Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 142 of 318
Found at i:43482939 original size:27 final size:27
Alignment explanation
Indices: 43482884--43482945 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
43482874 TATGTTGGTC
**
43482884 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCAATA
43482911 ATTTTACACTACAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCAATA
43482938 ATTTTACA
1 ATTTTACA
43482946 AATCGGGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAATA
Found at i:43482955 original size:27 final size:27
Alignment explanation
Indices: 43482897--43483289 Score: 443
Period size: 27 Copynumber: 14.7 Consensus size: 27
43482887 TTACACTACA
* *
43482897 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
**
43482924 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * **
43482951 GGGGTGTTACGATAATTACACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
43482978 AGGGTATTTCTATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
43483005 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
43483032 AGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
43483059 GGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
43483086 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
43483112 AGGGTATTTTGGTAATTTTACAAAACG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
43483139 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
43483165 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
43483192 AGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
**
43483218 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
43483245 GGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
*
43483272 AGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
43483290 CTTTATTATG
Statistics
Matches: 310, Mismatches: 52, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 69 0.22
27 239 0.77
28 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:43483134 original size:53 final size:54
Alignment explanation
Indices: 43482897--43483289 Score: 472
Period size: 53 Copynumber: 7.3 Consensus size: 54
43482887 TTACACTACA
* * * *
43482897 AGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTCACAAATCG
* * * * ** * *
43482951 GGGGTGTTACGATAATTACACAAATCGAGGGTATTTCTA-TAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTC-AGTAATTTCACAAATCG
* * *
43483005 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCG
* * * *
43483059 GGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCG
* *
43483112 AGGGTATTTTGGTAATTTTACAAAACGAGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCG
*
43483165 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCG
** * * * *
43483218 AGGGTATTTTAGTAATTTTACAAATCGGGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCG
*
43483272 AGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
43483290 CTTTATTATG
Statistics
Matches: 295, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
53 146 0.49
54 146 0.49
55 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCG
Found at i:43483674 original size:55 final size:55
Alignment explanation
Indices: 43483587--43483721 Score: 173
Period size: 55 Copynumber: 2.4 Consensus size: 55
43483577 ATTCACACTT
* * *
43483587 ATTCATTTGGCCCATTTAGGCCCAATCTCATTCACATGG-CCATCAGGCCCAATCAC
1 ATTCATATGGCCCA-TCAGGCCCAATCACATTCACATGGCCCATCAGGCCCAA-CAC
* * *
43483643 ATTCATATGGCCCATCAGGCCCAATCACATTCATATGGCCCATTAGGCCCAACAT
1 ATTCATATGGCCCATCAGGCCCAATCACATTCACATGGCCCATCAGGCCCAACAC
* *
43483698 ATTCATATGGGCCATCAAGCCCAA
1 ATTCATATGGCCCATCAGGCCCAA
43483722 CTACTTCCCA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 45 0.64
56 25 0.36
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (55 bp):
ATTCATATGGCCCATCAGGCCCAATCACATTCACATGGCCCATCAGGCCCAACAC
Found at i:43483722 original size:27 final size:28
Alignment explanation
Indices: 43483587--43483721 Score: 175
Period size: 27 Copynumber: 4.9 Consensus size: 28
43483577 ATTCACACTT
* * *
43483587 ATTCATTTGGCCCATTTAGGCCCAATCTC
1 ATTCATATGGCCCA-TCAGGCCCAATCAC
*
43483616 ATTCACATGG-CCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
43483643 ATTCATATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
43483671 ATTCATATGGCCCATTAGGCCCAA-CAT
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
43483698 ATTCATATGGGCCATCAAGCCCAA
1 ATTCATATGGCCCATCAGGCCCAA
43483722 CTACTTCCCA
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
27 44 0.46
28 43 0.45
29 8 0.08
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:43487913 original size:52 final size:52
Alignment explanation
Indices: 43487827--43487951 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
43487817 GATGATAAAA
43487827 AAAGAAAAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAG-AAG-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
43487881 AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATGGAAG
1 AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
43487933 AAAGAAAAAGAAGGAAAAA
1 AAAGAAAAAGAAGAAAAAA
43487952 GAGCTTTGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 56 0.81
53 3 0.04
54 10 0.14
ACGTcount: A:0.53, C:0.10, G:0.22, T:0.16
Consensus pattern (52 bp):
AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:43490007 original size:47 final size:47
Alignment explanation
Indices: 43489950--43490136 Score: 293
Period size: 47 Copynumber: 4.0 Consensus size: 47
43489940 TTAGGATTTT
43489950 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
43489997 TATGTAATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
43490044 AATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
43490091 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
43490137 TAGTGTGAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:43490100 original size:25 final size:25
Alignment explanation
Indices: 43490025--43490100 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
43490015 ATGCATATAT
43490025 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
43490050 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
43490072 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
43490097 GTGA
1 GTGA
43490101 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:43490444 original size:37 final size:37
Alignment explanation
Indices: 43490302--43490443 Score: 239
Period size: 37 Copynumber: 3.8 Consensus size: 37
43490292 AATATATTCT
*
43490302 GGGTGAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
43490339 GGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
43490376 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
43490413 GGGTAAGACCCGATAACTTCGTGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
43490444 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:43494754 original size:24 final size:24
Alignment explanation
Indices: 43494714--43494775 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
43494704 GATTATGTAG
43494714 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
43494738 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
43494763 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
43494776 AAAAAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:43502628 original size:24 final size:23
Alignment explanation
Indices: 43502591--43502636 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
43502581 GAAAGAATAA
43502591 AGAAATGAAAAAAAAAAAAGAAG
1 AGAAATGAAAAAAAAAAAAGAAG
* *
43502614 AGAATATGAAGAAAAACAAAGAA
1 AGAA-ATGAAAAAAAAAAAAGAA
43502637 AAGGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (23 bp):
AGAAATGAAAAAAAAAAAAGAAG
Found at i:43502647 original size:19 final size:20
Alignment explanation
Indices: 43502602--43502648 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
43502592 GAAATGAAAA
* * *
43502602 AAAAAAAAGAAGAGAATATG
1 AAAAAAAACAAGAGAAAAGG
*
43502622 AAGAAAAACAA-AGAAAAGG
1 AAAAAAAACAAGAGAAAAGG
43502641 AAAAAAAA
1 AAAAAAAA
43502649 AGTGTTCATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (20 bp):
AAAAAAAACAAGAGAAAAGG
Found at i:43503841 original size:29 final size:29
Alignment explanation
Indices: 43503808--43503872 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
43503798 GTGACGAGAT
*
43503808 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
43503837 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
43503866 CGGCACT
1 TGGCACT
43503873 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:43505502 original size:27 final size:27
Alignment explanation
Indices: 43505396--43505504 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 27
43505386 ATCTCATATC
* *
43505396 TGTAGGCTAGTATTACTGAAATACCC-
1 TGTAGGGTAGAATTACTGAAATACCCT
* * *
43505422 TATAGGGTAGAATTACTGAAATGCCAT
1 TGTAGGGTAGAATTACTGAAATACCCT
* * *
43505449 TATAGGATAGAATTACTGAAATGCCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
43505476 TGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
43505503 TG
1 TG
43505505 GTTTACAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 21 0.29
27 51 0.71
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:43505516 original size:27 final size:27
Alignment explanation
Indices: 43505459--43505833 Score: 197
Period size: 27 Copynumber: 14.0 Consensus size: 27
43505449 TATAGGATAG
* ** *
43505459 AATTACTGAAATGCCCTT-GTAGGGTAG
1 AATTACTGAAATACCCTTGGT-TTGTAA
**
43505486 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGGTTTGTAA
** * * * *
43505513 AATTACCAAAACACCCTCGATTAGTAA
1 AATTACTGAAATACCCTTGGTTTGTAA
** *
43505540 AATTACCAAAATA-CCTCTAGTTTGTAA
1 AATTACTGAAATACCCT-TGGTTTGTAA
** * *
43505567 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTGAAATACCCTTGGTTTGTAA
* * ** *
43505594 AATTAC-CAAATACCCCTAATTTGTGA
1 AATTACTGAAATACCCTTGGTTTGTAA
* **
43505620 AATTATTGAAATACCCTTGACTTGTAA
1 AATTACTGAAATACCCTTGGTTTGTAA
* **
43505647 AATTATTGAAATACCCTTGACTTGTAA
1 AATTACTGAAATACCCTTGGTTTGTAA
* * *
43505674 AATTACTAAAATA-CCTTCGATTTATAA
1 AATTACTGAAATACCCTT-GGTTTGTAA
* * * *
43505701 AATTAC-CAAATACCCCTGATTTGGAA
1 AATTACTGAAATACCCTTGGTTTGTAA
* ** *
43505727 AGTTA-TCGAAATACCCTTAATTTGAAA
1 AATTACT-GAAATACCCTTGGTTTGTAA
* * * * *
43505754 AATTACAGAAATACCGTTGACTAT-CAA
1 AATTACTGAAATACCCTTG-GTTTGTAA
* * *
43505781 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACTGAAATACCCTTGGTTTGTAA
**
43505808 AATTACCAAAATACCCTTGGTTTGTA
1 AATTACTGAAATACCCTTGGTTTGTA
43505834 GATTTACCAA
Statistics
Matches: 281, Mismatches: 56, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
26 47 0.17
27 228 0.81
28 6 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTTTGTAA
Found at i:43505623 original size:107 final size:106
Alignment explanation
Indices: 43505512--43505727 Score: 240
Period size: 107 Copynumber: 2.0 Consensus size: 106
43505502 TTGGTTTACA
*
43505512 AAATTACCAAAACACCCTCGA-TTAGTAAAATTACCAAAATACCTCTAG-TTTGTAAAATTACCA
1 AAATTACCAAAACACCCTCGACTT-GTAAAATTACCAAAATACC-CTAGACTTGTAAAATTACCA
*
43505575 AAATACCCCTAG-TTTGTAAAATTACCAAATACCCCTAATTTGTG
64 AAATA-CCCTAGATTTATAAAATTACCAAATACCCCTAATTTG-G
*** * * *** * *
43505619 AAATTATTGAAATACCCTTGACTTGTAAAATTATTGAAATACCCTTGACTTGTAAAATTACTAAA
1 AAATTACCAAAACACCCTCGACTTGTAAAATTACCAAAATACCCTAGACTTGTAAAATTACCAAA
* * *
43505684 ATACCTTCGATTTATAAAATTACCAAATACCCCTGATTTGG
66 ATACCCTAGATTTATAAAATTACCAAATACCCCTAATTTGG
43505725 AAA
1 AAA
43505728 GTTATCGAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
106 11 0.12
107 78 0.86
108 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (106 bp):
AAATTACCAAAACACCCTCGACTTGTAAAATTACCAAAATACCCTAGACTTGTAAAATTACCAAA
ATACCCTAGATTTATAAAATTACCAAATACCCCTAATTTGG
Found at i:43505663 original size:134 final size:134
Alignment explanation
Indices: 43505486--43505850 Score: 350
Period size: 134 Copynumber: 2.7 Consensus size: 134
43505476 TGTAGGGTAG
* * * * *
43505486 AATTACTGAAATACCCTTG-GTTTACAAAATTACCA-AAACACCCTCGATTAGTAAAATTACCAA
1 AATTACAGAAATACCCTTGACTAT-CAAAATTA-CAGAAATACCCTTGATT-GTAAAATTACCAA
*
43505549 AATACCTCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTA-CCAAATACCCCTA
63 AATACCTCTAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGGAAAATTATCCAAATACCCCTA
**
43505612 ATTTGTGA
127 ATTTGAAA
** * ** *
43505620 AATTATTGAAATACCCTTGACT-TGTAAAATTATTGAAATACCCTTGACTTGTAAAATTACTAAA
1 AATTACAGAAATACCCTTGACTAT-CAAAATTACAGAAATACCCTTGA-TTGTAAAATTACCAAA
* * * * *
43505684 ATACCT-TCGATTTATAAAATTACC-AAATACCCCTGATTTGGAAAGTTATCGAAATACCCTTAA
64 ATACCTCTAG-TTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCCAAATACCCCTAA
43505747 TTTGAAA
128 TTTGAAA
* * * *
43505754 AATTACAGAAATACCGTTGACTATCAAAATTACAGAAATACCATTGGTTTGCAAAATTACCAAAA
1 AATTACAGAAATACCCTTGACTATCAAAATTACAGAAATACCCTT-GATTGTAAAATTACCAAAA
* * * *
43505819 TACC-CTTGGTTTGTAGATTTACCAAAACACCC
65 TACCTC-TAGTTTGTAAAATTACCAAAATACCC
43505851 TTGTAGGGTG
Statistics
Matches: 188, Mismatches: 32, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
133 22 0.12
134 152 0.81
135 14 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (134 bp):
AATTACAGAAATACCCTTGACTATCAAAATTACAGAAATACCCTTGATTGTAAAATTACCAAAAT
ACCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCCAAATACCCCTAATTT
GAAA
Found at i:43505738 original size:107 final size:106
Alignment explanation
Indices: 43505561--43505823 Score: 300
Period size: 107 Copynumber: 2.4 Consensus size: 106
43505551 TACCTCTAGT
* *
43505561 TTGTAAAATTACCAAAATACC-CCTAGTTTGTAAAATTACCAAATACCCCTAATTTGTGAAATTA
1 TTGTAAAATTA-CAAAATACCTTCGA-TTTGTAAAATTACCAAATACCCCTAATTTGTGAAATTA
* * * **
43505625 TTGAAATACCCTTGACTTGTAAAATTATTGAAATACCCTTGAC
64 TCGAAATACCCTTAACTTGAAAAATTACAGAAATACCCTTGAC
* *
43505668 TTGTAAAATTACTAAAATACCTTCGATTTATAAAATTACCAAATACCCCTGATTTG-GAAAGTTA
1 TTGTAAAATTAC-AAAATACCTTCGATTTGTAAAATTACCAAATACCCCTAATTTGTGAAA-TTA
* *
43505732 TCGAAATACCCTTAATTTGAAAAATTACAGAAATACCGTTGAC
64 TCGAAATACCCTTAACTTGAAAAATTACAGAAATACCCTTGAC
* * *
43505775 TAT-CAAAATTACAGAAATACCATT-GGTTTGCAAAATTACCAAAATACCC
1 T-TGTAAAATTACA-AAATACC-TTCGATTTGTAAAATTACC-AAATACCC
43505824 TTGGTTTGTA
Statistics
Matches: 134, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
106 6 0.04
107 115 0.86
108 13 0.10
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (106 bp):
TTGTAAAATTACAAAATACCTTCGATTTGTAAAATTACCAAATACCCCTAATTTGTGAAATTATC
GAAATACCCTTAACTTGAAAAATTACAGAAATACCCTTGAC
Found at i:43505783 original size:80 final size:81
Alignment explanation
Indices: 43505628--43505795 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 81
43505618 GAAATTATTG
* * * * *
43505628 AAATACCCTTGACTTGTAAAATTATTGAAATACCCTTGACTTGTAAAATTACTAAAATACCTTCG
1 AAATACCCCTGACTTGGAAAATTATCGAAATACCCTTAACTTGAAAAATTACTAAAATACCTTCG
*
43505693 ATTTATAAAATTAC-C
66 ATCTATAAAATTACAC
* * *
43505708 AAATACCCCTGATTTGGAAAGTTATCGAAATACCCTTAATTTGAAAAATTAC-AGAAATACCGTT
1 AAATACCCCTGACTTGGAAAATTATCGAAATACCCTTAACTTGAAAAATTACTA-AAATACC-TT
*
43505772 -GA-CTATCAAAATTACAG
64 CGATCTAT-AAAATTACAC
43505789 AAATACC
1 AAATACC
43505796 ATTGGTTTGC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 4 0.05
80 61 0.82
81 9 0.12
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATACCCCTGACTTGGAAAATTATCGAAATACCCTTAACTTGAAAAATTACTAAAATACCTTCG
ATCTATAAAATTACAC
Found at i:43506129 original size:41 final size:41
Alignment explanation
Indices: 43506083--43506201 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
43506073 TGGAGGAAGA
* * *
43506083 AATTGAGGATCGTATGGTTGCTTGACAACCGTGTATCCACT
1 AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACC
* * *
43506124 GATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACC
* * *
43506165 AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATC
1 AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATC
43506202 TACTGGTGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACC
Found at i:43506408 original size:22 final size:22
Alignment explanation
Indices: 43506348--43506412 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
43506338 GCCAATTATT
*
43506348 CTGATTATGGCTTTATGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
43506370 CT-ACATATTGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
43506392 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
43506413 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:43511029 original size:27 final size:28
Alignment explanation
Indices: 43510999--43511068 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
43510989 ATAGTGAATC
*
43510999 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
43511026 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
43511054 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43511069 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:43511140 original size:42 final size:42
Alignment explanation
Indices: 43511076--43511182 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
43511066 GCTGTACAAT
* *
43511076 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
43511118 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
43511160 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
43511183 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:43517465 original size:29 final size:29
Alignment explanation
Indices: 43517431--43517506 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
43517421 TACTCGATTT
* * *
43517431 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
43517460 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
43517489 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
43517507 TATTTCCAGC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:43517522 original size:29 final size:29
Alignment explanation
Indices: 43517490--43517562 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
43517480 CTTCGAGCTC
43517490 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
43517519 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
43517548 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
43517563 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:43517523 original size:58 final size:59
Alignment explanation
Indices: 43517430--43517562 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
43517420 ATACTCGATT
* * *
43517430 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACCCTTCCAGCA
* * * * ***
43517488 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACCCTTCCAGCA
43517547 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
43517563 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACCCTTCCAGCA
Found at i:43520724 original size:119 final size:120
Alignment explanation
Indices: 43520540--43520762 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
43520530 GCTACTCGTT
*
43520540 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
43520605 ATTTAGTAAC-TCGCACAAATGCCTTCGAGACTTAACCCGAATTTAGTAACTCGAA
66 ATATAGTAACTTAGCACAAA-GCCTTCGAGACTTAACCCGAATTTAGTAACTCGAA
* * **
43520660 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
43520722 GGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 GGATATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCG
43520763 GACATCATTC
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 64 0.71
120 22 0.24
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGAATTTAGTAACTCGAA
Found at i:43520764 original size:40 final size:40
Alignment explanation
Indices: 43520521--43520764 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
43520511 CGGAGTTTAA
** *
43520521 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43520561 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
43520601 CCGGATTTAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
43520641 CCGAATTTAGTAACTCGAACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43520680 CCGGA-ATTAGTAACTCGCACGAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
43520720 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43520760 CCGGA
1 CCGGA
43520765 CATCATTCGA
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.18
40 132 0.75
41 11 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43521529 original size:40 final size:40
Alignment explanation
Indices: 43521462--43521613 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
43521452 AAATTGAATG
* * *
43521462 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGCTGGAAATT
* * * ****
43521502 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGCTGGAAATT
**
43521542 ATATCCGGGCTAAGACCCAAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCAAAGGCAATT-GTGCTG-GAAATT
* * *
43521582 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGC
43521614 ACATGCTTAT
Statistics
Matches: 89, Mismatches: 20, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCAAAGGCAATTGTGCTGGAAATT
Found at i:43521627 original size:40 final size:39
Alignment explanation
Indices: 43521500--43521629 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
43521490 ATGCTGGAAA
* * *
43521500 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* * *
43521541 -TATATCCGGGCTAAGACCCAAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
43521579 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
43521620 TTATATCCGG
1 TTATATCCGG
43521630 TTATATTCCG
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 68 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:43529373 original size:39 final size:40
Alignment explanation
Indices: 43529268--43529489 Score: 260
Period size: 39 Copynumber: 5.7 Consensus size: 40
43529258 GCTACTCGTT
* *
43529268 CAAATGCCTTCGGGACAT-AGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
43529307 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
43529347 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
43529386 CAAATGCCTTCGGG-CTT-AGCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * *
43529424 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43529465 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43529490 CATCATTCGA
Statistics
Matches: 160, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.01
38 28 0.17
39 61 0.38
40 57 0.36
41 12 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43529449 original size:117 final size:119
Alignment explanation
Indices: 43529268--43529489 Score: 301
Period size: 117 Copynumber: 1.9 Consensus size: 119
43529258 GCTACTCGTT
*
43529268 CAAATGCCTTCGGGACATAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
43529333 TTTAGTAAC-TCGCACAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTTGCA
66 TATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
* * **
43529386 CAAATGCCTTCGGG-CTTAGCCGGA-ATTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
43529448 GATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
43529490 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
116 4 0.04
117 52 0.57
118 35 0.38
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
Found at i:43532077 original size:20 final size:20
Alignment explanation
Indices: 43532034--43532079 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
43532024 ACTGTTTTGT
43532034 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
43532054 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
43532073 TATGGGC
1 TATGGGC
43532080 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:43532172 original size:60 final size:62
Alignment explanation
Indices: 43532074--43532220 Score: 142
Period size: 60 Copynumber: 2.4 Consensus size: 62
43532064 CTGTGTTAAT
* * * *
43532074 ATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGACCCAGATTGATACTGAC
1 ATGGGCTAGGCCCAGTATACTCTGATACTTGTAATAGGGCTACGACCCAGATTAATACTGAC
* * * * *
43532134 ATGGGCTAGGCCCAGTATACTCTGATAC-TGTAA-GGGGCTATGGCCCAGATTAATATTGAT
1 ATGGGCTAGGCCCAGTATACTCTGATACTTGTAATAGGGCTACGACCCAGATTAATACTGAC
* *
43532194 ATGGGTTAAAGCCCAGT-TAACTCTGAT
1 ATGGGCT-AGGCCCAGTAT-ACTCTGAT
43532221 TTCTGAATAG
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 45 0.62
61 25 0.35
62 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (62 bp):
ATGGGCTAGGCCCAGTATACTCTGATACTTGTAATAGGGCTACGACCCAGATTAATACTGAC
Found at i:43534207 original size:18 final size:20
Alignment explanation
Indices: 43534171--43534217 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
43534161 AGTTGTAAGT
43534171 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
43534191 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
43534210 ATGATATA
1 AT-ATATA
43534218 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:43534763 original size:101 final size:100
Alignment explanation
Indices: 43534588--43535088 Score: 445
Period size: 101 Copynumber: 5.0 Consensus size: 100
43534578 TCATTATGAG
* * * * * * * ** *
43534588 TCACATGTGTAGTAGTAAGTGTAGGATACTATGTGTA-CTAGATTGATAGGTGGCATGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAAGTCACGTGTGTAGTA
43534652 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAA
65 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-AA
* *
43534689 TCACATGTGTAGTACTAAGGGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
*** * * *
43534754 TAAGTGCAGGCTACTACATGTACCAGATTGA--TAGG
66 TAAGTGCAGGCTACTATGCGTACCCG-TTAACTTA-A
* * * * * * ** *
43534789 TCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTATCTGTTAACTT-CGATCACGTGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAAG-TCACGTGTGTAGT
* * * * * * **
43534853 ACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTAA
64 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTAA
** * * * * * * *
43534889 TTCAGTTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCTTGTGTAGTA
1 -TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTA
* *
43534954 CTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGA
65 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-AA
** *
43534991 TCAGGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACTTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
*
43535056 TAAGTACAGGCTACTATGCGTACCCGTTAACTT
66 TAAGTGCAGGCTACTATGCGTACCCGTTAACTT
43535089 TATGTACCAG
Statistics
Matches: 323, Mismatches: 66, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
99 1 0.00
100 75 0.23
101 242 0.75
102 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTAA
Found at i:43534765 original size:50 final size:50
Alignment explanation
Indices: 43534643--43535071 Score: 371
Period size: 50 Copynumber: 8.5 Consensus size: 50
43534633 ATAGGTGGCA
* * * * * * *
43534643 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AGTT-AAGTCACG
* * *
43534694 TGTGTAGTACTAAGGGTAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
* * * * * * *
43534744 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
* * * * * * *
43534794 TGTGTAGTTCTAAGTGCAGGCTACTATGCGTATCTGTTAACTT-CGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AGTTAAG-TCACG
* * *
43534845 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAATTCA-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
* * * * * * *
43534894 TTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCT
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
* * * * * * *
43534945 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTT-CGATCAGG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AGTTAAG-TCACG
* *
43534996 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
*
43535046 TGTGTAGTACTAAGTACAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
43535072 TGCGTACCCG
Statistics
Matches: 295, Mismatches: 74, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
49 3 0.01
50 187 0.63
51 105 0.36
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
Found at i:43535079 original size:151 final size:151
Alignment explanation
Indices: 43534586--43535297 Score: 777
Period size: 151 Copynumber: 4.6 Consensus size: 151
43534576 ATTCATTATG
* * * * * * *
43534586 AGTCACATGTGTAGTAGTAAGTGTAGGATACTATGTGTACTAGATTGATAGGTGGCATGTGTAGT
1 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * *
43534651 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAATCACATGTGTAGTACTAAGGGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
43534716 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* *
43534737 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
43534802 TCTAAGTGCAGGCTACTATGCGTATCTGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
43534867 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * * *
43534888 ATTCAGTTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCTTGTGTAGT
1 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
43534953 ACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCAGGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
43535018 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * * * * *
43535039 AGTCACTTGTGTAGTACTAAGTACAGGCTACTATGCGTACCCG-TTAACTTTATGTAC-CA-GAT
1 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA---TAGGT-CGCATG--
* * ** * * ** * * * **
43535101 TGATAGGT-CGCATGTGTTGTACTAAGTATAG-GCTACTATGTGTATCCATTAGCTTCAATCACG
60 TG-TA-GTAC-TAAGTGCAG-GCT-ACTAT-GCG-TA-TCCGT-TA-AC-TTCG-ATC-A-CGTG
* *
43535164 TGTGTAGTACTAAGTGTAGGCTACTGCGTGTATCAGATTGTTA
111 TG--TAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
* *
43535207 AGTAACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGT
1 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
43535272 ACTAAGTGTAGGCTACTATGTGTATC
66 ACTAAGTGCAGGCTACTATGCGTATC
43535298 AGATGGTTAA
Statistics
Matches: 469, Mismatches: 65, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
150 3 0.01
151 314 0.67
152 1 0.00
153 5 0.01
154 3 0.01
155 3 0.01
156 7 0.01
157 2 0.00
158 5 0.01
159 4 0.01
160 6 0.01
161 7 0.01
162 3 0.01
163 11 0.02
164 5 0.01
165 3 0.01
166 9 0.02
167 1 0.00
168 74 0.16
169 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (151 bp):
AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
ACTACGTGTATCAGATGGTTA
Found at i:43535201 original size:168 final size:168
Alignment explanation
Indices: 43534923--43535239 Score: 508
Period size: 168 Copynumber: 1.9 Consensus size: 168
43534913 AGCTACTACG
* * *
43534923 TGTACCAGATTGATAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTT
1 TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTATCCATTAACTT
* * *
43534988 CGATCAGGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACTTGTGTAG
66 CAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTAACTTGTGTAG
43535053 TACTAAGTACAGGCTACTATGCGTACCCGTTAACTTTA
131 TACTAAGTACAGGCTACTATGCGTACCCGTTAACTTTA
* * * *
43535091 TGTACCAGATTGATAGGTCGCATGTGTTGTACTAAGTATAGGCTACTATGTGTATCCATTAGCTT
1 TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTATCCATTAACTT
* * *
43535156 CAATCACGTGTGTAGTACTAAGTGTAGGCTACTGCGTGTATCAGATTGTTAAGTAACTTGTGTAG
66 CAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTAACTTGTGTAG
*
43535221 TACTAAGTGCAGGCTACTA
131 TACTAAGTACAGGCTACTA
43535240 CGTGTACCAG
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
168 135 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (168 bp):
TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTATCCATTAACTT
CAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTAACTTGTGTAG
TACTAAGTACAGGCTACTATGCGTACCCGTTAACTTTA
Found at i:43535328 original size:268 final size:268
Alignment explanation
Indices: 43534845--43535559 Score: 1021
Period size: 268 Copynumber: 2.7 Consensus size: 268
43534835 TTCGATCACG
* * *
43534845 TGTGTAGTACTAAGTGTAGGCTACTACGTGTAT-CA-GATGGTT-AATTCA-GTTGTGTAGTACT
1 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCCATTA-GCTTCAA-TCACG-TGTGTAGTACT
* * * * *
43534906 AAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTA
63 AAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCACTTGTGTAGTACTAAGTGCAGGCTACTA
* * * ** * *
43534971 TGCGTATCC-G-TTAACTTCGAT-CAGGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
128 CGTGTA-CCAGATTGA-TAGGTTGCA--TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA
* * *
43535033 TGGTTAAGTCACTTGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGTTAACTTTATGTACCA
189 TGGTTAAGTCACTTGTGTAGTACTAAGTACAAGCTACTATGCGTACCCGTTAACTTCACGTACCA
43535098 GATTGATAGGTCGCA
254 GATTGATAGGTCGCA
* *
43535113 TGTGTTGTACTAAGTATAGGCTACTATGTGTATCCATTAGCTTCAATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCCATTAGCTTCAATCACGTGTGTAGTACTAAG
* * *
43535178 TGTAGGCTACTGCGTGTATCAGATTGTTAAGTAACTTGTGTAGTACTAAGTGCAGGCTACTACGT
66 TGCAGGCTACTACGTGTATCAGATTGTTAAGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGT
*
43535243 GTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATGGTTAA
131 GTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAA
* *
43535308 GTCACTTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGCGTACCAGATTGAT
196 GTCACTTGTGTAGTACTAAGTACAAGCTACTATGCGTACCCGTTAACTTCACGTACCAGATTGAT
43535373 AGGTCGCA
261 AGGTCGCA
* * *
43535381 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCCTTTAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCCATTAGCTTCAATCACGTGTGTAGTACTAAG
* *
43535446 TGCAGGCTACTAAGTGTATCAGATGGTTAAGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGT
66 TGCAGGCTACTACGTGTATCAGATTGTTAAGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGT
* *
43535511 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCGGGCTACTATG
131 GTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATG
43535560 CATACCAAAG
Statistics
Matches: 401, Mismatches: 39, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
268 308 0.77
269 84 0.21
270 9 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (268 bp):
TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCCATTAGCTTCAATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATTGTTAAGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGT
GTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAA
GTCACTTGTGTAGTACTAAGTACAAGCTACTATGCGTACCCGTTAACTTCACGTACCAGATTGAT
AGGTCGCA
Found at i:43535341 original size:50 final size:50
Alignment explanation
Indices: 43535113--43535339 Score: 242
Period size: 50 Copynumber: 4.5 Consensus size: 50
43535103 ATAGGTCGCA
* ** * * *
43535113 TGTGTTGTACTAAGTATAGGCTACTATGTGTATC-CATTAGCTTCAA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATT-G-TT-AAGTCACT
* * *
43535164 TGTGTAGTACTAAGTGTAGGCTACTGCGTGTATCAGATTGTTAAGTAACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCACT
* * * ** *
43535214 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCACT
* * *
43535264 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATGGTTAAGTCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCACT
*
43535314 TGTGTAGTACTAAGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
43535340 TGCGTACCCG
Statistics
Matches: 148, Mismatches: 26, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 2 0.01
50 112 0.76
51 31 0.21
52 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCACT
Found at i:43535347 original size:100 final size:100
Alignment explanation
Indices: 43535164--43535347 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
43535154 TTCAATCACG
* *
43535164 TGTGTAGTACTAAGTGTAGGCTACTGCGTGTATCAGATTGTTAAGTAACTTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTAACTTGTGTAGTACTAAGT
* *
43535229 GCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
66 GCAAGCTACTACGCGTACCAGATTGATAGGTTGCA
* *
43535264 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATGGTTAAGTCACTTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTAACTTGTGTAGTACTAAGT
*
43535329 GCAAGCTACTATGCGTACC
66 GCAAGCTACTACGCGTACC
43535348 CGTTAACTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTAACTTGTGTAGTACTAAGT
GCAAGCTACTACGCGTACCAGATTGATAGGTTGCA
Found at i:43535566 original size:50 final size:50
Alignment explanation
Indices: 43535360--43535559 Score: 215
Period size: 50 Copynumber: 4.0 Consensus size: 50
43535350 TTAACTTCGC
* *
43535360 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGT
1 GTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGT
* * * * * *
43535410 GTATCC--TTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTAAGT
1 GTA-CCAGATTGA--TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGT
* * * * * *
43535461 GTATCAGATGGTTAAGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGT
1 GTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGT
* *
43535511 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCGGGCTACTATG
1 GTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
43535560 CATACCAAAG
Statistics
Matches: 119, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.03
50 78 0.66
51 37 0.31
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
GTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGT
Found at i:43535789 original size:16 final size:16
Alignment explanation
Indices: 43535768--43535799 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43535758 AGAATGGAGT
43535768 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
43535784 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
43535800 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:43537942 original size:26 final size:26
Alignment explanation
Indices: 43537908--43537980 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
43537898 CTCTTTTAAT
43537908 AACTAGGGCATAAGCCCTTTTCAGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* *
43537934 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
43537960 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
43537981 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAGTA
Found at i:43541569 original size:6 final size:6
Alignment explanation
Indices: 43541551--43541647 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
43541541 AAGAAACATT
* *
43541551 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
43541600 ATTAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
43541648 GTAACAGAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.07
6 59 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:43541596 original size:31 final size:31
Alignment explanation
Indices: 43541535--43541657 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
43541525 TAACCTATTA
* * *
43541535 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * *
43541565 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* *
43541596 CAGAATTAGAATCAGTATCAGGTAATAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
43541627 CAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
43541658 AAAAAATCAG
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
30 15 0.19
31 60 0.78
32 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:43541850 original size:27 final size:26
Alignment explanation
Indices: 43541807--43541908 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
43541797 GCTCAGTTAT
** *
43541807 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
43541834 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
43541860 CAAATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
43541888 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
43541909 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 52 0.80
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:43542101 original size:22 final size:22
Alignment explanation
Indices: 43542067--43542131 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
43542057 GCAAATATGT
*
43542067 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
43542089 TTGGGACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
43542111 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
43542132 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:43542614 original size:27 final size:27
Alignment explanation
Indices: 43542584--43542806 Score: 175
Period size: 27 Copynumber: 8.3 Consensus size: 27
43542574 AAGGTATCTC
*
43542584 AGTAATTCCACCCTATC-GGGGTATTTT
1 AGTAATTCTACCCTA-CAGGGGTATTTT
43542611 AGTAATTCTACCCTACAGGGGTATTTT
1 AGTAATTCTACCCTACAGGGGTATTTT
* * * *
43542638 GGGAATTCTACCCTACAGGGCTA-TTG
1 AGTAATTCTACCCTACAGGGGTATTTT
* *
43542664 CGATAATTCTACCCTACAGGGGTATTTC
1 AG-TAATTCTACCCTACAGGGGTATTTT
* * *
43542692 GGTAATTCTACCCTATAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTT
* * * *
43542719 AATAATTTTACCTTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTT
* * ** *
43542746 GGTAATTTTATAC-ACAAAGGGTATTTT
1 AGTAATTCTACCCTAC-AGGGGTATTTT
* **
43542773 AGTAATTTTA-CAAACCAGGGGTATTTT
1 AGTAATTCTACCCTA-CAGGGGTATTTT
*
43542800 GGTAATT
1 AGTAATT
43542807 TTGTAAACCA
Statistics
Matches: 162, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.04
27 152 0.94
28 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGTATTTT
Found at i:43542651 original size:54 final size:54
Alignment explanation
Indices: 43542587--43542752 Score: 201
Period size: 54 Copynumber: 3.1 Consensus size: 54
43542577 GTATCTCAGT
* * *
43542587 AATTCCACCCTATCGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTGGG
1 AATTCTACCCTATCGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGG
* * *
43542641 AATTCTACCCTA-CAGGGCTATTGC-GATAATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTATC-GGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGG
* * * * *
43542695 AATTCTACCCTATAGGGGTATTTCAATAATTTTACCTTACAGGGGTATTTCGGT
1 AATTCTACCCTATCGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGG
43542749 AATT
1 AATT
43542753 TTATACACAA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.02
54 94 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
AATTCTACCCTATCGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGG
Found at i:43542736 original size:81 final size:81
Alignment explanation
Indices: 43542586--43542752 Score: 201
Period size: 81 Copynumber: 2.1 Consensus size: 81
43542576 GGTATCTCAG
* ***
43542586 TAATTCCACCCTATCGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTGGGAATTCTACCC
1 TAATTCCACCCTATCGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAAGAATTCTACCC
43542651 TACAGGGCTATTGCGA
66 TACAGGGCTATTGCGA
* * * * *
43542667 TAATTCTACCCTA-CAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATAATTTTACC
1 TAATTCCACCCTATC-GGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAAGAATTCTACC
* * * *
43542731 TTACAGGGGTATTTCGG
65 CTACAGGGCTATTGCGA
43542748 TAATT
1 TAATT
43542753 TTATACACAA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
TAATTCCACCCTATCGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAAGAATTCTACCC
TACAGGGCTATTGCGA
Found at i:43542768 original size:54 final size:54
Alignment explanation
Indices: 43542710--43542914 Score: 254
Period size: 54 Copynumber: 3.8 Consensus size: 54
43542700 TACCCTATAG
* * ** * *
43542710 GGGTATTTCAATAATTTTACCTTACAGGGGTATTTCGGTAATTTTATACACAAA
1 GGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTGGTAATTTTATAAACAAA
* * *
43542764 GGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTGTAAACCAC
1 GGGTATTTTAGTAATTTTACCAAA-CAGGGGTATTTTGGTAATTTTATAAACAAA
* * *
43542818 GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTAGTAATTTTACCAAA-CAGGGGTATTTTGGTAATTTTATAAACAAA
*
43542872 GGGTATTTTAGTAA-TTTACAAAACAGGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTGGTAATTT
43542915 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
53 25 0.19
54 107 0.81
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:43542806 original size:81 final size:81
Alignment explanation
Indices: 43542710--43542914 Score: 216
Period size: 81 Copynumber: 2.5 Consensus size: 81
43542700 TACCCTATAG
* * * * * * *
43542710 GGGTATTTCAATAATTTTACCTTACAGGGGTATTTCGGTAATTTTATACACAAAGGGTATTTTAG
1 GGGTATTTTAGTAATTTTACATAACAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
*
43542775 TAATTTTACAAACCAG
66 TAATTTTACAAACCAA
* ** * * * *
43542791 GGGTATTTTGGTAATTTTGTA-AACCACGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GGGTATTTTAGTAATTTTACATAA-CAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTA
* * *
43542855 GTGATTTTATAAACTAA
65 GTAATTTTACAAACCAA
*
43542872 GGGTATTTTAGTAA-TTTACAAAACAGGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACATAACAGGGGTATTTTGGTAATTT
43542915 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
80 24 0.24
81 76 0.76
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACATAACAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
TAATTTTACAAACCAA
Found at i:43542807 original size:27 final size:27
Alignment explanation
Indices: 43542734--43542914 Score: 220
Period size: 27 Copynumber: 6.7 Consensus size: 27
43542724 TTTTACCTTA
* * *
43542734 CAGGGGTATTTCGGTAATTTTATACAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
43542761 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
43542788 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
43542815 CACGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
43542842 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * * *
43542869 TAAGGGTATTTTAGTAA-TTTACAAAA
1 CAGGGGTATTTTGGTAATTTTACAAAC
43542895 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
43542915 GGTAAACTAA
Statistics
Matches: 127, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 21 0.17
27 106 0.83
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:43544873 original size:6 final size:6
Alignment explanation
Indices: 43544855--43544950 Score: 70
Period size: 6 Copynumber: 15.7 Consensus size: 6
43544845 AAGAAACATT
* *
43544855 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * * *
43544904 ATTAGA ATCAGT ATCAGA TAACAGA ATCAAA ATTAGA ATCAGT ATCA
1 ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA ATCAGA ATCA
43544951 AGTAACAGAA
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
5 3 0.04
6 57 0.81
7 8 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (6 bp):
ATCAGA
Found at i:43544930 original size:31 final size:31
Alignment explanation
Indices: 43544839--43544961 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
43544829 TAACCCATTA
* * *
43544839 CAGAATAAGAAACATTATCAG--AACTAGAAT
1 CAGAATTAGAATCAGTATCAGATAAC-AGAAT
* * * * * *
43544869 CAGAATCAGAATCAGAATTAGGTGATAGAAT
1 CAGAATTAGAATCAGTATCAGATAACAGAAT
43544900 CAGAATTAGAATCAGTATCAGATAACAGAAT
1 CAGAATTAGAATCAGTATCAGATAACAGAAT
*
43544931 CAAAATTAGAATCAGTATCA-AGTAACAGAAT
1 CAGAATTAGAATCAGTATCAGA-TAACAGAAT
43544962 AAAAAATCAG
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
30 17 0.22
31 58 0.76
32 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (31 bp):
CAGAATTAGAATCAGTATCAGATAACAGAAT
Found at i:43545153 original size:27 final size:26
Alignment explanation
Indices: 43545111--43545212 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
43545101 GCTCAGTTAT
* *
43545111 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
43545138 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
43545164 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
43545192 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
43545213 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:43545399 original size:22 final size:23
Alignment explanation
Indices: 43545371--43545432 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
43545361 GCAAATACGT
*
43545371 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
43545393 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
43545415 TTGACACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
43545433 TAGAAGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:43545919 original size:27 final size:27
Alignment explanation
Indices: 43545880--43545949 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
43545870 TACCCCACAA
* *
43545880 GGTATCTCGGTAATTCCAACATACAGG
1 GGTATTTCAGTAATTCCAACATACAGG
* * * *
43545907 GGTATTTTAGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCCAACATACAGG
43545934 GGTATTTCAGTAATTC
1 GGTATTTCAGTAATTC
43545950 TGACCTATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTATTTCAGTAATTCCAACATACAGG
Found at i:43545950 original size:27 final size:27
Alignment explanation
Indices: 43545901--43545983 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
43545891 AATTCCAACA
*
43545901 TACAGGGGTATTTTAGTAATTCTACCT
1 TACAGGGGTATTTCAGTAATTCTACCT
43545928 TACAGGGGTATTTCAGTAATTCTGACC-
1 TACAGGGGTATTTCAGTAATTCT-ACCT
* *
43545955 TATAGGGGTATTGC-GATAATTCTACCT
1 TACAGGGGTATTTCAG-TAATTCTACCT
43545982 TA
1 TA
43545984 TGGGATTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
26 4 0.08
27 43 0.86
28 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (27 bp):
TACAGGGGTATTTCAGTAATTCTACCT
Found at i:43547342 original size:30 final size:30
Alignment explanation
Indices: 43547296--43547354 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
43547286 TTTACGAGCC
*
43547296 TAGGGGCCAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCCAAAATGTAAATATGTAAAAGTT
* *
43547326 TAGGGGTCAAAATGTAAATTTGTAAAAGT
1 TAGGGGCCAAAATGTAAATATGTAAAAGT
43547355 ATGATTTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (30 bp):
TAGGGGCCAAAATGTAAATATGTAAAAGTT
Found at i:43547610 original size:18 final size:20
Alignment explanation
Indices: 43547574--43547620 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
43547564 ATTTGTAAGT
43547574 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
43547594 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
43547613 ATGATATA
1 AT-ATATA
43547621 ACCTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:43549827 original size:40 final size:40
Alignment explanation
Indices: 43549700--43549829 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
43549690 ATGCTGGAAA
* *
43549700 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
43549740 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
43549780 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
43549820 TTATATCCGG
1 TTATATCCGG
43549830 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:43557738 original size:40 final size:39
Alignment explanation
Indices: 43557693--43557822 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
43557683 ATGCTGGAAA
*
43557693 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* *
43557733 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
43557773 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
43557813 TTATATCCGG
1 TTATATCCGG
43557823 TTGTATTCCG
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.05
40 76 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:43559328 original size:101 final size:98
Alignment explanation
Indices: 43559212--43559549 Score: 273
Period size: 101 Copynumber: 3.4 Consensus size: 98
43559202 ATAGGTCGCA
* * * *
43559212 TGTGTAGTCCTAAGTGCAGGCTACTATGTGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGTT-A-TT-GATCACATGTGTAGTACTAAG
* * *
43559277 TGTAGGCTACTACGTGTATCAGATGGTTAAGTCATG
63 TGCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
* * * * * *
43559313 TGTGTAGTACTAAGTGTACGCTACTACATGTACCAGATTGATAGGTCACATATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-TT-ATTGATCACATGTGTAGTACTAAGT
* * * * * *
43559378 GCAGGCTACTATGCGTATCCGTTAACTT-TGATCACG
64 GCAGGCTACTACGTGTATCAGAT-AGTTAAG-TCACG
* * * ** * *
43559414 TGTGAAGTTCTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-TTATTGA-TCACATGTGTAGTACTAAGT
* * * * * *
43559479 GCAGCCTACTACGTGTACCAGATTGATAGGTCACA
64 GCAGGCTACTACGTGTATCAGATAGTTAAGTCACG
* * *
43559514 TGTGTAGTACTAAATGCAGGCTACTATGCGTACCAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
43559550 AGAGCTTCAG
Statistics
Matches: 182, Mismatches: 50, Indels: 11
0.75 0.21 0.05
Matches are distributed among these distances:
100 74 0.41
101 105 0.58
102 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (98 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGTTATTGATCACATGTGTAGTACTAAGTGC
AGGCTACTACGTGTATCAGATAGTTAAGTCACG
Found at i:43559472 original size:151 final size:151
Alignment explanation
Indices: 43559198--43559547 Score: 567
Period size: 151 Copynumber: 2.3 Consensus size: 151
43559188 GGGGTGCTAC
* * *
43559198 ATTGATAGGTCGCATGTGTAGTCCTAAGTGCAGGCTACTATGTGTACCCGTTAACTTCGATCACG
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACG
* * *
43559263 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGTACTAAGT
66 TGTGAAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTACTAAGT
*
43559328 GTA-CGCTACTACATGTACCAG
131 GCAGC-CTACTACATGTACCAG
* * *
43559349 ATTGATAGGTCACATATGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTTGATCACG
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACG
*
43559414 TGTGAAGTTCTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTACTAAGT
66 TGTGAAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTACTAAGT
*
43559479 GCAGCCTACTACGTGTACCAG
131 GCAGCCTACTACATGTACCAG
*
43559500 ATTGATAGGTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACC
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
43559548 AGAGAGCTTC
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
151 182 0.99
152 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (151 bp):
ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACG
TGTGAAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTACTAAGT
GCAGCCTACTACATGTACCAG
Found at i:43559547 original size:50 final size:50
Alignment explanation
Indices: 43559198--43559550 Score: 316
Period size: 50 Copynumber: 7.0 Consensus size: 50
43559188 GGGGTGCTAC
* * * *
43559198 ATTGATAGGTCGCATGTGTAGTCCTAAGTGCAGGCTACTATGTGTACCCG
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * * *
43559248 -TTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAG
1 ATTGA--TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * ** * * *
43559299 ATGGTTAAGTCATGTGTGTAGTACTAAGTGTACGCTACTACATGTACCAG
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * *
43559349 ATTGATAGGTCACATATGTAGTACTAAGTGCAGGCTACTATGCGTATCC-G
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAG
* * * * * * *
43559399 -TTAACTTTGATCACGTGTGAAGTTCTAAGTGCAGGCTACTACGTGTATCAG
1 ATTGA--TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * *
43559450 ATGGTTAAGTCATATGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAG
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * *
43559500 ATTGATAGGTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAG
1 ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
43559550 A
1 A
43559551 GAGCTTCAGT
Statistics
Matches: 234, Mismatches: 61, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
49 6 0.03
50 154 0.66
51 72 0.31
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
Found at i:43570167 original size:132 final size:133
Alignment explanation
Indices: 43569916--43570181 Score: 313
Period size: 132 Copynumber: 2.0 Consensus size: 133
43569906 TTTTAACGGA
* * * * * *
43569916 TTTTTAGAAGACACGAGTGAAATTTTGAAGGGATATTTGATTATTTTCAGCAAACGAGAAATTGC
1 TTTTTAAAAGACACGAGTGAAATTCTAAAGGGACATTCGATTACTTTCAGCAAACGAGAAATTGC
** * *
43569981 AACCCAACACATTAGGGCACGATTCTGTCAATTGCCAAATATCATACATCGCCTTCG-TTTAAGA
66 AACCCAACACATTAGGGCACGATTCTCACAATTACCAAATATCATACATCGCCTTCGTTTTAAAA
43570045 GAT
131 GAT
* * * * *
43570048 TTTTTAAAAGACATGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGGAATTGC
1 TTTTTAAAAGACACGAGTGAAATTCTAAAGGGACATTCGATTACTTTCAGCAAACGAGAAATTGC
* * * * *
43570113 AACCCAACGCGTTAGGGCACGATTC-CACGAATTACCAAGTATCGA-ATATTGCCTTCGTTTTAA
66 AACCCAACACATTAGGGCACGATTCTCAC-AATTACCAAATATC-ATACATCGCCTTCGTTTTAA
43570176 AAGAT
129 AAGAT
43570181 T
1 T
43570182 CTTAATAATT
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
131 1 0.01
132 99 0.89
133 11 0.10
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (133 bp):
TTTTTAAAAGACACGAGTGAAATTCTAAAGGGACATTCGATTACTTTCAGCAAACGAGAAATTGC
AACCCAACACATTAGGGCACGATTCTCACAATTACCAAATATCATACATCGCCTTCGTTTTAAAA
GAT
Found at i:43573341 original size:127 final size:129
Alignment explanation
Indices: 43573197--43573628 Score: 456
Period size: 132 Copynumber: 3.3 Consensus size: 129
43573187 GTTAGGACAA
* * * * * * *
43573197 TGGCTTGAATCTGCTTCACTGCAACTTTAGGAAGACTAGATTCATCATCTTTGATCTACTCCCCT
1 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCATCTTCGATCTACTCCACT
* * * ** * * *
43573262 ACAACTTTAGGGAGATAGGATCTACAGATTTTAGCCTACT-C-C-GCTTTAGGGAGCTAGGTTGG
66 ACAACTTCAGGGAAACAAAATCTA-AAATTTTAGCCTACTCCACAACTTTAAGGAGCTAGGTTGG
* * * * *
43573324 TGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACT
1 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCATCTTCGATCTACTCCACT
**
43573389 GTAACTTCAGGGAAACAAAATCTAAAATTTTAGCCTACTCCACTACAACTTTAAGGAGCTAGGTT
66 ACAACTTCAGGGAAACAAAATCTAAAATTTTAGCCTACT-C-C-ACAACTTTAAGGAGCTAGGTT
43573454 GG
128 GG
* * ** *
43573456 TGGCTTAAATCTGCTTCACTGTAACTTCAGGAAGCCAAGATTCGCCATCTTCGATCCGCTCTACT
1 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCATCTTCGATCTACTCCACT
** * * * * *
43573521 GTAACTTCAGGGAAACGAGATCTAAAATTTCAGCCTACTCCATACAACTTTAGGGAGCTAGATTG
66 ACAACTTCAGGGAAACAAAATCTAAAATTTTAGCCTACTCC--ACAACTTTAAGGAGCTAGGTTG
43573586 G
129 G
* **
43573587 TGGCCTAAATCTGCTTTGCTGCAACTTCAGGAAGCCAAGATT
1 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATT
43573629 TGCTGTTTTG
Statistics
Matches: 261, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
126 14 0.05
127 70 0.27
129 1 0.00
130 1 0.00
131 62 0.24
132 113 0.43
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (129 bp):
TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCATCTTCGATCTACTCCACT
ACAACTTCAGGGAAACAAAATCTAAAATTTTAGCCTACTCCACAACTTTAAGGAGCTAGGTTGG
Found at i:43573643 original size:131 final size:132
Alignment explanation
Indices: 43573305--43573674 Score: 555
Period size: 132 Copynumber: 2.8 Consensus size: 132
43573295 GCCTACTCCG
*
43573305 CTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
1 CTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
* * * *
43573370 GTCTTCGATCTGCT-TCACTGTAACTTCAGGGAAACAAAATCTAAAATTTTAGCCTACTCCACTA
66 GTCTTCGATCCGCTCT-ACTGTAACTTCAGGGAAACGAGATCTAAAATTTCAGCCTACTCCACTA
43573434 CAA
130 CAA
* *
43573437 CTTTAAGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGTAACTTCAGGAAGCCAAGATTCGCC
1 CTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
*
43573502 ATCTTCGATCCGCTCTACTGTAACTTCAGGGAAACGAGATCTAAAATTTCAGCCTACTCCA-TAC
66 GTCTTCGATCCGCTCTACTGTAACTTCAGGGAAACGAGATCTAAAATTTCAGCCTACTCCACTAC
43573566 AA
131 AA
* * ** * *
43573568 CTTTAGGGAGCTAGATTGGTGGCCTAAATCTGCTTTGCTGCAACTTCAGGAAGCCAAGATTTGCT
1 CTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
* * * *
43573633 GTTTTGGATCCGCTCCACTGCAACTTCAGGGAAACGAGATCT
66 GTCTTCGATCCGCTCTACTGTAACTTCAGGGAAACGAGATCT
43573675 GTAGGATTCG
Statistics
Matches: 216, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
131 99 0.46
132 116 0.54
133 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (132 bp):
CTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
GTCTTCGATCCGCTCTACTGTAACTTCAGGGAAACGAGATCTAAAATTTCAGCCTACTCCACTAC
AA
Found at i:43584959 original size:55 final size:55
Alignment explanation
Indices: 43584866--43584973 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
43584856 CAGCCGAGGG
*
43584866 CAACACTGACTTATCAACACGACCATGGCACACACCCATGCT-GCCTGCCCGTGGA
1 CAACACTGACTTATCAACACGACCATGGCACACACCCATG-TGGCCTACCCGTGGA
* * * * ** *
43584921 CAACACTGTCTTTTTAACACGGCCATGGTGCACGCCCATGTGGCCTACCCGTG
1 CAACACTGACTTATCAACACGACCATGGCACACACCCATGTGGCCTACCCGTG
43584974 TACGAATTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 43 0.98
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.20
Consensus pattern (55 bp):
CAACACTGACTTATCAACACGACCATGGCACACACCCATGTGGCCTACCCGTGGA
Found at i:43585201 original size:38 final size:38
Alignment explanation
Indices: 43585150--43585222 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
43585140 GTGCTTAATG
43585150 GTTACCAAATTCAAAGTAAAACACAATTATACACTATT
1 GTTACCAAATTCAAAGTAAAACACAATTATACACTATT
43585188 GTTACCAAATTCAAAGTAAAACACAATTATACACT
1 GTTACCAAATTCAAAGTAAAACACAATTATACACT
43585223 TGTAAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.27
Consensus pattern (38 bp):
GTTACCAAATTCAAAGTAAAACACAATTATACACTATT
Found at i:43587378 original size:93 final size:93
Alignment explanation
Indices: 43587266--43587437 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43587256 GCCCATAAGT
* *
43587266 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43587331 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43587359 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43587424 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43587438 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43587433 original size:46 final size:46
Alignment explanation
Indices: 43587258--43587433 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43587248 TGTAACCCGC
* * *
43587258 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43587304 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43587354 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43587397 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43587434 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43592287 original size:12 final size:12
Alignment explanation
Indices: 43592270--43592294 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43592260 TATCTGCTCT
43592270 GGAACTCACTAA
1 GGAACTCACTAA
43592282 GGAACTCACTAA
1 GGAACTCACTAA
43592294 G
1 G
43592295 TTCTATGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (12 bp):
GGAACTCACTAA
Found at i:43594462 original size:42 final size:42
Alignment explanation
Indices: 43594403--43594486 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
43594393 AGCTTCCCAT
43594403 TCCAATAAGGATATGGCACATGGAAGACTATCTTCACGGTTA
1 TCCAATAAGGATATGGCACATGGAAGACTATCTTCACGGTTA
43594445 TCCAATAAGGATATGGCACATGGAAGACTATCTTCACGGTTA
1 TCCAATAAGGATATGGCACATGGAAGACTATCTTCACGGTTA
43594487 CATGTTAGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (42 bp):
TCCAATAAGGATATGGCACATGGAAGACTATCTTCACGGTTA
Found at i:43596458 original size:17 final size:17
Alignment explanation
Indices: 43596436--43596468 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43596426 AAAAATCTAC
43596436 AGCCGTGTGACTCACAT
1 AGCCGTGTGACTCACAT
43596453 AGCCGTGTGACTCACA
1 AGCCGTGTGACTCACA
43596469 CGGCTTAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.21
Consensus pattern (17 bp):
AGCCGTGTGACTCACAT
Found at i:43601641 original size:40 final size:39
Alignment explanation
Indices: 43601514--43601643 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
43601504 ATGCTGGAAA
* *
43601514 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
43601554 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
43601594 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
43601634 TTATATCCGG
1 TTATATCCGG
43601644 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:43609682 original size:40 final size:39
Alignment explanation
Indices: 43609555--43609684 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
43609545 ATGCTGGAAA
* *
43609555 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
43609595 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
43609635 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
43609675 TTATATCCGG
1 TTATATCCGG
43609685 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:43611991 original size:28 final size:29
Alignment explanation
Indices: 43611910--43612021 Score: 101
Period size: 28 Copynumber: 4.0 Consensus size: 29
43611900 TTCGCATACT
* * * *
43611910 TGTATTTGGCCCATTAAGC-CCAATCATA
1 TGTATATGGCCCATTAGGCACGAATCACA
*
43611938 T-TCATATGGCCCATTA-GC-CGAATCACC
1 TGT-ATATGGCCCATTAGGCACGAATCACA
43611965 TGTATATGG-CCATTAGGCACGAATCACA
1 TGTATATGGCCCATTAGGCACGAATCACA
* * *
43611993 TTTATATGGCCCGTTAGGCAC-AGTCACA
1 TGTATATGGCCCATTAGGCACGAATCACA
43612021 T
1 T
43612022 TCATATTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.08
27 18 0.25
28 37 0.52
29 10 0.14
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCACGAATCACA
Found at i:43619771 original size:26 final size:24
Alignment explanation
Indices: 43619742--43619814 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
43619732 AGACTCACCA
43619742 TAGCTTGGATGAGCTTACTGATTTAT
1 TAGCTTGGATGAGCTTACTG-TTT-T
* * *
43619768 TAGCTCGTAAGAGCTTACTGTTTT
1 TAGCTTGGATGAGCTTACTGTTTT
*
43619792 CAGCTT-GATAGAGCTTACTGTTT
1 TAGCTTGGAT-GAGCTTACTGTTT
43619815 CTGCTCGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.03
24 18 0.46
25 3 0.08
26 17 0.44
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (24 bp):
TAGCTTGGATGAGCTTACTGTTTT
Found at i:43619824 original size:23 final size:23
Alignment explanation
Indices: 43619769--43619905 Score: 145
Period size: 23 Copynumber: 5.9 Consensus size: 23
43619759 CTGATTTATT
43619769 AGCTCG-TAAGAGCTTACTGTTTTC
1 AGCTCGAT-AGAGCTTACTG-TTTC
*
43619793 AGCTTGATAGAGCTTACTGTTTC
1 AGCTCGATAGAGCTTACTGTTTC
*
43619816 TGCTCGATA-AGGCTTACTGTTTC
1 AGCTCGATAGA-GCTTACTGTTTC
*
43619839 AGCTCAATAGAGCTTACTGTTTC
1 AGCTCGATAGAGCTTACTGTTTC
* * *
43619862 TGCTCGATAGAGCTGACCGTTTC
1 AGCTCGATAGAGCTTACTGTTTC
* *
43619885 AACT-TATTAGAGCTTACTGTT
1 AGCTCGA-TAGAGCTTACTGTT
43619906 ATTAGCTCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
22 2 0.02
23 75 0.79
24 17 0.18
25 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (23 bp):
AGCTCGATAGAGCTTACTGTTTC
Found at i:43619852 original size:46 final size:47
Alignment explanation
Indices: 43619752--43619905 Score: 188
Period size: 46 Copynumber: 3.3 Consensus size: 47
43619742 TAGCTTGGAT
* *
43619752 GAGCTTACTGATTTATTAGCTCG-TAAGAGCTTACTGTTTTCAGCTTGATA
1 GAGCTTACTG-TTT-CT-GCTCGATAAGAGCTTACTG-TTTCAGCTTAATA
*
43619802 GAGCTTACTGTTTCTGCTCGATAAG-GCTTACTGTTTCAGCTCAATA
1 GAGCTTACTGTTTCTGCTCGATAAGAGCTTACTGTTTCAGCTTAATA
* * * *
43619848 GAGCTTACTGTTTCTGCTCGAT-AGAGCTGACCGTTTCAACTTATTA
1 GAGCTTACTGTTTCTGCTCGATAAGAGCTTACTGTTTCAGCTTAATA
43619894 GAGCTTACTGTT
1 GAGCTTACTGTT
43619906 ATTAGCTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
45 2 0.02
46 61 0.65
47 13 0.14
48 5 0.05
49 3 0.03
50 10 0.11
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (47 bp):
GAGCTTACTGTTTCTGCTCGATAAGAGCTTACTGTTTCAGCTTAATA
Found at i:43619900 original size:69 final size:71
Alignment explanation
Indices: 43619777--43619925 Score: 169
Period size: 69 Copynumber: 2.1 Consensus size: 71
43619767 TTAGCTCGTA
* * * **
43619777 AGAGCTTACTGTTTTCAGCTTGATAGAGCTTACTGTTTCTGCTCGATAAGGCTTACTGTT-TCAG
1 AGAGCTTACTGTTTTCAGCTCGATAGAGCTGACCGTTTCAACTCGATAAGGCTTACTGTTATCAG
*
43619841 CTCAAT
66 CTCAAG
* * * *
43619847 AGAGCTTACTG-TTTCTGCTCGATAGAGCTGACCGTTTCAACT-TATTAGAGCTTACTGTTATTA
1 AGAGCTTACTGTTTTCAGCTCGATAGAGCTGACCGTTTCAACTCGATAAG-GCTTACTGTTATCA
43619910 GCTCAAG
65 GCTCAAG
43619917 AGGAGCTTA
1 A-GAGCTTA
43619926 TCGATCATGG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
68 4 0.06
69 35 0.53
70 20 0.30
71 7 0.11
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (71 bp):
AGAGCTTACTGTTTTCAGCTCGATAGAGCTGACCGTTTCAACTCGATAAGGCTTACTGTTATCAG
CTCAAG
Found at i:43624521 original size:17 final size:18
Alignment explanation
Indices: 43624479--43624527 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43624469 AGTTGAAAAG
43624479 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43624498 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43624515 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43624528 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43625416 original size:40 final size:40
Alignment explanation
Indices: 43625350--43625516 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43625340 AAATTGAATG
* * *
43625350 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43625389 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43625429 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43625469 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43625509 ATATCCGG
1 ATATCCGG
43625517 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43632534 original size:17 final size:18
Alignment explanation
Indices: 43632492--43632540 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43632482 AGTTGAAAAG
43632492 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43632511 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43632528 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43632541 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43633428 original size:40 final size:40
Alignment explanation
Indices: 43633362--43633528 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43633352 AAATTGAATG
* * *
43633362 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43633401 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43633441 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43633481 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43633521 ATATCCGG
1 ATATCCGG
43633529 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43652045 original size:27 final size:29
Alignment explanation
Indices: 43651946--43652066 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
43651936 GTGACGAGAT
*
43651946 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
43651975 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
43652004 AGGCACTAAGTGTGCATGCTGGAAA-A-A
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * *
43652031 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
43652060 CGGCACT
1 TGGCACT
43652067 GGGTGTGCGA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.27
28 2 0.02
29 58 0.71
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:43652074 original size:56 final size:58
Alignment explanation
Indices: 43651947--43652066 Score: 163
Period size: 56 Copynumber: 2.1 Consensus size: 58
43651937 TGACGAGATT
* * ** *
43651947 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
* *
43652005 GGCACTAAGTGTGCATGCTGGAAA-A-ATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
43652061 GGCACT
1 GGCACT
43652067 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 31 0.56
57 1 0.02
58 23 0.42
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:43659809 original size:29 final size:29
Alignment explanation
Indices: 43659776--43659906 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
43659766 GTGACGAGAT
43659776 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43659805 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
43659834 AGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
43659862 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
43659891 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
43659907 AGCTCGAAGG
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 24 0.27
29 66 0.73
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:43659905 original size:57 final size:58
Alignment explanation
Indices: 43659777--43659897 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 58
43659767 TGACGAGATT
* * ** *
43659777 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
* *
43659835 GGCACTAAGTGTGCATGCTGGAAA-ATATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
43659892 GGCACT
1 GGCACT
43659898 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 33 0.59
58 23 0.41
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:43664659 original size:14 final size:13
Alignment explanation
Indices: 43664636--43664667 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
43664626 GGGATATCAA
43664636 AACAATAATTAAG
1 AACAATAATTAAG
43664649 AACACATAATTAAG
1 AACA-ATAATTAAG
43664663 AACAA
1 AACAA
43664668 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:43668493 original size:29 final size:29
Alignment explanation
Indices: 43668461--43668595 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
43668451 ATACCCTCCG
** * *
43668461 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
43668490 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
43668519 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
43668548 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
43668577 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
43668596 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:43668528 original size:58 final size:58
Alignment explanation
Indices: 43668407--43668596 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
43668397 TACTCGATTT
* * * *** *
43668407 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
43668465 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
43668523 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
43668581 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
43668597 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:43676603 original size:29 final size:29
Alignment explanation
Indices: 43676571--43676705 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
43676561 ATACCCTCCG
** * *
43676571 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
43676600 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
43676629 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
43676658 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
43676687 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
43676706 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:43676638 original size:58 final size:58
Alignment explanation
Indices: 43676517--43676706 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
43676507 TACTCGATTT
* * * *** *
43676517 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
43676575 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
43676633 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
43676691 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
43676707 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:43685495 original size:32 final size:32
Alignment explanation
Indices: 43685454--43685517 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
43685444 TCATATGGGT
*
43685454 TTGATTCTGATATGGGCTAGGCCCAACTGATA
1 TTGATTCTGAGATGGGCTAGGCCCAACTGATA
*
43685486 TTGATTCTGAGATGGGCTAGGCCCAATTGATA
1 TTGATTCTGAGATGGGCTAGGCCCAACTGATA
43685518 CTATGATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (32 bp):
TTGATTCTGAGATGGGCTAGGCCCAACTGATA
Found at i:43689063 original size:13 final size:13
Alignment explanation
Indices: 43689045--43689097 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
43689035 CCTGAGTAGG
*
43689045 GTCACACGGCCAT
1 GTCACACGCCCAT
43689058 GTCACACGCCCAT
1 GTCACACGCCCAT
*
43689071 GTGC-CA-GGCCAT
1 GT-CACACGCCCAT
*
43689083 ATCACACGCCCAT
1 GTCACACGCCCAT
43689096 GT
1 GT
43689098 GCCAAGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 1 0.03
12 8 0.25
13 22 0.69
14 1 0.03
ACGTcount: A:0.23, C:0.40, G:0.21, T:0.17
Consensus pattern (13 bp):
GTCACACGCCCAT
Found at i:43689087 original size:25 final size:25
Alignment explanation
Indices: 43689052--43689101 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
43689042 AGGGTCACAC
*
43689052 GGCCATGTCACACGCCCATGTGCCA
1 GGCCATATCACACGCCCATGTGCCA
43689077 GGCCATATCACACGCCCATGTGCCA
1 GGCCATATCACACGCCCATGTGCCA
43689102 AGAAATGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.40, G:0.22, T:0.16
Consensus pattern (25 bp):
GGCCATATCACACGCCCATGTGCCA
Found at i:43689114 original size:25 final size:25
Alignment explanation
Indices: 43689056--43689114 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
43689046 TCACACGGCC
* **
43689056 ATGTCACACGCCCATGTGCCAGGCC
1 ATGTCACACGCCCATGTGCCAAGAA
*
43689081 ATATCACACGCCCATGTGCCAAGAA
1 ATGTCACACGCCCATGTGCCAAGAA
*
43689106 ATGTAACAC
1 ATGTCACAC
43689115 TCGAAATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.17
Consensus pattern (25 bp):
ATGTCACACGCCCATGTGCCAAGAA
Found at i:43690134 original size:36 final size:37
Alignment explanation
Indices: 43690073--43690176 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 37
43690063 CACTAGATGC
* * *
43690073 TCATAAGAGCTAGTCCATCCAAAACACTCCAAAT-GA
1 TCATAAGAGCTAATCCATCCGAAACACACCAAATGGA
* *
43690109 TCATAAGAGCTAATCCATCTGAAACACACC-AATGGC
1 TCATAAGAGCTAATCCATCCGAAACACACCAAATGGA
** *
43690145 TCCGAAGAGCTAATCCAACCGAAACACACCAA
1 TCATAAGAGCTAATCCATCCGAAACACACCAA
43690177 GATAGAGAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 3 0.05
36 53 0.93
37 1 0.02
ACGTcount: A:0.41, C:0.30, G:0.12, T:0.16
Consensus pattern (37 bp):
TCATAAGAGCTAATCCATCCGAAACACACCAAATGGA
Found at i:43691069 original size:17 final size:17
Alignment explanation
Indices: 43691029--43691076 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
43691019 ATAAATAAAC
43691029 AATTAAA-TAAATTGAA
1 AATTAAATTAAATTGAA
*
43691045 AATAAAATTAAATT-AGA
1 AATTAAATTAAATTGA-A
43691062 AATTAAATTCAAATT
1 AATTAAATT-AAATT
43691077 TTGTAAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.26
17 15 0.56
18 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AATTAAATTAAATTGAA
Found at i:43699347 original size:27 final size:27
Alignment explanation
Indices: 43699306--43699358 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
43699296 AGACCACCTC
43699306 TATATGATAAAATGACTATTTTGCCCT
1 TATATGATAAAATGACTATTTTGCCCT
* *
43699333 TATATGGTAAGATGACTATTTTGCCC
1 TATATGATAAAATGACTATTTTGCCC
43699359 CTATGTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (27 bp):
TATATGATAAAATGACTATTTTGCCCT
Found at i:43702293 original size:23 final size:23
Alignment explanation
Indices: 43702265--43702311 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
43702255 AAGCTGATGG
**
43702265 ACAGTAAACTCTATTGAGCTGAA
1 ACAGTAAACTCTAACGAGCTGAA
*
43702288 ACAGTAAGCTCTAACGAGCTGAA
1 ACAGTAAACTCTAACGAGCTGAA
43702311 A
1 A
43702312 ATAGTAAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (23 bp):
ACAGTAAACTCTAACGAGCTGAA
Found at i:43702328 original size:24 final size:23
Alignment explanation
Indices: 43702280--43702331 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
43702270 AAACTCTATT
*
43702280 GAGCTGAAACAGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTATAAC
* *
43702303 GAGCTGAAAATAGTAAGCTATTAC
1 GAGCTG-AAACAGTAAGCTATAAC
43702327 GAGCT
1 GAGCT
43702332 TAACGGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTATAAC
Found at i:43707028 original size:19 final size:20
Alignment explanation
Indices: 43707000--43707041 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43706990 GCATGTGTCC
*
43707000 TCTATATTTT-GAAAAATTT
1 TCTATATTTTCCAAAAATTT
*
43707019 TCTATGTTTTCCAAAAATTT
1 TCTATATTTTCCAAAAATTT
43707039 TCT
1 TCT
43707042 GAAGTTATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (20 bp):
TCTATATTTTCCAAAAATTT
Found at i:43710443 original size:43 final size:43
Alignment explanation
Indices: 43710320--43710444 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
43710310 GCATGTATTA
*
43710320 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
** * *
43710363 TATTCGGGCCTTAATACCTAGCAGGCTTAGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
43710406 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
43710445 AATGATATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:43712104 original size:48 final size:48
Alignment explanation
Indices: 43712009--43712112 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
43711999 TGTGCTAAGC
* * **
43712009 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
**
43712057 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAACTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAACTAGT
*
43712105 ATAAGACC
1 GTAAGACC
43712113 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
Found at i:43714336 original size:37 final size:37
Alignment explanation
Indices: 43714283--43714404 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
43714273 TATAAAAGAA
*
43714283 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
43714320 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
43714357 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
43714394 GTCTCACCCGG
1 GTCTTACCCGG
43714405 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:43714561 original size:49 final size:49
Alignment explanation
Indices: 43714506--43714867 Score: 607
Period size: 49 Copynumber: 7.4 Consensus size: 49
43714496 TTTTACATTA
43714506 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43714555 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
43714604 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
43714653 GCCGTTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43714702 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43714751 GCCATTAGGCCTTATCACATATACATCCACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
43714800 GCCATTAGGCCTTATAACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43714849 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
43714868 CATATATGTA
Statistics
Matches: 297, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 297 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:43714744 original size:27 final size:27
Alignment explanation
Indices: 43714713--43714797 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
43714703 CCATTAGGCC
43714713 TCATCACATATACATCCACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
** *** *
43714740 TCATCAC--AT-CGGCCA-TTAGGCCT
1 TCATCACATATACATCCACTTTCACAT
43714763 T-ATCACATATACATCCACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
*
43714789 TCACCACAT
1 TCATCACAT
43714798 CGGCCATTAG
Statistics
Matches: 40, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
22 5 0.12
23 5 0.12
24 6 0.15
25 6 0.15
26 5 0.12
27 13 0.32
ACGTcount: A:0.31, C:0.34, G:0.05, T:0.31
Consensus pattern (27 bp):
TCATCACATATACATCCACTTTCACAT
Found at i:43719250 original size:43 final size:43
Alignment explanation
Indices: 43719189--43719356 Score: 284
Period size: 43 Copynumber: 3.9 Consensus size: 43
43719179 GCTGGTATTA
43719189 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
43719232 TATTCGGGCCTTTGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
43719275 TATTCAGGCCTTCGTGCCTAGCAGGCTTCA-TGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTT-AGTGCCGGTGATGTG
* *
43719318 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
43719357 AATGATATGT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
42 1 0.01
43 116 0.98
44 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:43721635 original size:40 final size:40
Alignment explanation
Indices: 43721550--43721700 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
43721540 AATTGAATGA
* * *
43721550 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
43721590 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
43721631 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
43721670 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
43721701 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:43721714 original size:40 final size:40
Alignment explanation
Indices: 43721587--43721716 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
43721577 ATGCTGGAAA
* * * *
43721587 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
43721627 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
43721667 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
43721707 TTATATCCGG
1 TTATATCCGG
43721717 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:43729599 original size:40 final size:40
Alignment explanation
Indices: 43729514--43729664 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
43729504 AATTGAATGA
* * *
43729514 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
43729554 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
43729595 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
43729634 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
43729665 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:43729678 original size:40 final size:40
Alignment explanation
Indices: 43729551--43729680 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
43729541 ATGCTGGAAA
* * * *
43729551 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
43729591 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
43729631 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
43729671 TTATATCCGG
1 TTATATCCGG
43729681 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:43731773 original size:30 final size:31
Alignment explanation
Indices: 43731733--43731795 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
43731723 CCTTTTCATA
43731733 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
43731764 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
43731794 TT
1 TT
43731796 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:43732121 original size:23 final size:24
Alignment explanation
Indices: 43732055--43732136 Score: 148
Period size: 24 Copynumber: 3.5 Consensus size: 24
43732045 GGGGAACTTG
43732055 TAAGCCCTTTTGATAACTGGGGCA
1 TAAGCCCTTTTGATAACTGGGGCA
43732079 TAAGCCCTTTTGATAACTGGGGCA
1 TAAGCCCTTTTGATAACTGGGGCA
*
43732103 TAAGCCC-TTTAATAACTGGGGCA
1 TAAGCCCTTTTGATAACTGGGGCA
43732126 TAAGCCCTTTT
1 TAAGCCCTTTT
43732137 CACTTCCTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
23 22 0.39
24 34 0.61
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAGCCCTTTTGATAACTGGGGCA
Done.