
Consensus pattern (21 bp):
GCTGGTTCCCTCTGCTGCTAC
Found at i:52994974 original size:16 final size:16
Alignment explanation
Indices: 52994950--52994980 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52994940 TAAAATTTTT
52994950 ATACCGTTTTTTGTTA
1 ATACCGTTTTTTGTTA
*
52994966 ATACTGTTTTTTGTT
1 ATACCGTTTTTTGTT
52994981 CATGTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (16 bp):
ATACCGTTTTTTGTTA
Found at i:52996301 original size:72 final size:72
Alignment explanation
Indices: 52996184--52996347 Score: 233
Period size: 72 Copynumber: 2.3 Consensus size: 72
52996174 CGAAGTATGT
* * * * *
52996184 TTTTATCAATAGTTATTTATGTTTAGTTTTTAGATATTGAATTTATGTTCTACTTATTTATGT-G
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTT-TGTAC
52996248 T-AATCTAG
65 TAAAT-TAG
* *
52996256 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACT
52996321 AAATTAG
66 AAATTAG
52996328 TTTTATTAATAGTTGTTTAT
1 TTTTATTAATAGTTGTTTAT
52996348 ATGTGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
71 2 0.02
72 78 0.94
73 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (72 bp):
TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACT
AAATTAG
Found at i:52998108 original size:13 final size:13
Alignment explanation
Indices: 52998087--52998147 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
52998077 ACACTCAAAA
52998087 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
52998100 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
52998113 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
52998126 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
52998139 TTTTTAAAA
1 TTTTCAAAA
52998148 ATAATGAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:52998515 original size:11 final size:11
Alignment explanation
Indices: 52998499--52998527 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
52998489 GGTATTAAAA
52998499 TATTTTTATTC
1 TATTTTTATTC
52998510 TA-TTTTATTC
1 TATTTTTATTC
52998520 TATTTTTA
1 TATTTTTA
52998528 ATTCCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTTATTC
Found at i:53000783 original size:35 final size:34
Alignment explanation
Indices: 53000735--53000906 Score: 218
Period size: 35 Copynumber: 4.9 Consensus size: 34
53000725 ACAAATTTGT
* *
53000735 CTTAGATGAGTCTATCCCAACCTTTTTAAGGTTGC
1 CTTAGACGAGTCTATCCCAACC-TTTTAAGGTTGA
* *
53000770 CTTAGACGTGTCTATCCCAACCCATTTAAGGTTGA
1 CTTAGACGAGTCTATCCCAA-CCTTTTAAGGTTGA
*
53000805 CTTAGACGAGTCTATCCCAACCCTTTTCAGGTTGA
1 CTTAGACGAGTCTATCCCAA-CCTTTTAAGGTTGA
* * *
53000840 CTTAGATGAGTCTATCCCAATCCTTCTAAGGTTGC
1 CTTAGACGAGTCTATCCCAA-CCTTTTAAGGTTGA
*
53000875 CTTAGACGAGCCTATCCCAACACTTTTAAGGT
1 CTTAGACGAGTCTATCCCAAC-CTTTTAAGGT
53000907 CACTTTTGAC
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
34 1 0.01
35 117 0.98
36 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (34 bp):
CTTAGACGAGTCTATCCCAACCTTTTAAGGTTGA
Found at i:53001623 original size:35 final size:35
Alignment explanation
Indices: 53001517--53001629 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
53001507 CCATTACAAA
* * *
53001517 GTTGCCTTAAATGGGTCAATCCCAACCTTTTTAAG
1 GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
* *
53001552 GGTACCTTAGACGGGTCTATCCCAACCTTTTTAAG
1 GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
* *
53001587 GTTGCTTTAGACGGGTCTATCCTAACCTTTTTAAG
1 GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
53001622 GTTGCCTT
1 GTTGCCTT
53001630 TGATTGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (35 bp):
GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
Found at i:53003176 original size:13 final size:14
Alignment explanation
Indices: 53003152--53003180 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
53003142 CATTAAATGT
53003152 AAATTTTCTTTTTA
1 AAATTTTCTTTTTA
53003166 AAATTTT-TTTTTA
1 AAATTTTCTTTTTA
53003179 AA
1 AA
53003181 TTTCAACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
AAATTTTCTTTTTA
Found at i:53003181 original size:12 final size:13
Alignment explanation
Indices: 53003151--53003183 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
53003141 TCATTAAATG
53003151 TAAATTTTCTTTT
1 TAAATTTTCTTTT
53003164 TAAAATTTT-TTTT
1 T-AAATTTTCTTTT
53003177 TAAATTT
1 TAAATTT
53003184 CAACTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 6 0.32
14 7 0.37
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TAAATTTTCTTTT
Found at i:53004881 original size:28 final size:30
Alignment explanation
Indices: 53004816--53004882 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
53004806 TGTGTGTTTT
* * **
53004816 TATTATTAAATCTTAATTTCTAAATAATGG
1 TATTATTTATTCTTAATTTCTAAATAATAA
53004846 TATT-TTTATTCTT-ATTTCTAAA-AATAA
1 TATTATTTATTCTTAATTTCTAAATAATAA
53004873 TATTATTTAT
1 TATTATTTAT
53004883 CAAGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.22
28 14 0.44
29 7 0.22
30 4 0.12
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (30 bp):
TATTATTTATTCTTAATTTCTAAATAATAA
Found at i:53008810 original size:11 final size:11
Alignment explanation
Indices: 53008790--53008836 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
53008780 TTGTAAAATC
53008790 CAAAA-ATTTT
1 CAAAATATTTT
53008800 C-AAATAATTTT
1 CAAAAT-ATTTT
53008811 CAAAATATTTT
1 CAAAATATTTT
53008822 CAAAATATTTT
1 CAAAATATTTT
53008833 CAAA
1 CAAA
53008837 TATCCTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 3 0.09
10 1 0.03
11 26 0.76
12 4 0.12
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (11 bp):
CAAAATATTTT
Found at i:53009637 original size:13 final size:13
Alignment explanation
Indices: 53009619--53009644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53009609 CCGTCAATGA
53009619 ATAAATGAACCAG
1 ATAAATGAACCAG
53009632 ATAAATGAACCAG
1 ATAAATGAACCAG
53009645 CAATCTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
ATAAATGAACCAG
Found at i:53011221 original size:27 final size:27
Alignment explanation
Indices: 53011204--53011381 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
53011194 ATATTAAGTC
53011204 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
53011231 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53011258 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
53011286 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
53011313 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
53011340 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
53011367 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
53011382 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:53011343 original size:82 final size:81
Alignment explanation
Indices: 53011225--53011380 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53011215 TGCTATATAA
* *
53011225 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53011290 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53011307 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53011371 CACTTAGTGC
65 CACTTAGTGC
53011381 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53011364 original size:54 final size:54
Alignment explanation
Indices: 53011204--53011380 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
53011194 ATATTAAGTC
* * * *
53011204 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
53011258 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
53011313 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
53011367 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53011381 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:53027338 original size:34 final size:34
Alignment explanation
Indices: 53027294--53027361 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
53027284 GCACAGTTGA
* *
53027294 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
53027329 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
53027362 TCAAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:53031578 original size:15 final size:16
Alignment explanation
Indices: 53031547--53031580 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
53031537 TAGTTTGCAT
*
53031547 AATATTTAGATTTTTA
1 AATATTTAGATTATTA
53031563 AATATTT-GATTATTA
1 AATATTTAGATTATTA
53031578 AAT
1 AAT
53031581 TCCTGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AATATTTAGATTATTA
Found at i:53031875 original size:17 final size:18
Alignment explanation
Indices: 53031849--53031883 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53031839 TTTGATTGCT
53031849 TATTAAATTATTT-TTAC
1 TATTAAATTATTTATTAC
*
53031866 TATTAGATTATTTATTAC
1 TATTAAATTATTTATTAC
53031884 GAAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTAAATTATTTATTAC
Found at i:53036145 original size:22 final size:22
Alignment explanation
Indices: 53036120--53036164 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
53036110 AGTCTTGAAA
53036120 ACAAATGCTAAACGATGAATCC
1 ACAAATGCTAAACGATGAATCC
*
53036142 ACAAATGCTAAATGATGAATCC
1 ACAAATGCTAAACGATGAATCC
53036164 A
1 A
53036165 ACTCACTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (22 bp):
ACAAATGCTAAACGATGAATCC
Found at i:53047186 original size:13 final size:13
Alignment explanation
Indices: 53047168--53047195 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53047158 AACTTGCGTC
53047168 TAATGGTTGTTGT
1 TAATGGTTGTTGT
53047181 TAATGGTTGTTGT
1 TAATGGTTGTTGT
53047194 TA
1 TA
53047196 CAACCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (13 bp):
TAATGGTTGTTGT
Found at i:53053804 original size:24 final size:25
Alignment explanation
Indices: 53053764--53053816 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
53053754 ATAGGAAAAG
* *
53053764 GGTTACAAGAAGATGAAATGTTAAA
1 GGTTACAAGAAGATGAAAGGTGAAA
*
53053789 GGTTA-AATAAGATGAAAGGTGAAA
1 GGTTACAAGAAGATGAAAGGTGAAA
53053813 GGTT
1 GGTT
53053817 GAACATCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.25
Consensus pattern (25 bp):
GGTTACAAGAAGATGAAAGGTGAAA
Found at i:53065288 original size:33 final size:34
Alignment explanation
Indices: 53065236--53065312 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
53065226 AAATTTAATA
* * *
53065236 TAAATATAAGTAGTTCCTTAAC-AAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
53065269 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
*
53065303 CATAACATAA
1 TA-AACATAA
53065313 CAGGAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 19 0.50
34 12 0.32
35 7 0.18
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (34 bp):
TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
Found at i:53065763 original size:24 final size:24
Alignment explanation
Indices: 53065729--53065783 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
53065719 AAGAACATGA
53065729 AAGGTTTAAGGAAGATGAAAGGTGG
1 AAGG-TTAAGGAAGATGAAAGGTGG
* *
53065754 AAGGTTAAGGGAGATTAAAGGTGG
1 AAGGTTAAGGAAGATGAAAGGTGG
53065778 AAGGTT
1 AAGGTT
53065784 GAACATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (24 bp):
AAGGTTAAGGAAGATGAAAGGTGG
Found at i:53077694 original size:14 final size:14
Alignment explanation
Indices: 53077675--53077704 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53077665 TGGATGTGTT
53077675 ATAATCTAATATAA
1 ATAATCTAATATAA
*
53077689 ATAATCTAGTATAA
1 ATAATCTAATATAA
53077703 AT
1 AT
53077705 TAGTTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAATCTAATATAA
Found at i:53081666 original size:28 final size:28
Alignment explanation
Indices: 53081625--53081691 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
53081615 ATTTTTTCTG
*
53081625 TATGTAGTCTTTCCCAACAAGTTTAGCTT
1 TATGTGGT-TTTCCCAACAAGTTTAGCTT
*
53081654 TATGTGGTTTTCCCTACAAGTTTAGCTT
1 TATGTGGTTTTCCCAACAAGTTTAGCTT
53081682 TATGTGGTTT
1 TATGTGGTTT
53081692 CACTTTCCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 29 0.81
29 7 0.19
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.46
Consensus pattern (28 bp):
TATGTGGTTTTCCCAACAAGTTTAGCTT
Found at i:53083402 original size:40 final size:38
Alignment explanation
Indices: 53083318--53083501 Score: 160
Period size: 40 Copynumber: 4.7 Consensus size: 38
53083308 TCGAATGATG
* *
53083318 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTA--ATAA
* * *
53083358 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAA
*
53083397 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTAAT-AA
* *
53083437 T-CAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA--ATAA
*
53083477 T-CGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
53083502 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 9 0.08
39 47 0.39
40 56 0.47
41 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTAATAA
Found at i:53083533 original size:79 final size:78
Alignment explanation
Indices: 53083370--53083534 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 78
53083360 CGGACTAAGA
**
53083370 TCCGAAGGCATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
53083435 AATCAGGTTAAGT
66 AATCAGGTTAAAT
* * * *
53083448 CCCGAAGGCATTTGTGCGAGTTACTATAA-T-CGGGCTATGACCCGAAGGCATTTGAATGAG-TA
1 TCCGAAGGCATTTGTGCGAGATA--ATAATTCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA
*
53083510 GCTATAT-ACGGTTAAAT
63 -CTAAATCA-GGTTAAAT
53083527 TCCGAAGG
1 TCCGAAGG
53083535 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
78 32 0.44
79 37 0.51
80 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCAGGTTAAAT
Found at i:53087551 original size:14 final size:15
Alignment explanation
Indices: 53087517--53087566 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
53087507 TTGTAAAAGG
53087517 AGAAAACAAAGAATCAA
1 AGAAAACAAA-AA-CAA
*
53087534 AGAAAATAAAAA-AA
1 AGAAAACAAAAACAA
*
53087548 AGAAAGCAAAAACAA
1 AGAAAACAAAAACAA
53087563 AGAA
1 AGAA
53087567 GGTCACCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.41
15 6 0.21
16 2 0.07
17 9 0.31
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.04
Consensus pattern (15 bp):
AGAAAACAAAAACAA
Found at i:53088730 original size:44 final size:44
Alignment explanation
Indices: 53088628--53089042 Score: 248
Period size: 44 Copynumber: 9.6 Consensus size: 44
53088618 TTCTCAGTCT
* * * *
53088628 GCTCCACTGCAACCTCAGGGAGATAAGACCTGA-TGC---GATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* * *
53088669 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
* * ** * *
53088713 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCC
* * *
53088757 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
* * * * * * *
53088801 GCTCTACTACAACTTTAGGGAGATAGGAT-TATCGACTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCC
* * * * * ** *
53088845 ACTCCACCGCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* ** * * *
53088889 GCCCCACTGTGACTTCAAGGG-GATAAGA-CT-TGT-TTTCTCAGTCT
1 GCTCCACTGCAACTTC-AGGGAGATAAGATCTAT-TACTT-T-AATCC
* * *
53088933 GCTCCACTGCAACCTCAGGGAGATAAGACCTGA-TAC---GATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* * *
53088974 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
*
53089018 GCTCCACTACAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
53089043 GGAAACTTCA
Statistics
Matches: 278, Mismatches: 74, Indels: 41
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 60 0.22
42 3 0.01
43 12 0.04
44 189 0.68
45 11 0.04
46 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
Found at i:53088781 original size:88 final size:88
Alignment explanation
Indices: 53088669--53088873 Score: 338
Period size: 88 Copynumber: 2.3 Consensus size: 88
53088659 GATGCGATCC
* *
53088669 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGA
*
53088734 GATAGGATTATCGGCTTCAATCT
66 GATAGGATTATCGACTTCAATCT
* *
53088757 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTTAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGA
53088822 GATAGGATTATCGACTTCAATCT
66 GATAGGATTATCGACTTCAATCT
* * *
53088845 ACTCCACCGCAACCTCAGGGAGATAAGAT
1 ACTCCACTGCAACTTCAGAGAGATAAGAT
53088874 TTGCTTCTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 109 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (88 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGA
GATAGGATTATCGACTTCAATCT
Found at i:53088859 original size:217 final size:218
Alignment explanation
Indices: 53088434--53088872 Score: 510
Period size: 217 Copynumber: 2.0 Consensus size: 218
53088424 TCTAGTCGGC
* * *
53088434 AAGACTTGATGCGATCTATTTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
1 AAGACCTGATGCGATCCATCTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
* *
53088499 CTACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTTAGGGAGAT
66 CCACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTTAGAGAGAT
* * *** * *** * * *** * *
53088564 AAAATTTGCTTCTTTGGTCTGCCCCACTGTGACTTCAATGGGATAAGACTTGTTTTCTCAGTCTG
131 AAAATCTGATTCTTTAACCCGCCCCACTACAACTTCAAGGGGATAAGACTTATCGACTCAATCTA
*
53088629 CTCCACTGCAACCTCAGGGAGAT
196 CTCCACCGCAACCTCAGGGAGAT
* *
53088652 AAGACCTGATGCGATCCA-CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
1 AAGACCTGATGCGATCCATCTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
* * * *
53088716 CCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAA-CTTCAGAGAGA
66 CCACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTT-AGAGAGA
* * * * *
53088780 TAAGATCT-ATTACTTTAACCCGCTCTACTACAACTT-TAGGGAGATAGGA-TTATCGACTTCAA
130 TAAAATCTGATT-CTTTAACCCGCCCCACTACAACTTCAAGGG-GATAAGACTTATCGAC-TCAA
53088842 TCTACTCCACCGCAACCTCAGGGAGAT
192 TCTACTCCACCGCAACCTCAGGGAGAT
53088869 AAGA
1 AAGA
53088873 TTTGCTTCTT
Statistics
Matches: 184, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
216 12 0.07
217 156 0.85
218 16 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (218 bp):
AAGACCTGATGCGATCCATCTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
CCACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTTAGAGAGAT
AAAATCTGATTCTTTAACCCGCCCCACTACAACTTCAAGGGGATAAGACTTATCGACTCAATCTA
CTCCACCGCAACCTCAGGGAGAT
Found at i:53089008 original size:305 final size:305
Alignment explanation
Indices: 53088457--53089045 Score: 1106
Period size: 305 Copynumber: 1.9 Consensus size: 305
53088447 ATCTATTTCT
53088457 ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
1 ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
*
53088522 GATTATCGACTTCAATCTACTCCACCGAAACCTTAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
66 GATTATCGACTTCAATCTACTCCACCGAAACCTCAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
*
53088587 CCACTGTGACTTCAATGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
131 CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
*
53088652 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
196 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
53088717 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
261 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
* * *
53088762 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTTAGGGAGATAG
1 ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
* *
53088827 GATTATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCC
66 GATTATCGACTTCAATCTACTCCACCGAAACCTCAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
53088892 CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
131 CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
53088957 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
196 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
53089022 CACTACAACTTCAGGGAGATAGGA
261 CACTACAACTTCAGGGAGATAGGA
53089046 AACTTCAGAG
Statistics
Matches: 276, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
305 276 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (305 bp):
ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
GATTATCGACTTCAATCTACTCCACCGAAACCTCAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
Found at i:53089082 original size:62 final size:62
Alignment explanation
Indices: 53088984--53089107 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
53088974 ACTCTACTGC
*
53088984 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGA
*
53089046 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGA
53089108 TTATCGACTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (62 bp):
AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGA
Found at i:53089267 original size:279 final size:279
Alignment explanation
Indices: 53088767--53089324 Score: 1062
Period size: 279 Copynumber: 2.0 Consensus size: 279
53088757 ACTCCACTGC
*
53088767 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTTAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
53088832 TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
66 TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
53088897 GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
131 GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
*
53088962 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
196 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTA
53089027 CAACTTCAGGGAGATAGGA
261 CAACTTCAGGGAGATAGGA
53089046 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
* *
53089111 TCGACTTTAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCTACT
66 TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
*
53089176 GTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
131 GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
*
53089241 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATATGATCTATTACTTTAATCCACTCCACTA
196 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTA
53089306 CAACTTCAGGGAGATAGGA
261 CAACTTCAGGGAGATAGGA
53089325 TTATCGGCTT
Statistics
Matches: 273, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
279 273 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (279 bp):
AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTA
CAACTTCAGGGAGATAGGA
Found at i:53089515 original size:127 final size:128
Alignment explanation
Indices: 53089361--53089691 Score: 547
Period size: 127 Copynumber: 2.6 Consensus size: 128
53089351 AACTTCAGGG
* *
53089361 AGATAAGATTTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
53089426 ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATAT-CTTCCTTACACTTGA
66 ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATATACTTCCTTACACTTGA
* * * * *
53089488 AGATAAGATTCACCGTCTTCAATCTGCTCCGCTACTGCTTAGAGAGAAAAGATCTGTAATTTCCC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* *
53089553 ACCTATTCCACTATTGACCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGA
66 ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATATACTTCCTTACACTTGA
* *
53089616 AGATAAGATTCGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CC
53089681 AACCTATTCCA
65 AACCTATTCCA
53089692 TTGCTAGTCA
Statistics
Matches: 186, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
127 103 0.55
128 71 0.38
129 12 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (128 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATATACTTCCTTACACTTGA
Found at i:53091004 original size:7 final size:7
Alignment explanation
Indices: 53090992--53091032 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
53090982 AGCCTCTCCA
53090992 TTTTCAT
1 TTTTCAT
53090999 TTTTCAT
1 TTTTCAT
53091006 TTTTCA-
1 TTTTCAT
53091012 TTTTCATT
1 TTTTCA-T
53091020 TTTTCAT
1 TTTTCAT
53091027 TTTTCA
1 TTTTCA
53091033 CACATTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:53091024 original size:21 final size:20
Alignment explanation
Indices: 53090990--53091032 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
53090980 TTAGCCTCTC
53090990 CATTTTCATTTTTCATTTTT
1 CATTTTCATTTTTCATTTTT
53091010 CATTTTCATTTTTTCATTTTT
1 CATTTTCA-TTTTTCATTTTT
53091031 CA
1 CA
53091033 CACATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTCATTTTTCATTTTT
Found at i:53091984 original size:26 final size:25
Alignment explanation
Indices: 53091923--53091984 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
53091913 TTTATTTTTC
53091923 ATTTTCATTTTTTGTTTCAACTTTG
1 ATTTTCATTTTTTGTTTCAACTTTG
**
53091948 ATTTTTC-TTTTTTGCTTTTGACTTTG
1 A-TTTTCATTTTTTG-TTTCAACTTTG
* *
53091974 CTTTTGATTTT
1 ATTTTCATTTT
53091985 CTTTTTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.11, C:0.11, G:0.10, T:0.68
Consensus pattern (25 bp):
ATTTTCATTTTTTGTTTCAACTTTG
Found at i:53097963 original size:17 final size:17
Alignment explanation
Indices: 53097922--53097968 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
53097912 TCCGTTTTTT
53097922 AAAAG-AAGAAAATAAA
1 AAAAGAAAGAAAATAAA
* **
53097938 GAATCAAAGAAAATAAA
1 AAAAGAAAGAAAATAAA
53097955 AAAAGAAAGCAAAA
1 AAAAGAAAG-AAAA
53097969 ACAGAGAAGG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 2 0.09
17 17 0.74
18 4 0.17
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAGAAAGAAAATAAA
Found at i:53105555 original size:40 final size:39
Alignment explanation
Indices: 53105467--53105567 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 39
53105457 TTAGATGCGT
* * * *
53105467 AATAGAGGCATTGGAGTGCAAACAGAGGCACAAATGTGC
1 AATAGAGGCACTGAAGTGCAAACAAAGACACAAATGTGC
* * *
53105506 AATTGGAGGCACTGTAGTGCAAACAAAGACACCAAA-GTGT
1 AA-TAGAGGCACTGAAGTGCAAACAAAGACA-CAAATGTGC
*
53105546 ATATAGAGGCACCGAAGTGCAA
1 A-ATAGAGGCACTGAAGTGCAA
53105568 TCCCATCATA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.04
40 43 0.86
41 5 0.10
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.16
Consensus pattern (39 bp):
AATAGAGGCACTGAAGTGCAAACAAAGACACAAATGTGC
Found at i:53107713 original size:21 final size:20
Alignment explanation
Indices: 53107683--53107721 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
53107673 CAAGATAAAA
53107683 AAATAGATTAAATTTAATATT
1 AAATAGATTAAA-TTAATATT
*
53107704 AAATATATTAAATTAATA
1 AAATAGATTAAATTAATA
53107722 GAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATAGATTAAATTAATATT
Found at i:53113922 original size:40 final size:40
Alignment explanation
Indices: 53113685--53113908 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
53113675 TGAATGATGT
* * * *
53113685 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
53113725 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
53113765 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53113803 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53113844 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53113884 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53113909 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:53113930 original size:119 final size:119
Alignment explanation
Indices: 53113684--53113941 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
53113674 TTGAATGATG
* *
53113684 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
53113749 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
53113803 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
53113866 TTGTGCGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
53113923 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
53113942 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 31 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:53116393 original size:22 final size:22
Alignment explanation
Indices: 53116366--53116409 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53116356 AGTGGATTAA
53116366 GGTAATTTGATAGTAAAAATTT
1 GGTAATTTGATAGTAAAAATTT
53116388 GGTAATTTGATAGTAAAAATTT
1 GGTAATTTGATAGTAAAAATTT
53116410 TTCTATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (22 bp):
GGTAATTTGATAGTAAAAATTT
Found at i:53122667 original size:133 final size:133
Alignment explanation
Indices: 53122429--53122693 Score: 496
Period size: 133 Copynumber: 2.0 Consensus size: 133
53122419 AAGGGACAGC
*
53122429 GCCGGTGGACTCTCAACCTAATGCTAGTAACCTGAATGATGAAGCTAGACAAGCTTTCTATAGCG
1 GCCGGCGGACTCTCAACCTAATGCTAGTAACCTGAATGATGAAGCTAGACAAGCTTTCTATAGCG
53122494 TGATGAATGATTGGTTCAACCAATACATTCGAACTAATACGGCTGTTCCACAACCTCCGTTCCCG
66 TGATGAATGATTGGTTCAACCAATACATTCGAACTAATACGGCTGTTCCACAACCTCCGTTCCCG
53122559 ACG
131 ACG
*
53122562 GCCGGCGGACTCTCAACCTAATGCTAGTAATCC-GAATGATGAAGCTAGACAAGCTTTCTATAGT
1 GCCGGCGGACTCTCAACCTAATGCTAGTAA-CCTGAATGATGAAGCTAGACAAGCTTTCTATAGC
53122626 GTGATGAATGATTGGTTCAACCAATACATTCGAACTAATACGGCTGTTCCACAACCTCCGTTCCC
65 GTGATGAATGATTGGTTCAACCAATACATTCGAACTAATACGGCTGTTCCACAACCTCCGTTCCC
53122691 GAC
130 GAC
53122694 TAATACAACC
Statistics
Matches: 129, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
133 127 0.98
134 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (133 bp):
GCCGGCGGACTCTCAACCTAATGCTAGTAACCTGAATGATGAAGCTAGACAAGCTTTCTATAGCG
TGATGAATGATTGGTTCAACCAATACATTCGAACTAATACGGCTGTTCCACAACCTCCGTTCCCG
ACG
Found at i:53125937 original size:60 final size:60
Alignment explanation
Indices: 53125863--53125984 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
53125853 GTTGCGGACG
53125863 CCTTAAGCCAGAAATCATTGTTTGCTTTACGAGCGATGAATGTGCACTTGTCTGTTCTAC
1 CCTTAAGCCAGAAATCATTGTTTGCTTTACGAGCGATGAATGTGCACTTGTCTGTTCTAC
*
53125923 CCTTAAGCCGGAAATCATTGTTTGCTTTACGAGCGATGAATGTGCACTTGTCTGTTCTAC
1 CCTTAAGCCAGAAATCATTGTTTGCTTTACGAGCGATGAATGTGCACTTGTCTGTTCTAC
53125983 CC
1 CC
53125985 GACAAAGTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (60 bp):
CCTTAAGCCAGAAATCATTGTTTGCTTTACGAGCGATGAATGTGCACTTGTCTGTTCTAC
Found at i:53130914 original size:5 final size:6
Alignment explanation
Indices: 53130902--53130956 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
53130892 AAATTAAATG
* * * *
53130902 AATAAA AATAAA AATAAA AATAAA AAT-GA AACAAA ATTAAA AATAGGA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA-AA
53130950 AATAAA A
1 AATAAA A
53130957 GTTATTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.08
6 31 0.79
7 5 0.13
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:53130956 original size:29 final size:27
Alignment explanation
Indices: 53130892--53130956 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
53130882 TAATCAAAAT
*
53130892 AAATTAAATGAATAAAAATAAAAATAA
1 AAATAAAATGAATAAAAATAAAAATAA
*
53130919 AAATAAAAATGAA-ACAAAATTAAAAATAGG
1 AAAT-AAAATGAATA-AAAA-TAAAAATA-A
53130949 AAATAAAA
1 AAATAAAA
53130957 GTTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 5 0.16
28 11 0.34
29 12 0.38
30 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (27 bp):
AAATAAAATGAATAAAAATAAAAATAA
Found at i:53136653 original size:23 final size:23
Alignment explanation
Indices: 53136623--53136674 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
53136613 CAAATTAGAA
*
53136623 GTAATTCATGGTAGACATCCCTT
1 GTAATTCATGGTACACATCCCTT
53136646 GTAATTCATGGTACACATCCCTT
1 GTAATTCATGGTACACATCCCTT
*
53136669 GAAATT
1 GTAATT
53136675 TTTTAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (23 bp):
GTAATTCATGGTACACATCCCTT
Found at i:53140109 original size:275 final size:275
Alignment explanation
Indices: 53139612--53140162 Score: 1030
Period size: 275 Copynumber: 2.0 Consensus size: 275
53139602 AATTTGCAAA
* *
53139612 ATAATAAAAATGGTGCGAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAATACTT
1 ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
*
53139677 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATCGATAGTCTCAAAATTTAGGGCATG
66 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
* *
53139742 ACCACTTTTTCTCGATTCACAAGCCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
131 ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
53139807 CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
196 CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
53139872 TGAGATCGTCTCCAT
261 TGAGATCGTCTCCAT
53139887 ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
1 ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
53139952 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
66 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
53140017 ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
131 ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
* * *
53140082 CGTGTGTGAATGTGATGTTCGGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
196 CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
53140147 TGAGATCGTCTCCAT
261 TGAGATCGTCTCCAT
53140162 A
1 A
53140163 GGGATTAGAG
Statistics
Matches: 268, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
275 268 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (275 bp):
ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
TGAGATCGTCTCCAT
Found at i:53145106 original size:30 final size:30
Alignment explanation
Indices: 53145072--53145146 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
53145062 GGTTGATACC
* * *
53145072 TCCCTTTTCGTAATTCCATAATCGAAGTTA
1 TCCCTTTTCATAATTCCATAACCGAAGCTA
* * *
53145102 TCCCTTTTCATAGTTCGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCCATAACCGAAGCTA
53145132 TCCCTTTTCATAATT
1 TCCCTTTTCATAATT
53145147 TGATGGTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (30 bp):
TCCCTTTTCATAATTCCATAACCGAAGCTA
Found at i:53145165 original size:30 final size:30
Alignment explanation
Indices: 53145131--53145210 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
53145121 AGCCGAAGCT
*
53145131 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGCCGTCACC
* ** * * *
53145161 ATCCCTCTTCATTGTTCGACGGCCGTCATC
1 ATCCCTTTTCATAATTTGATGGCCGTCACC
53145191 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
53145211 AGCAAAAGCT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGCCGTCACC
Found at i:53145165 original size:60 final size:59
Alignment explanation
Indices: 53145101--53145301 Score: 190
Period size: 60 Copynumber: 3.4 Consensus size: 59
53145091 AATCGAAGTT
* *
53145101 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAGATCGATAGCCGAAGC-ATCCCTTTTCATAATTTGATGGTCATCACC
* * * ** * * * ** *
53145161 ATCCCTCTTCATTGTTCGACGGCCGTCATCATCCCTTTTCATAATTTGATAG-CAAAAGCT
1 ATCCCTTTTCATAGATCGATAGCCG-AAGCATCCCTTTTCATAATTTGATGGTCATCA-CC
* ** * *
53145221 ATCCCTTTTCATAGATCGATAGCCGAAGCCATCTCTTTTCATAGCTCGGTGGTCATCACC
1 ATCCCTTTTCATAGATCGATAGCCGAAG-CATCCCTTTTCATAATTTGATGGTCATCACC
53145281 ATCCCTTTTCATA-ATCGATAG
1 ATCCCTTTTCATAGATCGATAG
53145302 ACGTATCCCT
Statistics
Matches: 110, Mismatches: 27, Indels: 9
0.75 0.18 0.06
Matches are distributed among these distances:
59 11 0.10
60 94 0.85
61 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (59 bp):
ATCCCTTTTCATAGATCGATAGCCGAAGCATCCCTTTTCATAATTTGATGGTCATCACC
Found at i:53145242 original size:30 final size:29
Alignment explanation
Indices: 53145191--53145347 Score: 90
Period size: 30 Copynumber: 5.4 Consensus size: 29
53145181 GGCCGTCATC
*
53145191 ATCCCTTTTCATAATTTGATAGCAAAAGCT
1 ATCCCTTTTCATAA-TCGATAGCAAAAGCT
** *
53145221 ATCCCTTTTCATAGATCGATAGCCGAAGCC
1 ATCCCTTTTCATA-ATCGATAGCAAAAGCT
* * * * ** *
53145251 ATCTCTTTTCATAGCTCGGTGGTCATCA-CC
1 ATCCCTTTTCATA-ATCGATAG-CAAAAGCT
*
53145281 ATCCCTTTTCATAATCGATAG---ACG-T
1 ATCCCTTTTCATAATCGATAGCAAAAGCT
* * *
53145306 ATCCCTTTTACGTATTCGATAGCTAAAGCT
1 ATCCCTTTT-CATAATCGATAGCAAAAGCT
*
53145336 ATCTCTTTTCAT
1 ATCCCTTTTCAT
53145348 TCCTCGATGA
Statistics
Matches: 96, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
25 9 0.09
26 10 0.10
29 9 0.09
30 65 0.68
31 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCAAAAGCT
Found at i:53145253 original size:90 final size:90
Alignment explanation
Indices: 53145101--53145301 Score: 210
Period size: 90 Copynumber: 2.2 Consensus size: 90
53145091 AATCGAAGTT
* ** * * * *
53145101 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCAAAAGCTATCCCTTTTCATAATTCGATAGCCGTAACCATCCC
* * * *
53145166 TCTTCATTGTTCGACGGCCGTCATC
66 TCTTCATAGCTCGACGGCCATCACC
*
53145191 ATCCCTTTTCATAATTTGATAGCAAAAGCTATCCCTTTTCATAGA-TCGATAGCCG-AAGCCATC
1 ATCCCTTTTCATAATTCGATAGCAAAAGCTATCCCTTTTCATA-ATTCGATAGCCGTAA-CCATC
* * ** *
53145254 TCTTTTCATAGCTCGGTGGTCATCACC
64 CCTCTTCATAGCTCGACGGCCATCACC
53145281 ATCCCTTTTCATAA-TCGATAG
1 ATCCCTTTTCATAATTCGATAG
53145302 ACGTATCCCT
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
89 7 0.08
90 83 0.91
91 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (90 bp):
ATCCCTTTTCATAATTCGATAGCAAAAGCTATCCCTTTTCATAATTCGATAGCCGTAACCATCCC
TCTTCATAGCTCGACGGCCATCACC
Found at i:53152856 original size:30 final size:30
Alignment explanation
Indices: 53152816--53152885 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
53152806 GGTTGTCACC
* * ** *
53152816 ATCCTTTTTCATACTTTGATAGCCGAAGCT
1 ATCCCTTTTCATACATCAATAGCCGAAGCA
*
53152846 ATCCCTTTTCATAGATCAATAGCCGAAGCA
1 ATCCCTTTTCATACATCAATAGCCGAAGCA
53152876 ATCCCTTTTC
1 ATCCCTTTTC
53152886 GTAGCTAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATACATCAATAGCCGAAGCA
Found at i:53162754 original size:79 final size:81
Alignment explanation
Indices: 53162652--53162836 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
53162642 GCTCCTCGTT
* *
53162652 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
53162715 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
53162732 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
53162796 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
53162812 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53162837 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:53162836 original size:40 final size:40
Alignment explanation
Indices: 53162652--53162836 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
53162642 GCTCCTCGTT
* *
53162652 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53162692 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
53162732 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
53162771 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
53162812 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53162837 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53164200 original size:85 final size:85
Alignment explanation
Indices: 53164057--53164320 Score: 492
Period size: 85 Copynumber: 3.1 Consensus size: 85
53164047 TATTTTATTG
* **
53164057 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTGCTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
53164122 TAGCCATAACATCTTATCCA
66 TAGCCATAACATCTTATCCA
53164142 CCCATGCTCTTTATTTGCTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTGCTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
53164207 TAGCCATAACATCTTATCCA
66 TAGCCATAACATCTTATCCA
53164227 CCCATGCTCTTTATTTGCTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTGCTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
53164292 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTATCCA
53164312 CCCATGCTC
1 CCCATGCTC
53164321 ATGGCCGGCC
Statistics
Matches: 175, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 175 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTGCTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTATCCA
Found at i:53165624 original size:40 final size:40
Alignment explanation
Indices: 53165567--53165927 Score: 535
Period size: 40 Copynumber: 9.1 Consensus size: 40
53165557 AGAATACACG
* * * *
53165567 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
53165607 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
53165647 TCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
53165687 TCACTAGCATGATTGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
53165727 TTACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
53165767 TCACTAGCACGAATGCTCTTCGGAACTTAACCAGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
53165807 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
53165847 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
53165887 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
53165926 TC
1 TC
53165928 GTCGAGACCT
Statistics
Matches: 291, Mismatches: 30, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 287 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:53168753 original size:49 final size:47
Alignment explanation
Indices: 53168485--53168837 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
53168475 CCCTTCGGGA
* * * *
53168485 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53168532 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53168579 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53168626 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53168673 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53168720 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53168769 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53168818 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
53168838 GTACATCAAT
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53176129 original size:47 final size:47
Alignment explanation
Indices: 53176051--53176595 Score: 783
Period size: 47 Copynumber: 11.6 Consensus size: 47
53176041 CCCTTCGGGA
* * * * *
53176051 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
53176098 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
53176145 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
53176192 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
53176239 CTTATCACATATATATACACTTTCACATTCA--GCATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
53176286 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
53176335 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
53176382 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
* *
53176429 CTTATCACATATATAGACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
53176476 CTTATCACACATACACA-TGTTCATATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* *
53176523 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
53176570 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
53176596 CACAATTATC
Statistics
Matches: 462, Mismatches: 28, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 416 0.90
48 2 0.00
49 43 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:53176435 original size:22 final size:22
Alignment explanation
Indices: 53176410--53176484 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
53176400 TTTCACATTC
53176410 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* * * *
53176432 ATCACATATATAGACTTTCA-CATT
1 ATCAC--AT-TGGCCATTCAGCCTT
*
53176456 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
53176479 ATCACA
1 ATCACA
53176485 CATACACATG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 17 0.44
23 5 0.13
24 5 0.13
25 12 0.31
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:53176460 original size:25 final size:25
Alignment explanation
Indices: 53176385--53176463 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
53176375 ATTAGGCCTT
*
53176385 ATCACATATATACACTTTCACATTC
1 ATCACATATATAGACTTTCACATTC
* * * *
53176410 ATCAC--AT-TGGCCATTCAGCCTT-
1 ATCACATATATAGACTTTCA-CATTC
53176432 ATCACATATATAGACTTTCACATTC
1 ATCACATATATAGACTTTCACATTC
53176457 ATCACAT
1 ATCACAT
53176464 TGGCCATTCG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 5 0.12
25 19 0.47
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATAGACTTTCACATTC
Found at i:53179588 original size:25 final size:25
Alignment explanation
Indices: 53179554--53179604 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
53179544 GAGGAAGAGG
*
53179554 GTGACTGGCTCGGGTAGCAAAAATT
1 GTGAATGGCTCGGGTAGCAAAAATT
*
53179579 GTGAATGGCTCGGGTATCAAAAATT
1 GTGAATGGCTCGGGTAGCAAAAATT
53179604 G
1 G
53179605 ACTTAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (25 bp):
GTGAATGGCTCGGGTAGCAAAAATT
Found at i:53182436 original size:39 final size:40
Alignment explanation
Indices: 53182393--53182562 Score: 227
Period size: 40 Copynumber: 4.3 Consensus size: 40
53182383 TCCTCGTTCA
* * *
53182393 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACG
53182432 AATGCCTTCGGGACTTAACCCGGATTT-GATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAG-TAACTCACACG
* * *
53182472 AATACCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACG
* * *
53182512 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACG
*
53182552 AAGGCCTTCGG
1 AATGCCTTCGG
53182563 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.29
40 82 0.70
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACG
Found at i:53193073 original size:16 final size:18
Alignment explanation
Indices: 53193042--53193074 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
53193032 GGTTACAGTT
53193042 TTTTGACCGATTTGATGC
1 TTTTGACCGATTTGATGC
53193060 TTTT-ACCG-TTTGATG
1 TTTTGACCGATTTGATG
53193075 TAATTTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (18 bp):
TTTTGACCGATTTGATGC
Found at i:53214002 original size:27 final size:28
Alignment explanation
Indices: 53213943--53214073 Score: 103
Period size: 27 Copynumber: 4.8 Consensus size: 28
53213933 TCTAGAGTAT
* * * * *
53213943 GCCACAAAAGGCTATCCCTTCATAATTC
1 GCCACTAAAGGCTATTCTTTCAGAGTTC
*
53213971 ACCACTAAA-GCTATT-TTCTCAGAGTTC
1 GCCACTAAAGGCTATTCTT-TCAGAGTTC
*
53213998 GCCAC-AAAGGTTATTCTTTCAGAGTTC
1 GCCACTAAAGGCTATTCTTTCAGAGTTC
*
53214025 GCCACTACAAAAGG-TATTCTTTCAGAGTTT
1 GCCACT---AAAGGCTATTCTTTCAGAGTTC
*
53214055 GTCAC--AAGGCTATTCTTTC
1 GCCACTAAAGGCTATTCTTTC
53214074 CTAACTAGTT
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
25 4 0.05
26 13 0.15
27 35 0.41
28 9 0.11
30 19 0.22
31 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (28 bp):
GCCACTAAAGGCTATTCTTTCAGAGTTC
Found at i:53214043 original size:30 final size:27
Alignment explanation
Indices: 53213989--53214073 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 27
53213979 AGCTATTTTC
53213989 TCAGAGTTCGCCACAAAGGTTATTCTT
1 TCAGAGTTCGCCACAAAGGTTATTCTT
53214016 TCAGAGTTCGCCACTACAAAAGG-TATTCTT
1 TCAGAGTTCG-C-C-AC-AAAGGTTATTCTT
* * *
53214046 TCAGAGTTTGTCAC-AAGGCTATTCTT
1 TCAGAGTTCGCCACAAAGGTTATTCTT
53214072 TC
1 TC
53214074 CTAACTAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
25 4 0.08
26 9 0.18
27 12 0.24
28 2 0.04
29 1 0.02
30 18 0.35
31 5 0.10
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
TCAGAGTTCGCCACAAAGGTTATTCTT
Found at i:53220194 original size:35 final size:35
Alignment explanation
Indices: 53220150--53220289 Score: 131
Period size: 35 Copynumber: 4.0 Consensus size: 35
53220140 ATGTGTATGA
* * *
53220150 AAGAAGTGTGATGGATGAAGTATTGATGTTGTGGC
1 AAGATGTGTGATGAATGAAGTATTGATGTTGTGGT
*
53220185 AAGATGTGTGAT-AAGTGAAGTA-TCAGTGTTGTGGT
1 AAGATGTGTGATGAA-TGAAGTATTGA-TGTTGTGGT
** * *
53220220 GGGATGTATGATAAATGAAGTATTGATGTTGTGGT
1 AAGATGTGTGATGAATGAAGTATTGATGTTGTGGT
** * * *
53220255 GGGATGTGTTATGAAAGAAGTATTGGTGTTGTGGT
1 AAGATGTGTGATGAATGAAGTATTGATGTTGTGGT
53220290 GGGATTTTTC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
34 3 0.03
35 81 0.92
36 4 0.05
ACGTcount: A:0.27, C:0.01, G:0.36, T:0.35
Consensus pattern (35 bp):
AAGATGTGTGATGAATGAAGTATTGATGTTGTGGT
Found at i:53220277 original size:70 final size:70
Alignment explanation
Indices: 53220164--53220294 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 70
53220154 AGTGTGATGG
*
53220164 ATGAAGTATTGATGTTGTGGCAAGATGTGTGATAAGTGAAGTATCAGTGTTGTGGTGGGATGTAT
1 ATGAAGTATTGATGTTGTGGCAAGATGTGTGATAAGAGAAGTATCAGTGTTGTGGTGGGATGTAT
53220229 GATAA
66 GATAA
*** * **
53220234 ATGAAGTATTGATGTTGTGGTGGGATGTGTTATGAA-AGAAGTATTGGTGTTGTGGTGGGAT
1 ATGAAGTATTGATGTTGTGGCAAGATGTGTGAT-AAGAGAAGTATCAGTGTTGTGGTGGGAT
53220295 TTTTCCTCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
70 51 0.96
71 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.36
Consensus pattern (70 bp):
ATGAAGTATTGATGTTGTGGCAAGATGTGTGATAAGAGAAGTATCAGTGTTGTGGTGGGATGTAT
GATAA
Found at i:53220290 original size:35 final size:34
Alignment explanation
Indices: 53220166--53220294 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 34
53220156 TGTGATGGAT
*** *
53220166 GAAGTATTGATGTTGTGGCAAGATGTGTGATAAGT
1 GAAGTATTGATGTTGTGGTGGGATGTGTGATAA-A
* *
53220201 GAAGTA-TCAGTGTTGTGGTGGGATGTATGATAAA
1 GAAGTATTGA-TGTTGTGGTGGGATGTGTGATAAA
*
53220235 TGAAGTATTGATGTTGTGGTGGGATGTGTTATGAAA
1 -GAAGTATTGATGTTGTGGTGGGATGTGTGAT-AAA
*
53220271 GAAGTATTGGTGTTGTGGTGGGAT
1 GAAGTATTGATGTTGTGGTGGGAT
53220295 TTTTCCTCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
34 2 0.03
35 73 0.91
36 5 0.06
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.36
Consensus pattern (34 bp):
GAAGTATTGATGTTGTGGTGGGATGTGTGATAAA
Found at i:53221154 original size:17 final size:17
Alignment explanation
Indices: 53221107--53221188 Score: 74
Period size: 17 Copynumber: 4.8 Consensus size: 17
53221097 AATCATGTCA
* *
53221107 CCAAGCAATAGTATCCG
1 CCAAGCAATATTGTCCG
*
53221124 CCAAGTAATATTGTCCG
1 CCAAGCAATATTGTCCG
* *
53221141 CCAGGCAATGTTGTCCG
1 CCAAGCAATATTGTCCG
* ** * *
53221158 CTAAGTGATACTGTTCG
1 CCAAGCAATATTGTCCG
53221175 CCAAGCAATATTGT
1 CCAAGCAATATTGT
53221189 TCACCAGGCA
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (17 bp):
CCAAGCAATATTGTCCG
Found at i:53221158 original size:34 final size:34
Alignment explanation
Indices: 53221107--53221188 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
53221097 AATCATGTCA
* * *
53221107 CCAAGCAATAGTATCCGCCAAGTAATATTGTCCG
1 CCAAGCAATATTGTCCGCCAAGTAATACTGTCCG
* * * * *
53221141 CCAGGCAATGTTGTCCGCTAAGTGATACTGTTCG
1 CCAAGCAATATTGTCCGCCAAGTAATACTGTCCG
53221175 CCAAGCAATATTGT
1 CCAAGCAATATTGT
53221189 TCACCAGGCA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (34 bp):
CCAAGCAATATTGTCCGCCAAGTAATACTGTCCG
Found at i:53230314 original size:6 final size:6
Alignment explanation
Indices: 53230278--53230314 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
53230268 AATAACTATA
*
53230278 AATTA- AATT-T AATTAT AATTAT AATTAT AATTGT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AAT
53230315 GGTCCAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
5 8 0.28
6 21 0.72
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:53233232 original size:22 final size:21
Alignment explanation
Indices: 53233207--53233311 Score: 69
Period size: 19 Copynumber: 5.2 Consensus size: 21
53233197 TACATATTAA
53233207 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-AAATCAT
* *
53233229 ATCTTCTAAGATTGCATATCAT
1 ATC-TCTAAGATTACAAATCAT
* *
53233251 A--TCTAAGATTGCATATCAT
1 ATCTCTAAGATTACAAATCAT
* *
53233270 A--TCTAAGATTATATAT--T
1 ATCTCTAAGATTACAAATCAT
* * *
53233287 ATATCTAAGATTGCATATCAT
1 ATCTCTAAGATTACAAATCAT
53233308 ATCT
1 ATCT
53233312 AAGATTGCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.03
19 45 0.63
21 4 0.06
22 10 0.14
23 10 0.14
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCAT
Found at i:53233236 original size:23 final size:22
Alignment explanation
Indices: 53233210--53233254 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
53233200 ATATTAAATC
53233210 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
53233233 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
53233255 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:53233257 original size:19 final size:19
Alignment explanation
Indices: 53233233--53233324 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
53233223 AATCATATCT
53233233 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53233252 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
53233271 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
53233290 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53233309 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
53233325 CCTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:53233379 original size:14 final size:14
Alignment explanation
Indices: 53233360--53233386 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53233350 TGTAGATGGA
53233360 CCTCTAAACACATG
1 CCTCTAAACACATG
53233374 CCTCTAAACACAT
1 CCTCTAAACACAT
53233387 CTATGTCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.04, T:0.22
Consensus pattern (14 bp):
CCTCTAAACACATG
Found at i:53238313 original size:3 final size:3
Alignment explanation
Indices: 53238305--53238344 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
53238295 GGGTATTACA
53238305 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
53238345 AGGTTTGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:53240484 original size:306 final size:306
Alignment explanation
Indices: 53239914--53240514 Score: 779
Period size: 306 Copynumber: 2.0 Consensus size: 306
53239904 TGTTTTATAC
* * *
53239914 TTAGAGTTCTATTCATTTTTTACCGTTAATTTTTTGTAGATGTTACTTGATTGAATATGTCCAAC
1 TTAGAGTTCTATTCATTTTTTACCGGTAATTTTTTGTAAATGCTACTTGATTGAATATGTCCAAC
* * *
53239979 TATTGAAAGTTATTTATGAAGCTAACTTAAAATTTATTTGGTATATAACACTACTATTAATTAAG
66 TATTGAAAGCTATTTATAAAGCTAACTTAAAATTTATTCGGTATATAACACTACTATTAATTAAG
* *** *
53240044 TGATAATTAAAATGTTTAGAATTCTATTTAAGTAATTACTTTATTTTACATCAATAAAATTAGCA
131 TAATAATTAAAAAACTTAGAATTCTATTTAAGTAATTACTCTATTTTACATCAATAAAATTAGCA
* **
53240109 CAATTTTTTAAAAAAAAAATTTAACACAACTTTCTTAACGCCAAAATTTTTAATTAATAACGGTA
196 CAA-TTTTTAAAAAAAAAA-TTAACACAACTTTCTTAACGCCAAAATTTTTAACTAATAAAAGTA
*
53240174 AATTA-AATTATGATTATCACAACT-TTTTGCTATGCTTTTTTTATGT
259 AATTATAATTATAATTATCACAACTATTTTGCTATGCTTTTTTTATGT
* * *
53240220 TTAGAGTTCTATTCATTTTTTATCGGTAATTTTTTTTAAAATGCTACTTGATTGAATATG-CTAA
1 TTAGAGTTCTATTCATTTTTTACCGGTAATTTTTTGT-AAATGCTACTTGATTGAATATGTCCAA
* * * *
53240284 CTATTGAATA-CTATTTATAAAGCTAACTTGAAATTTATTCGGTCTATCACACTATTATTAATTA
65 CTATTGAA-AGCTATTTATAAAGCTAACTTAAAATTTATTCGGTATATAACACTACTATTAATTA
53240348 AGTAATAATTAAAAAACTTAGAATTCTATTTAA-TAATTACTCTATTTTACATCAATAAAATTAG
129 AGTAATAATTAAAAAACTTAGAATTCTATTTAAGTAATTACTCTATTTTACATCAATAAAATTAG
* * * * *
53240412 CACAA-TTTT-AAAAAAAAA-TAACACAACCTTT-TTCAGGTCAAATTTTTTTTACTAATCATTG
194 CACAATTTTTAAAAAAAAAATTAACACAA-CTTTCTTAACGCCAAA-ATTTTTAACTAAT-A---
* *
53240473 TAAATTAAATTATAATTATAATTATCACAACTATTTTTCTAT
253 -AAAGTAAATTATAATTATAATTATCACAACTATTTTGCTAT
53240515 TTTTTTATCT
Statistics
Matches: 255, Mismatches: 29, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
300 16 0.06
301 14 0.05
302 10 0.04
303 4 0.02
305 35 0.14
306 129 0.51
307 39 0.15
308 8 0.03
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (306 bp):
TTAGAGTTCTATTCATTTTTTACCGGTAATTTTTTGTAAATGCTACTTGATTGAATATGTCCAAC
TATTGAAAGCTATTTATAAAGCTAACTTAAAATTTATTCGGTATATAACACTACTATTAATTAAG
TAATAATTAAAAAACTTAGAATTCTATTTAAGTAATTACTCTATTTTACATCAATAAAATTAGCA
CAATTTTTAAAAAAAAAATTAACACAACTTTCTTAACGCCAAAATTTTTAACTAATAAAAGTAAA
TTATAATTATAATTATCACAACTATTTTGCTATGCTTTTTTTATGT
Found at i:53243743 original size:40 final size:40
Alignment explanation
Indices: 53243690--53243881 Score: 253
Period size: 40 Copynumber: 4.8 Consensus size: 40
53243680 TATTACCACA
* * * * *
53243690 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
* * *
53243730 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
*
53243770 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
53243810 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
53243850 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
53243882 TCATTCAAAT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 136 0.97
41 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
Found at i:53249955 original size:40 final size:39
Alignment explanation
Indices: 53249871--53250055 Score: 191
Period size: 40 Copynumber: 4.6 Consensus size: 39
53249861 TTGAATGATG
*
53249871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
53249911 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* *
53249951 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
*
53249990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-AA
*
53250031 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
53250056 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 76 0.60
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:53250007 original size:79 final size:81
Alignment explanation
Indices: 53249871--53250055 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 81
53249861 TTGAATGATG
53249871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
53249935 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
53249950 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
53250011 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
53250030 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53250056 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
78 2 0.02
79 56 0.60
80 35 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:53250077 original size:79 final size:79
Alignment explanation
Indices: 53249872--53250088 Score: 196
Period size: 79 Copynumber: 2.7 Consensus size: 79
53249862 TGAATGATGT
** * **
53249872 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAA-ATCCGGGTTAA-ATCCCGAAGGCAT
*
53249934 TTGTGCGAGATACTAATT
62 TTGTGCGAGATACTAATA
** * *
53249952 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
53250017 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
53250031 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
53250089 TACGTGATTT
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.03
79 69 0.59
80 44 0.38
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Done.